>LPSBIOSNTHSS#Lipopolysaccharide core biosynthesis protein signature. Length = 166 Score = 223 bits (570), Expect = 4e-78 Identities = 81/157 (51%), Positives = 113/157 (71%) Query: 5 AIYPGTFDPITNGHVDLIERAAKLFKHVTIGIAANPSKQPRFTLEERVELVNRVTAHLDN 64 AIYPG+FDPIT GH+D+IER +LF V + + NP+KQP F+++ER+E + + AHL N Sbjct: 3 AIYPGSFDPITFGHLDIIERGCRLFDQVYVAVLRNPNKQPMFSVQERLEQIAKAIAHLPN 62 Query: 65 VEVVGFSGLLVDFAKEQKASVLVRGLRAVSDFEYEFQLANMNRRLSPDLESVFLTPAEEN 124 +V F GL V++A++++A ++RGLR +SDFE E Q+AN N+ L+ DLE+VFLT + E Sbjct: 63 AQVDSFEGLTVNYARQRQAGAILRGLRVLSDFELELQMANTNKTLASDLETVFLTTSTEY 122 Query: 125 SFISSTLVKEVALHGGDVSQFVHPEVTAALAAKLKLV 161 SF+SS+LVKEVA GG+V FV V AAL + V Sbjct: 123 SFLSSSLVKEVARFGGNVEHFVPSHVAAALYDQFHPV 159
>NUCEPIMERASE#Nucleotide sugar epimerase signature. Length = 334 Score = 562 bits (1450), Expect = 0.0 Identities = 232/334 (69%), Positives = 269/334 (80%), Gaps = 1/334 (0%) Query: 1 MKYLVTGAAGFIGAKVSERLCLLGHEVIGIDNLNDYYDVNLKLARLDLLQTLDNFHFIKL 60 MKYLVTGAAGFIG VS+RL GH+V+GIDNLNDYYDV+LK ARL+LL F F K+ Sbjct: 1 MKYLVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLKQARLELLAQ-PGFQFHKI 59 Query: 61 DLADREGIAALFARHAFQRVIHLAAQAGVRYSLDNPLAYADSNLIGHLTILEGCRHHKIE 120 DLADREG+ LFA F+RV + VRYSL+NP AYADSNL G L ILEGCRH+KI+ Sbjct: 60 DLADREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFLNILEGCRHNKIQ 119 Query: 121 HLVYASSSSVYGLNQKMPFSTEDSIDHPISLYAATKKANELMSHTYSHLYQLPTTGLRFF 180 HL+YASSSSVYGLN+KMPFST+DS+DHP+SLYAATKKANELM+HTYSHLY LP TGLRFF Sbjct: 120 HLLYASSSSVYGLNRKMPFSTDDSVDHPVSLYAATKKANELMAHTYSHLYGLPATGLRFF 179 Query: 181 TVYGPWGRPDMALFKFTKAILAGEVIDVYNHGDLSRDFTYIDDIVEGIIRVQAKPPRPNT 240 TVYGPWGRPDMALFKFTKA+L G+ IDVYN+G + RDFTYIDDI E IIR+Q P +T Sbjct: 180 TVYGPWGRPDMALFKFTKAMLEGKSIDVYNYGKMKRDFTYIDDIAEAIIRLQDVIPHADT 239 Query: 241 DWTVEAGTPATSSAPYRVFNIGNGSPVQLLDFITALEDALGIKANKNLLPMQPGDVHSTW 300 WTVE GTPA S APYRV+NIGN SPV+L+D+I ALEDALGI+A KN+LP+QPGDV T Sbjct: 240 QWTVETGTPAASIAPYRVYNIGNSSPVELMDYIQALEDALGIEAKKNMLPLQPGDVLETS 299 Query: 301 ADTSDLFDAVGYKPLMDINTGVAQFVDWYRQFYN 334 ADT L++ +G+ P + GV FV+WYR FY Sbjct: 300 ADTKALYEVIGFTPETTVKDGVKNFVNWYRDFYK 333
>PYOCINKILLER#Pyocin S killer protein signature. Length = 617 Score = 30.9 bits (69), Expect = 0.006 Identities = 21/76 (27%), Positives = 27/76 (35%), Gaps = 10/76 (13%) Query: 192 AIAIFRFNDYA----------AANIPVLPVAEGMTKAKLHIVLYIAVFALVSALLPLAGY 241 AI N YA AA ++ VA+G I IAV V A P Sbjct: 241 QAAIRAANTYAMPANGSVVATAAGRGLIQVAQGAASLAQAISDAIAVLGRVLASAPSVMA 300 Query: 242 TGIAFMAVTCATSLWW 257 G A + + T+ W Sbjct: 301 VGFASLTYSSRTAEQW 316
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 74.9 bits (184), Expect = 7e-18 Identities = 29/124 (23%), Positives = 61/124 (49%), Gaps = 1/124 (0%) Query: 3 VLLVEDNRLLSNNIIQYLELSGIECDYAFNLAQADMLISQQQFDAIILDLNLPDGDGIEA 62 +L+ +D+ + + Q L +G + N A I+ D ++ D+ +PD + + Sbjct: 6 ILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFDL 65 Query: 63 CERWKAQCFTSPIIMLTARSSLNERLAGFAVGADDYLIKPFAMEELVARL-KVVAQRRPA 121 R K P+++++A+++ + GA DYL KPF + EL+ + + +A+ + Sbjct: 66 LPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKRR 125 Query: 122 PQRL 125 P +L Sbjct: 126 PSKL 129
>PF06057#Type IV secretory pathway VirJ component Length = 243 Score = 27.9 bits (62), Expect = 0.023 Identities = 13/56 (23%), Positives = 25/56 (44%), Gaps = 7/56 (12%) Query: 59 ADLQGKW---NLFFIGFTFCPDICPTTLNKLAAAYPELNKIAPIQVVFLSVDPNRD 111 Q ++ + IG++F ++ P LN++ A Y + + V LS + D Sbjct: 108 DKYQAEFGTQKVILIGYSFGAEVIPFVLNEMPARY----RKNVLGAVLLSPSQSSD 159
>SACTRNSFRASE#Streptothricin acetyltransferase signature. Length = 173 Score = 29.1 bits (65), Expect = 0.006 Identities = 11/39 (28%), Positives = 21/39 (53%) Query: 85 NVYVNANHRNKGLGKLLVNAVVEHARAIGLQKIYLFTAD 123 ++ V ++R KG+G L++ +E A+ + L T D Sbjct: 94 DIAVAKDYRKKGVGTALLHKAIEWAKENHFCGLMLETQD 132
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 76.4 bits (188), Expect = 2e-18 Identities = 30/129 (23%), Positives = 61/129 (47%) Query: 2 RLLLIEDDTDLVARLIPALNKAGYTVEHADNGIDGAFLGEEENFEAVILDLGLPGKPGLQ 61 +L+ +DD + L AL++AGY V N + + V+ D+ +P + Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64 Query: 62 VLGQWRQKGLAMPVLILTARDAWHERVDGLKAGADDYLGKPFHIEELLARLEVLIRRHFG 121 +L + ++ +PVL+++A++ + + + GA DYL KPF + EL+ + + Sbjct: 65 LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKR 124 Query: 122 RADNVLQHA 130 R + + Sbjct: 125 RPSKLEDDS 133
>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase signature. Length = 261 Score = 105 bits (263), Expect = 1e-29 Identities = 70/248 (28%), Positives = 115/248 (46%), Gaps = 15/248 (6%) Query: 5 VLVTGSSRGIGKAIALKLAAAGFDIALHYHSNQTAADATAAEVRALGVNASLLKFDVADR 64 +TG+++GIG+A+A LA+ G IA N + + ++A +A DV D Sbjct: 11 AFITGAAQGIGEAVARTLASQGAHIA-AVDYNPEKLEKVVSSLKAEARHAEAFPADVRDS 69 Query: 65 ATVRAAIEADIEANGAYYGVILNAGINRDTAFPAMTESEWDSVIHTNLDGFYNVIHPCVM 124 A + G ++ AG+ R ++++ EW++ N G +N V Sbjct: 70 AAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGVFNASRS-VS 128 Query: 125 PMVQGRKGGRIITLASVSGIAGNRGQVNYSASKAGIIGATKALSLELAKRKITVNCIAPG 184 + R+ G I+T+ S Y++SKA + TK L LELA+ I N ++PG Sbjct: 129 KYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCNIVSPG 188 Query: 185 LIETDM----------VADIPKDMVEQL---VPMRRMGKPSEIAALAAFLMSDDAAYITR 231 ETDM + K +E +P++++ KPS+IA FL+S A +IT Sbjct: 189 STETDMQWSLWADENGAEQVIKGSLETFKTGIPLKKLAKPSDIADAVLFLVSGQAGHITM 248 Query: 232 QVISVNGG 239 + V+GG Sbjct: 249 HNLCVDGG 256
>ACRIFLAVINRP#Acriflavin resistance protein family signature. Length = 1034 Score = 34.4 bits (79), Expect = 0.002 Identities = 26/147 (17%), Positives = 51/147 (34%), Gaps = 21/147 (14%) Query: 682 LLALALGIALLLFSLNFGIKKAAVVVAVPALAALLTLATLGLTGSPLSLFHALALILVFG 741 A+ L ++ L +AVP + L T A L G ++ ++L G Sbjct: 345 FEAIMLVFLVMYLFLQNMRATLIPTIAVP-VVLLGTFAILAAFGYSINTLTMFGMVLAIG 403 Query: 742 IGIDYSL----------------FFASAQQHGKAVMMAVFMSACSTLLAFGLLAFSQTQA 785 + +D ++ + ++ + A+ A F +AF Sbjct: 404 LLVDDAIVVVENVERVMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGST 463 Query: 786 ---IHYFGLTLSLGIGFTFLLSPLILT 809 F +T+ + + L++ LILT Sbjct: 464 GAIYRQFSITIVSAMALSVLVA-LILT 489 Score = 33.3 bits (76), Expect = 0.004 Identities = 20/122 (16%), Positives = 42/122 (34%), Gaps = 17/122 (13%) Query: 676 RLLTLKLLALALGIALLLFSLNFGIKKAAVVVAVPALAALLTLATLGLTGSPLSLFHALA 735 + L ++ + + L L +L V+ V L + L L ++ + Sbjct: 871 QAPALVAISFVV-VFLCLAALYESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVG 929 Query: 736 LILVFGIGIDYSLFFAS-----AQQHGKAVMMAV-----------FMSACSTLLAFGLLA 779 L+ G+ ++ ++ GK V+ A M++ + +L LA Sbjct: 930 LLTTIGLSAKNAILIVEFAKDLMEKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLA 989 Query: 780 FS 781 S Sbjct: 990 IS 991
>SECA#SecA protein signature. Length = 901 Score = 40.6 bits (95), Expect = 2e-05 Identities = 30/84 (35%), Positives = 39/84 (46%), Gaps = 8/84 (9%) Query: 294 MRLVQGDV-----GSGKTLVAAMAA-LQAIENGYQVAMMAPTELLAEQHATNFAAWFEPL 347 M L + + G GKTL A + A L A+ G V ++ + LA++ A N FE L Sbjct: 92 MVLNERCIAEMRTGEGKTLTATLPAYLNALT-GKGVHVVTVNDYLAQRDAENNRPLFEFL 150 Query: 348 GLKVGW-LAGKLKGKARTQSLADI 370 GL VG L G R ADI Sbjct: 151 GLTVGINLPGMPAPAKREAYAADI 174
>OMPADOMAIN#OMPA domain signature. Length = 346 Score = 83.4 bits (206), Expect = 1e-19 Identities = 39/118 (33%), Positives = 63/118 (53%), Gaps = 12/118 (10%) Query: 374 LFDYDSERMLPESKPVLEVLATYLKQN--PALSFYVVGHTDDKGERSYNQSLSERRAAAV 431 LF+++ + PE + L+ L + L S V+G+TD G +YNQ LSERRA +V Sbjct: 222 LFNFNKATLKPEGQAALDQLYSQLSNLDPKDGSVVVLGYTDRIGSDAYNQGLSERRAQSV 281 Query: 432 IKQLNETFNIPSVQLTAHGNGEYSPVASNANDTGQRL---------NRRVELVLRSDK 480 + L + IP+ +++A G GE +PV N D ++ +RRVE+ ++ K Sbjct: 282 VDYL-ISKGIPADKISARGMGESNPVTGNTCDNVKQRAALIDCLAPDRRVEIEVKGIK 338
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 48.5 bits (115), Expect = 2e-09 Identities = 25/169 (14%), Positives = 62/169 (36%), Gaps = 5/169 (2%) Query: 9 RREHILQCLAQMLETSPGQRITTAKLASEVGVSEAALYRHFPSKARMFEGLIEFIEESLL 68 R+HIL ++ + ++A GV+ A+Y HF K+ +F + E E ++ Sbjct: 12 TRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWELSESNIG 71 Query: 69 SRINIIMDDEKDTM-----KRCQLMLQLLLIFAERNPGISRVLNGDALLGENERLRSRIS 123 + +L+ + R + + + +GE ++ Sbjct: 72 ELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFVGEMAVVQQAQR 131 Query: 124 SLFAKIETQLKQILREKTLREGRGFNLDEAILANLLLAFAEGRIAQFVR 172 +L + +++Q L+ + +L A ++ + G + ++ Sbjct: 132 NLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYISGLMENWLF 180
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 35.6 bits (82), Expect = 3e-04 Identities = 11/52 (21%), Positives = 19/52 (36%), Gaps = 1/52 (1%) Query: 168 ATLHQTIPAYGTLALPVESQRAIAARFEGEITQLYVGLGDRVKKGQPLLTIE 219 + A G L + I + ++ V G+ V+KG LL + Sbjct: 78 GQVEIVATANGKLT-HSGRSKEIKPIENSIVKEIIVKEGESVRKGDVLLKLT 128
>ACRIFLAVINRP#Acriflavin resistance protein family signature. Length = 1034 Score = 743 bits (1919), Expect = 0.0 Identities = 233/1053 (22%), Positives = 432/1053 (41%), Gaps = 51/1053 (4%) Query: 5 ILRISIKRKFLVLVMVLALAGLGIWNFTKLPIDAVPDITNVQVMINTEAPGYTPLEIEQR 64 + I+R V+ + L G +LP+ P I V ++ PG ++ Sbjct: 1 MANFFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDT 60 Query: 65 VTFPLETALAGLPGLTYTRSVS-RYGLSQVVAIFSDDTDVYFARQLVNERLSAARAELPV 123 VT +E + G+ L Y S S G + F TD A+ V +L A LP Sbjct: 61 VTQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQ 120 Query: 124 GLEPQLGPIATGLGEIFMFTVDALPDATHADGSPITPMDLRTVHDWTIRPQLMRVPGVVE 183 ++ Q + M +D T D+ ++ L R+ GV + Sbjct: 121 EVQQQGISVEKSSSSYLMVA------GFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGD 174 Query: 184 VNPIGGFEREILVAFKPEKLLAFGLTQADVVDAIAKNNQNQGAGFI------EQNGAQWL 237 V G + + + + L + LT DV++ + N AG + Sbjct: 175 VQLFGA-QYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNAS 233 Query: 238 LRMPGQAEDMATIGNIPLK-SANGSALTIKDVAEIENGQGLRNGAATQNGREVVMSTVFM 296 + + ++ G + L+ +++GS + +KDVA +E G N A NG+ + + Sbjct: 234 IIAQTRFKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKL 293 Query: 297 LIGENSRTVAHAVGEKLTEINATLPEGIVATAVYDRTTLVDKTLQTVQTNLLEGAILVIV 356 G N+ A A+ KL E+ P+G+ YD T V ++ V L E +LV + Sbjct: 294 ATGANALDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFL 353 Query: 357 VLFVLLGNFRAAFLTALVIPFAMLMTITGMVQTRVSANLMSLG--ALDFGLLVDGAIIIV 414 V+++ L N RA + + +P +L T + S N +++ L GLLVD AI++V Sbjct: 354 VMYLFLQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVV 413 Query: 415 ENCLRRLSQAGDDPLPLKERLELVFEATREVIRPALFGVFIITAVYLPIFALEGVEGKMF 474 EN R + + P E ++ ++ + +++AV++P+ G G ++ Sbjct: 414 ENVERVMMEDKLPP------KEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIY 467 Query: 475 HPMAITVVIALLSAMLLSVTFVPAMVALLFKKPVKEKHSPLIRG-----------AVFLY 523 +IT+V A+ ++L+++ PA+ A L KPV +H G +V Y Sbjct: 468 RQFSITIVSAMALSVLVALILTPALCATLL-KPVSAEHHENKGGFFGWFNTTFDHSVNHY 526 Query: 524 RPALSWVIKGRWMVVIAATLLVAIFGYQATKLGSEFAPNLDEGDIAMHALRIPGTSLSQA 583 ++ ++ ++ L+VA +L S F P D+G G + + Sbjct: 527 TNSVGKILGSTGRYLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERT 586 Query: 584 IALQETLEDKI--KQMPEVERVFAKIGTADVATDAVPPSVADNFIILKPREQWPNPNKSK 641 + + + D + VE VF G + + F+ LKP E+ S Sbjct: 587 QKVLDQVTDYYLKNEKANVESVFTVNG---FSFSGQAQNAGMAFVSLKPWEERNGDENSA 643 Query: 642 AQIVEELAALVAPIPGNRYEFLQPIQM-RFNELLAGVRAELA-IKVFGDDFDTLTALGAE 699 ++ + I F+ P M EL + I G D LT + Sbjct: 644 EAVIHRAKMELGKIRDG---FVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQ 700 Query: 700 IESAIAQV-EGVADIQVEQSTGLTMLNIIPNRQKLMQHGISIMEVQSQVATAMGGTVAGK 758 + AQ + ++ + +++K G+S+ ++ ++TA+GGT Sbjct: 701 LLGMAAQHPASLVSVRPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVND 760 Query: 759 FYQGDVRSDIVVRLDESRRQNIDALSYLPITLPGGQSIPLQELASLELVSGANQINRENG 818 F + V+ D R + + L + G+ +P + V G+ ++ R NG Sbjct: 761 FIDRGRVKKLYVQADAKFRMLPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNG 820 Query: 819 KRRMVVTANVR-GRDLGSFVADIQTVIGEKVAIPAGYWLEYGGTYQKLQSASKRLSIVVP 877 M + G G +A ++ + +PAG ++ G + + + + +V Sbjct: 821 LPSMEIQGEAAPGTSSGDAMALMENL---ASKLPAGIGYDWTGMSYQERLSGNQAPALVA 877 Query: 878 VTLLMIIGLLMLALNSFKDAMIIFTGVPLALTGGIAALLLRDIPFSISAAVGFIALSGIA 937 ++ +++ L S+ + + VPL + G + A L + + VG + G++ Sbjct: 878 ISFVVVFLCLAALYESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLS 937 Query: 938 ILNGLVMVSFIRQL-RKEGMGLDSAIFEGALTRLRPVITTALVASLGFIPMALNTGIGSE 996 N +++V F + L KEG G+ A RLRP++ T+L LG +P+A++ G GS Sbjct: 938 AKNAILIVEFAKDLMEKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSG 997 Query: 997 VQRPLATVVIGGIISSTLLTLFLIPALYRILHK 1029 Q + V+GG++S+TLL +F +P + ++ + Sbjct: 998 AQNAVGIGVMGGMVSATLLAIFFVPVFFVVIRR 1030 Score = 91.4 bits (227), Expect = 9e-21 Identities = 86/521 (16%), Positives = 170/521 (32%), Gaps = 33/521 (6%) Query: 3 ESILRISIKRKFLVLVMVLALAGLGIWNFTKLPIDAVPDITNVQVMINTEAPGYTPLEIE 62 + + + L++ + + F +LP +P+ + + P E Sbjct: 527 TNSVGKILGSTGRYLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERT 586 Query: 63 QRVTFPLETALAGLPGLTYTRSVSRYGLSQVVAIFSDDTDVYFARQLVNERLSA--ARAE 120 Q+V + + G S + + + + ER + Sbjct: 587 QKVLDQVTDYYLKNEKANVESVFTVNGFS-FSGQAQNAGMAFVSLKPWEERNGDENSAEA 645 Query: 121 LPVGLEPQLGPIATGLGEIF-MFTVDALPDATHADGSPITPMDLR-TVHDW--TIRPQLM 176 + + +LG I G F M + L AT G +D HD R QL+ Sbjct: 646 VIHRAKMELGKIRDGFVIPFNMPAIVELGTAT---GFDFELIDQAGLGHDALTQARNQLL 702 Query: 177 R-----VPGVVEVNPIGGFER-EILVAFKPEKLLAFGLTQADVVDAIAKNNQNQGAGFIE 230 +V V P G + + + EK A G++ +D+ I+ Sbjct: 703 GMAAQHPASLVSVRPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFI 762 Query: 231 QNGAQWLLRMPGQAE---DMATIGNIPLKSANGSALTIKDVAEIENGQGLRNGAATQNGR 287 G L + A+ + + ++SANG + G + + R Sbjct: 763 DRGRVKKLYVQADAKFRMLPEDVDKLYVRSANGEMVPFSAFTTSHWVYG-----SPRLER 817 Query: 288 EVVMSTVFMLIGENSRTVAHAVGEKLTEINATLPEGIVATAVYDRTTLVDKTLQTVQTNL 347 + ++ + T + + + + LP G + + + + Sbjct: 818 YNGLPSMEIQGEAAPGTSSGDAMALMENLASKLPAG-IGYDWTGMSYQERLSGNQAPALV 876 Query: 348 LEGAILVIVVLFVLLGNFRAAFLTALVIPFAMLMTITGMVQTRVSANLMSLGAL--DFGL 405 ++V + L L ++ LV+P ++ + ++ + L GL Sbjct: 877 AISFVVVFLCLAALYESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGL 936 Query: 406 LVDGAIIIVENCLRRLSQAGDDPLPLKERLELVFEATREVIRPALFGVFIITAVYLPIFA 465 AI+IVE + + G K +E A R +RP L LP+ Sbjct: 937 SAKNAILIVEFAKDLMEKEG------KGVVEATLMAVRMRLRPILMTSLAFILGVLPLAI 990 Query: 466 LEGVEGKMFHPMAITVVIALLSAMLLSVTFVPAMVALLFKK 506 G + + I V+ ++SA LL++ FVP ++ + Sbjct: 991 SNGAGSGAQNAVGIGVMGGMVSATLLAIFFVPVFFVVIRRC 1031 Score = 78.3 bits (193), Expect = 1e-16 Identities = 71/349 (20%), Positives = 137/349 (39%), Gaps = 23/349 (6%) Query: 700 IESAIAQVEGVADIQVEQSTGLTMLNIIPNRQKLMQHGISIMEVQSQVATAMGGTVAGKF 759 ++ ++++ GV D+Q+ + I + L ++ ++ ++V +Q+ AG+ Sbjct: 162 VKDTLSRLNGVGDVQL--FGAQYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQL 219 Query: 760 YQGDVRSDIVVRLD---ESRRQNIDALSYLPI-TLPGGQSIPLQELASLEL-VSGANQIN 814 + ++R +N + + + G + L+++A +EL N I Sbjct: 220 GGTPALPGQQLNASIIAQTRFKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIA 279 Query: 815 RENGKRRMVVTANVRGRDLGSFVADIQTVIGEKVA-----IPAGYWLEYGGTYQKLQSAS 869 R NGK + + G+ D I K+A P G ++ Y Sbjct: 280 RINGKPAAGLGIKLAT---GANALDTAKAIKAKLAELQPFFPQG--MKVLYPYDTTPFVQ 334 Query: 870 KRLSIVVPVTLLMIIGL----LMLALNSFKDAMIIFTGVPLALTGGIAALLLRDIPFSIS 925 + VV TL I L + L L + + +I VP+ L G A L + Sbjct: 335 LSIHEVV-KTLFEAIMLVFLVMYLFLQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTL 393 Query: 926 AAVGFIALSGIAILNGLVMVSFI-RQLRKEGMGLDSAIFEGALTRLRPVITTALVASLGF 984 G + G+ + + +V+V + R + ++ + A + ++ A+V S F Sbjct: 394 TMFGMVLAIGLLVDDAIVVVENVERVMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVF 453 Query: 985 IPMALNTGIGSEVQRPLATVVIGGIISSTLLTLFLIPALYRILHKEKES 1033 IPMA G + R + ++ + S L+ L L PAL L K + Sbjct: 454 IPMAFFGGSTGAIYRQFSITIVSAMALSVLVALILTPALCATLLKPVSA 502
>PF01540#Adhesin lipoprotein Length = 475 Score = 30.1 bits (67), Expect = 0.025 Identities = 49/233 (21%), Positives = 94/233 (40%), Gaps = 29/233 (12%) Query: 189 ILSAIQSIKTFLSNYDNKLKSFNGIIKD--DKILSTINSTQKELRKLERSLLLSENNIDK 246 +LS ++S K F +++ K+ S +K K L+ I + E L+E N Sbjct: 194 LLSELESFKEFNTSWLEKIVSEWEEVKKAWSKELAEIKA--------EDDKKLAEENQKI 245 Query: 247 LAIIGEINHIDNEQNKLSNQILSLDLKVNNIKKTQKLLESNKNHQLLSELETIYGYASVK 306 E+ + + ++ I L + +++ ++ E K QL+S +E + K Sbjct: 246 KEGAKELLKLSEKIQSFADTI---ALTITKLERKFQIDEKFKK-QLISTIELL-----NK 296 Query: 307 LGAVINDYDNVLKFHNYLV----ETKTEFVTDGLDKLEDQLLDN------TLKLKALEQN 356 + + V + E+ EF T L+K+ + + L E + Sbjct: 297 KSVEVKTFATVNTIKKDFLLSELESFKEFNTSWLEKIVSEWEEVKKAWSKELAEIKAEDD 356 Query: 357 KSSLYHELKSKKKIEEISESVKTIGELNKTLIELNAIVEKKNSIEDRLKKETE 409 K K K +EE+ + EL+KT+ + A +EKK I+ K++ + Sbjct: 357 KKLAEENQKIKNGVEELKKINNEAFELSKTVNKTIAELEKKFKIDVSFKEQLK 409
>CARBMTKINASE#Bacterial carbamate kinase signature. Length = 314 Score = 34.4 bits (79), Expect = 8e-04 Identities = 17/70 (24%), Positives = 29/70 (41%), Gaps = 11/70 (15%) Query: 22 GKTFVVMLGGEAL--------AQNQFRAI---LNDVALLHSLGIKVVLVYGARPQIDAAL 70 GK V+ LGG AL + + +A + + G +VV+ +G PQ+ + L Sbjct: 2 GKRVVIALGGNALQQRGQKGSYEEMMDNVRKTARQIAEIIARGYEVVITHGNGPQVGSLL 61 Query: 71 AANGIAPAYH 80 A + Sbjct: 62 LHMDAGQATY 71
>SECFTRNLCASE#Bacterial translocase SecF protein signature. Length = 333 Score = 30.2 bits (68), Expect = 0.010 Identities = 13/67 (19%), Positives = 29/67 (43%), Gaps = 7/67 (10%) Query: 121 LGERLRKLQWFAVALASAGVLIQLI-----SFGSIPIVSLA--LAGTFGFYALLRKKVNV 173 + L +++ A+ ++ + F +V+L + T G +A+L+ K ++ Sbjct: 147 VSGELVWTAVWSLLAATVVIMFYIWVRFEWQFALGAVVALVHDVLLTVGLFAVLQLKFDL 206 Query: 174 DAKAGLL 180 A LL Sbjct: 207 TTVAALL 213
>PREPILNPTASE#Type IV prepilin cysteine protease (C20) family signature. Length = 290 Score = 343 bits (881), Expect = e-121 Identities = 170/304 (55%), Positives = 204/304 (67%), Gaps = 15/304 (4%) Query: 5 ITLLGQSFEQSPWLFVTLSFIFAATIGSFLNVVIHRLPIMMKREWQQECNQYLQEYHADI 64 + LL + PWL+ +L F+F+ IGSFLNVVIHRLPIM++REWQ E Y Sbjct: 1 MALLLELAHGLPWLYFSLVFLFSLMIGSFLNVVIHRLPIMLEREWQAEYRSYFNPD---- 56 Query: 65 VNQVGIDRLNKPIDSYPEKYNIVVPGSACPQCKTAIKPWHNLPVLGWLILRGKCAACHAP 124 YN++VP S CP C I N+P+L WL LRG+C C AP Sbjct: 57 -----------DEGVDEPPYNLMVPRSCCPHCNHPITALENIPLLSWLWLRGRCRGCQAP 105 Query: 125 ISTRYPIIELITGLLIAALAWHFGPSWQFVFASLLTFVLIALTGIDLDEMLLPDQLTLPL 184 IS RYP++EL+T LL A+A P W + A LLT+VL+ALT IDLD+MLLPDQLTLPL Sbjct: 106 ISARYPLVELLTALLSVAVAMTLAPGWGTLAALLLTWVLVALTFIDLDKMLLPDQLTLPL 165 Query: 185 LWLGLLLNLHHTFASPTDAIIGAATGYLSLWSIFWVFKLLTGKEGMGYGDFKLLAVFGAW 244 LW GLL NL F S DA+IGA GYL LWS++W FKLLTGKEGMGYGDFKLLA GAW Sbjct: 166 LWGGLLFNLLGGFVSLGDAVIGAMAGYLVLWSLYWAFKLLTGKEGMGYGDFKLLAALGAW 225 Query: 245 LGWQMLPLVILLSSLVGAVVGIGMIISKRNQMDNPIPFGPYIAAAGWIALVWGNPIIDWY 304 LGWQ LP+V+LLSSLVGA +GIG+I+ + + PIPFGPY+A AGWIAL+WG+ I WY Sbjct: 226 LGWQALPIVLLLSSLVGAFMGIGLILLRNHHQSKPIPFGPYLAIAGWIALLWGDSITRWY 285 Query: 305 LGTL 308 L Sbjct: 286 LTNF 289
>BCTERIALGSPF#Bacterial general secretion pathway protein F signature. Length = 408 Score = 393 bits (1012), Expect = e-137 Identities = 118/405 (29%), Positives = 209/405 (51%), Gaps = 10/405 (2%) Query: 25 TFEWKGTNRDGKKTGGELKGATVAEVKSQLKSQGVNPKVVRKK---------ASPFFARN 75 + ++ + GKK G + + + + L+ +G+ P V + R Sbjct: 3 QYHYQALDAQGKKCRGTQEADSARQARQLLRERGLVPLSVDENRGDQQKSGSTGLSLRRK 62 Query: 76 PDIKPMDIAMATRQIATMLAAGVPLVTTIEILGRGHEKLKMRDLLGTILSEIQSGIPLSD 135 + D+A+ TRQ+AT++AA +PL ++ + + EK + L+ + S++ G L+D Sbjct: 63 IRLSTSDLALLTRQLATLVAASMPLEEALDAVAKQSEKPHLSQLMAAVRSKVMEGHSLAD 122 Query: 136 ALRPHRRYFDDLYVDLVAAGEHSGSLDAVFDRIATYREKAEQLKSKIKKAMFYPAAVVVV 195 A++ F+ LY +VAAGE SG LDAV +R+A Y E+ +Q++S+I++AM YP + VV Sbjct: 123 AMKCFPGSFERLYCAMVAAGETSGHLDAVLNRLADYTEQRQQMRSRIQQAMIYPCVLTVV 182 Query: 196 AILVTTLLLLFVVPQFEDIFKGFGAELPAFTQMIIGISRWLQSSWYLFFIAITVGIWLFV 255 AI V ++LL VVP+ + F LP T++++G+S +++ +A+ G F Sbjct: 183 AIAVVSILLSVVVPKVVEQFIHMKQALPLSTRVLMGMSDAVRTFGPWMLLALLAGFMAF- 241 Query: 256 RAHRNSQMVRDRVDEFVLKIPVIGEILHKAAMARFSRTLATTFAAGVPLIDGMESAAGAS 315 R + R +L +P+IG I AR++RTL+ A+ VPL+ M + Sbjct: 242 RVMLRQEKRRVSFHRRLLHLPLIGRIARGLNTARYARTLSILNASAVPLLQAMRISGDVM 301 Query: 316 GNAVYRKALLKVRQEVMAGMQMNVAMRTTGLFPDMLIQMVMIGEESGSLDNMLNKVANIY 375 N R L V G+ ++ A+ T LFP M+ M+ GE SG LD+ML + A+ Sbjct: 302 SNDYARHRLSLATDAVREGVSLHKALEQTALFPPMMRHMIASGERSGELDSMLERAADNQ 361 Query: 376 EMQVDDAVDGLSSLIEPIMMVVIGTLVGGLIVGMYLPIFQMGNVV 420 + + + L EP+++V + +V +++ + PI Q+ ++ Sbjct: 362 DREFSSQMTLALGLFEPLLVVSMAAVVLFIVLAILQPILQLNTLM 406
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 47.2 bits (112), Expect = 1e-09 Identities = 18/52 (34%), Positives = 33/52 (63%) Query: 13 KAKGFTLIELMIVVAIIGILAAIALPAYQSYVNKAKFSEVIAATGSAKTAID 64 K +GFTL+E+M+V+ IIG+LA++ +P KA + ++ + + A+D Sbjct: 6 KQRGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQKAVSDIVALENALD 57
>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase signature. Length = 261 Score = 78.6 bits (193), Expect = 2e-19 Identities = 52/184 (28%), Positives = 80/184 (43%), Gaps = 2/184 (1%) Query: 3 GLTGKVVIITGASEGIGRALAVALARVGCQLVLSARNEIRLASLALDIANYGPAPFVFAA 62 G+ GK+ ITGA++GIG A+A LA G + N +L + + F A Sbjct: 5 GIEGKIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAFPA 64 Query: 63 DVASQEQCEALITASIAHYGHLDILINNAGMTMWSRFDELTQLSVLEDIMRVNYLGPVYL 122 DV + + G +DIL+N AG+ L+ E VN G Sbjct: 65 DVRDSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEW-EATFSVNSTGVFNA 123 Query: 123 THAALPYLKSRQ-GQIVVVASLAGLTGVPTRSGYAASKHAVIGFFDSLRIELADDNVAVT 181 + + Y+ R+ G IV V S + + YA+SK A + F L +ELA+ N+ Sbjct: 124 SRSVSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCN 183 Query: 182 VICP 185 ++ P Sbjct: 184 IVSP 187
>TCRTETA#Tetracycline resistance protein signature. Length = 399 Score = 33.6 bits (77), Expect = 0.001 Identities = 62/355 (17%), Positives = 132/355 (37%), Gaps = 27/355 (7%) Query: 13 NSLFVPVAGLSLFALASGYLMSLIPLSLTFFELNTSLAP---LLASIFYLGLLLGAPCIA 69 L V ++ ++L A+ G +M ++P L + + +L +++ L AP + Sbjct: 5 RPLIVILSTVALDAVGIGLIMPVLPGLLRDLVHSNDVTAHYGILLALYALMQFACAPVLG 64 Query: 70 PIVARIGHSKAFILFLNILLCSVVAMILIPQSGVWL--ASRLVAGFAVAGVFVVVESWLL 127 + R G + +L +++ +V I+ +W+ R+VAG A V +++ Sbjct: 65 ALSDRFG--RRPVLLVSLAGAAVDYAIMATAPFLWVLYIGRIVAGITGA-TGAVAGAYIA 121 Query: 128 MADTQKQRAKRLGLYMTALYG-GTAIGQLAIDYLGTAGNLPYLVIMGLLAAASLPALLVK 186 +RA+ G +M+A +G G G + +G L + Sbjct: 122 DITDGDERARHFG-FMSACFGFGMVAGPVLGGLMGGFSPHAPFFAAAALNGLNFLTGCFL 180 Query: 187 RGQPIASEQQSMSLSGLRNLSQPAIVGCLVSGLLLGPIYGLLPIYVAIDMAL------DR 240 + E++ + L L+ + L ++ ++ + + AL DR Sbjct: 181 LPESHKGERRPLRREALNPLASFRWARGMTVVAALMAVFFIMQLVGQVPAALWVIFGEDR 240 Query: 241 ------QTGLFMALIILGGMLVQPLVS-YLSPRVNKSGLIM-GFCLLGTAALFLLTQYSN 292 G+ +A + L Q +++ ++ R+ + +M G GT + L Sbjct: 241 FHWDATTIGISLAAFGILHSLAQAMITGPVAARLGERRALMLGMIADGTGYILLAFATRG 300 Query: 293 MSLIIGFLLLGASAFALYPIAISLACDDLPASQIVSATQVMLLSY-SIGSVIGPL 346 +LL + + A+ + Q L + S+ S++GPL Sbjct: 301 WMAFPIMVLLASGGIGM--PALQAMLSRQVDEERQGQLQGSLAALTSLTSIVGPL 353
>adhesinmafb#Neisseria meningitidis: adhesin MafB signature. Length = 467 Score = 28.1 bits (62), Expect = 0.010 Identities = 18/117 (15%), Positives = 34/117 (29%), Gaps = 5/117 (4%) Query: 9 AGTLWAQVPTDNFTLAWNHSIEKIRWE---EDYNVTPQGLV-LVEARVKGTGAGMEIPDD 64 G+ ++ + + H+ + RW E N G + + + G G +I Sbjct: 196 LGSNFSDRADEANRKMFEHNAKLDRWGNSMEFINGVAAGALNPFISAGEALGIG-DILYG 254 Query: 65 AYLKNGSWHYHPTLPILPTLRLGRIPEAGDYDICIESQCNAMSHWIGAPTKEEAMVE 121 P+ + I G ++ A+ WI VE Sbjct: 255 TRYAIDKAAMRNIAPLPAEGKFAVIGGLGSVAGFEKNTREAVDRWIQENPNAAETVE 311
>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase signature. Length = 261 Score = 52.4 bits (125), Expect = 2e-10 Identities = 42/183 (22%), Positives = 78/183 (42%), Gaps = 5/183 (2%) Query: 2 ILITGASSGLGAALAALYAKENEPLTLTGRNAERLHTVANALTPFSNRPIAAVAANLADV 61 ITGA+ G+G A+A A + + N E+L V ++L + A A++ D Sbjct: 11 AFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHA-EAFPADVRDS 69 Query: 62 QSVNSLFDSL---TAIPKTVIHCAGSGYFGPIETQDVNAIQALLNNNITSTILLVRELIK 118 +++ + + +++ AG G I + +A + N T R + K Sbjct: 70 AAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGVFNASRSVSK 129 Query: 119 RYKDQ-AITLVIVMSTAALAAKAGESTYCAAKWAVRGFIESVRLELKHSPMKLIAVYPGG 177 D+ + ++V V S A + + Y ++K A F + + LEL ++ V PG Sbjct: 130 YMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCNIVSPGS 189 Query: 178 MDT 180 +T Sbjct: 190 TET 192
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 30.2 bits (68), Expect = 0.018 Identities = 21/177 (11%), Positives = 56/177 (31%), Gaps = 15/177 (8%) Query: 84 DTAHVNFGQWLPEL-LTQFN-QLPEVQAQLVRQQQAKLAIQAADRAVYNPELGLNYQNAD 141 + V G L +L + Q+ L++ + + Q R++ L Sbjct: 114 EGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSI--ELNKLPELKLP 171 Query: 142 TDAYSLGLSQTLDWGDKRGVATKRAELEAQILLADIGLERSQMLAERLLALAEQAQSRKA 201 + Y +S+ + + + + Q ++ L++ + AE+ Sbjct: 172 DEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKR---------AERLTVLAR 222 Query: 202 LTFAEQQLRFTKAQLNIAEQRLAAGDLSNVELQLIQLEVASNTADYALAEQVALVAD 258 + E R K++L+ L ++ + + + + L + + Sbjct: 223 INRYENLSRVEKSRLDDFSSLLHKQAIAKHAVLEQENKYVEAVNE--LRVYKSQLEQ 277
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 54.8 bits (132), Expect = 3e-10 Identities = 36/182 (19%), Positives = 65/182 (35%), Gaps = 22/182 (12%) Query: 109 RATATLVVDRDRTATLAPQLDVRVLARHVVPGQEVKKGEPLLTLGGAAVAQAQADYINAA 168 R V++ R + L + +A+H V QE + +N Sbjct: 225 RYENLSRVEKSRLDDFSSLLHKQAIAKHAVLEQE----------------NKYVEAVNEL 268 Query: 169 AEWSRVKRMSEGAVSVSRRMQAQVDAELKRAILEAIKMTPAQIRALE----STPEAIGSY 224 + E + ++ V K IL+ ++ T I L E + Sbjct: 269 RVYKSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDNIGLLTLELAKNEERQQAS 328 Query: 225 QLLAPIDGRVQQ-DIAMLGQVFSAGTPLMQLT-DESYLWVEAQLTPTQTTHIQVGSSALV 282 + AP+ +VQQ + G V + LM + ++ L V A + I VG +A++ Sbjct: 329 VIRAPVSVKVQQLKVHTEGGVVTTAETLMVIVPEDDTLEVTALVQNKDIGFINVGQNAII 388 Query: 283 QV 284 +V Sbjct: 389 KV 390 Score = 39.8 bits (93), Expect = 2e-05 Identities = 25/148 (16%), Positives = 53/148 (35%), Gaps = 5/148 (3%) Query: 101 IANLNLDIRATATLVVDRDRTATLAPQLDVRVLARHVVPGQEVKKGEPLLTLGG----AA 156 + + + A L R+ + P + V V G+ V+KG+ LL L A Sbjct: 77 LGQVEIVATANGKLTHS-GRSKEIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEAD 135 Query: 157 VAQAQADYINAAAEWSRVKRMSEGAVSVSRRMQAQVDAELKRAILEAIKMTPAQIRALES 216 + Q+ + A E +R + +S D + + E + + + Sbjct: 136 TLKTQSSLLQARLEQTRYQILSRSIELNKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQF 195 Query: 217 TPEAIGSYQLLAPIDGRVQQDIAMLGQV 244 + YQ +D + + + +L ++ Sbjct: 196 STWQNQKYQKELNLDKKRAERLTVLARI 223
>ACRIFLAVINRP#Acriflavin resistance protein family signature. Length = 1034 Score = 653 bits (1686), Expect = 0.0 Identities = 224/1072 (20%), Positives = 431/1072 (40%), Gaps = 67/1072 (6%) Query: 9 AIKNRLLVVLALLAVIVGCVAMLPKLNLDAFPDVTNVQVTINTAAEGLAAEEVEKLISYP 68 I+ + + + +++ + +L + +P + V+++ G A+ V+ ++ Sbjct: 5 FIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDTVTQV 64 Query: 69 VESAMYALPAVIEVRSLS-RTGLSIVTVVFAEGTDIYFARQQVFEQLQAAREMIPSGVGV 127 +E M + ++ + S S G +T+ F GTD A+ QV +LQ A ++P V Sbjct: 65 IEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQEVQQ 124 Query: 128 PEIGPNTSGLGQIYQYILRAEPNSGINAAELRSLNDYLVKLILMPVGGVTEVLSFGGYVR 187 I S + ++ N G ++ VK L + GV +V FG Sbjct: 125 QGISVEKSSSSYLMVAGFVSD-NPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFGAQ-Y 182 Query: 188 QYQVQVEPNKLRAYGLSMAQVTEALESNNRNAGGWFMDQGQEQLVVRGYGMLPAGDVGLA 247 ++ ++ + L Y L+ V L+ N + G L + Sbjct: 183 AMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLG-GTPALPGQQLNASIIAQTRFK 241 Query: 248 AIAQ----IPLTEASGTPVRIGDIAQVDFGSEIRVGAVTMTRRDEAGQVQNLGEVVAGVV 303 + + G+ VR+ D+A+V+ G E + N + Sbjct: 242 NPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARI----------NGKPAAGLGI 291 Query: 304 LKRMGANTKATIDDIGARVSLIEQALPDGVSFEVFYDQADLVDKAVTTVRDALLMAFVFI 363 GAN T I A+++ ++ P G+ YD V ++ V L A + + Sbjct: 292 KLATGANALDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLV 351 Query: 364 VVILALFLVNMRATLLVLLSIPVSIGLALMVMSYYGLSANLMSLGGLAVAIGMLVDGSVV 423 +++ LFL NMRATL+ +++PV + +++ +G S N +++ G+ +AIG+LVD ++V Sbjct: 352 FLVMYLFLQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIV 411 Query: 424 MVENIFKHLTQPDRRHLQEARTRADGEIDPYHSDEDGGQQANMAVRIMLAAKEVCSPIFF 483 +VEN+ + + ED + M ++ + Sbjct: 412 VVENVERVMM------------------------EDKLPPKEATEKSM---SQIQGALVG 444 Query: 484 ATAIIIVVFAPLFALEGVEGKLFQPMAVSIILAMISALLVALIAVPALAVYLFK------ 537 ++ VF P+ G G +++ +++I+ AM ++LVALI PAL L K Sbjct: 445 IAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMALSVLVALILTPALCATLLKPVSAEH 504 Query: 538 ----RGVLLKQSVILAPLDAAYRKLLTATLARPKVVMLSALVMFGLSLLLLPRLGTEFVP 593 G + Y + L +L ++ ++L RL + F+P Sbjct: 505 HENKGGFFGWFNTTFDHSVNHYTNSVGKILGSTGRYLLIYALIVAGMVVLFLRLPSSFLP 564 Query: 594 ELEEGTINLRVTLAPTASLGTSLQVAPKLEAILLEFPEVEYALSRIGAPELGGDPEPVSN 653 E ++G + L A+ + +V ++ L+ + S + + Sbjct: 565 EEDQGVFLTMIQLPAGATQERTQKVLDQVTDYYLKNEKANVE-SVFTVNGFSFSGQAQNA 623 Query: 654 IEVYIGLKPIAEWQSASSRLE--LQRLMEEKLSVFPGLLLTFSQPIATRVDELLSGVKAQ 711 ++ LKP E + E + R E + G ++ F+ P + EL + Sbjct: 624 GMAFVSLKPWEERNGDENSAEAVIHRAKMELGKIRDGFVIPFNMP---AIVELGTATGFD 680 Query: 712 LA-IKIFGPDLAVLSQKGQALTDLVTKIPGAV-DVSLEQVSGEAQLVVRPKRELLARYGI 769 I G L+Q L + + P ++ V + AQ + +E G+ Sbjct: 681 FELIDQAGLGHDALTQARNQLLGMAAQHPASLVSVRPNGLEDTAQFKLEVDQEKAQALGV 740 Query: 770 SVDQVMSLVSQGIGGTSAGQVIDGNARYDINVRLAAEFRQSPDAIKDLLLSGTNGATVRL 829 S+ + +S +GGT ID + V+ A+FR P+ + L + NG V Sbjct: 741 SLSDINQTISTALGGTYVNDFIDRGRVKKLYVQADAKFRMLPEDVDKLYVRSANGEMVPF 800 Query: 830 GEVASVEVEMAPPNIRRDDVQRRVVVQANVA-GRDMGSVVKDIYALVPKADLPAGYTVII 888 + P + R + + +Q A G G + + L K LPAG Sbjct: 801 SAFTTSHWVYGSPRLERYNGLPSMEIQGEAAPGTSSGDAMALMENLASK--LPAGIGYDW 858 Query: 889 GGQYENQQRAQQKLMLVVPISIALIALLLYFSFGSFKQVLLIMANVPLALIGGIVALYVS 948 G ++ + + +V IS ++ L L + S+ + +M VPL ++G ++A + Sbjct: 859 TGMSYQERLSGNQAPALVAISFVVVFLCLAALYESWSIPVSVMLVVPLGIVGVLLAATLF 918 Query: 949 GTYLSVPSSIGFITLFGVAVLNGVVLVDSINQ-RRQSGEALYDCVYEGTVGRLRPVLMTA 1007 V +G +T G++ N +++V+ + G+ + + RLRP+LMT+ Sbjct: 919 NQKNDVYFMVGLLTTIGLSAKNAILIVEFAKDLMEKEGKGVVEATLMAVRMRLRPILMTS 978 Query: 1008 LTSALGLIPILLSSGVGSEIQKPLAVVIIGGLFSSTALTLLVLPTLYRWLYR 1059 L LG++P+ +S+G GS Q + + ++GG+ S+T L + +P + + R Sbjct: 979 LAFILGVLPLAISNGAGSGAQNAVGIGVMGGMVSATLLAIFFVPVFFVVIRR 1030 Score = 108 bits (270), Expect = 9e-26 Identities = 82/552 (14%), Positives = 186/552 (33%), Gaps = 65/552 (11%) Query: 4 KLIEAAIKNRLLVVLALLAVIVGCVAMLPKLNLDAFPDVTNVQVTIN-TAAEGLAAEEVE 62 + + + +L ++ G V + +L P+ G E + Sbjct: 528 NSVGKILGSTGRYLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQ 587 Query: 63 KLI----SYPVESAMYALPAVIEVRSLSRTGLS----IVTVVFAEGTDIYFARQQVFEQL 114 K++ Y +++ + +V V S +G + + V + + Sbjct: 588 KVLDQVTDYYLKNEKANVESVFTVNGFSFSGQAQNAGMAFVSLKPWEERNGDENSAEAVI 647 Query: 115 QAAREM---IPSGVGVPEIGPNTSGLGQIYQYILRAEPNSGINAAELRSLNDYLVKLILM 171 A+ I G +P P LG + +G+ L + L+ + Sbjct: 648 HRAKMELGKIRDGFVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQ 707 Query: 172 PVGGVTEVLSFGGYVRQYQVQVEPN--KLRAYGLSMAQVTEALES--NNRNAGGWFMDQG 227 + V G Q ++E + K +A G+S++ + + + + + Sbjct: 708 HPASLVSVRP-NGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGR 766 Query: 228 QEQLVVRGYGMLPAGDV-GLAAIAQIPLTEASGTPVRIGDIAQVDFGSEIRVGAVTMTRR 286 ++L V+ A + ++ + A+G V + G+ + R Sbjct: 767 VKKLYVQ----ADAKFRMLPEDVDKLYVRSANGEMVPFSAFTTSHWVY----GSPRLERY 818 Query: 287 DEAGQVQNLGEVVAGVVLKRMGANTKATIDDIGARVSLIEQALPDGVSFEVFYDQADLVD 346 + ++ GE G D A + + LP G+ ++ + + Sbjct: 819 NGLPSMEIQGEAAPGTSS-----------GDAMALMENLASKLPAGIGYD-WTGMSYQER 866 Query: 347 KAVTTVRDALLMAFVFIVVILALFLVNMRATLLVLLSIPVSIGLALMVMSYYGLSANLMS 406 + + ++FV + + LA + + V+L +P+ I L+ + + ++ Sbjct: 867 LSGNQAPALVAISFVVVFLCLAALYESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYF 926 Query: 407 LGGLAVAIGMLVDGSVVMVENIFKHLTQPDRRHLQEARTRADGEIDPYHSDEDGGQQANM 466 + GL IG+ ++++VE K L + + + + EA Sbjct: 927 MVGLLTTIGLSAKNAILIVEFA-KDLMEKEGKGVVEA----------------------- 962 Query: 467 AVRIMLAAKEVCSPIFFATAIIIVVFAPLFALEGVEGKLFQPMAVSIILAMISALLVALI 526 ++A + PI + I+ PL G + + ++ M+SA L+A+ Sbjct: 963 ---TLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIGVMGGMVSATLLAIF 1019 Query: 527 AVPALAVYLFKR 538 VP V + + Sbjct: 1020 FVPVFFVVIRRC 1031 Score = 101 bits (254), Expect = 6e-24 Identities = 90/515 (17%), Positives = 192/515 (37%), Gaps = 36/515 (6%) Query: 565 RPKVVMLSALVMFGLSLLLLPRLGTEFVPELEEGTINLRVTLAPTASLGT-SLQVAPKLE 623 RP + A+++ L + +L P + +++ P A T V +E Sbjct: 8 RPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSAN-YPGADAQTVQDTVTQVIE 66 Query: 624 AILLEFPEVEYALSRIGAPELGGDPEPVSNIEVYIGLKPIAEWQSASSRLELQRLMEEKL 683 + + Y S + ++ + + + + A Q ++ KL Sbjct: 67 QNMNGIDNLMYMSST---------SDSAGSVTITLTFQSGTDPDIA------QVQVQNKL 111 Query: 684 SVFPGLLLTFSQPIATRVDELLSGVKAQLAIKIFGPDLAVLSQKGQALT---DLVTKIPG 740 + LL Q V++ S P + D ++++ G Sbjct: 112 QLATPLLPQEVQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNG 171 Query: 741 AVDVSLEQVSGEAQLVVRPKRELLARYGISVDQVMSLVSQGIGGTSAGQVIDGNARYD-- 798 DV L + + + +LL +Y ++ V++ + +AGQ+ A Sbjct: 172 VGDVQL--FGAQYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQ 229 Query: 799 INVRLAAEFR-QSPDAIKDLLL-SGTNGATVRLGEVASVEVEMAPPNIR-RDDVQRRVVV 855 +N + A+ R ++P+ + L ++G+ VRL +VA VE+ N+ R + + + Sbjct: 230 LNASIIAQTRFKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGL 289 Query: 856 QANVA-GRDMGSVVKDIYALVP--KADLPAGYTVIIGGQYENQQRAQQKLMLVVP---IS 909 +A G + K I A + + P G V+ Y+ Q + VV + Sbjct: 290 GIKLATGANALDTAKAIKAKLAELQPFFPQGMKVLY--PYDTTPFVQLSIHEVVKTLFEA 347 Query: 910 IALIALLLYFSFGSFKQVLLIMANVPLALIGGIVALYVSGTYLSVPSSIGFITLFGVAVL 969 I L+ L++Y + + L+ VP+ L+G L G ++ + G + G+ V Sbjct: 348 IMLVFLVMYLFLQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVD 407 Query: 970 NGVVLVDSINQRRQS-GEALYDCVYEGTVGRLRPVLMTALTSALGLIPILLSSGVGSEIQ 1028 + +V+V+++ + + + ++ A+ + IP+ G I Sbjct: 408 DAIVVVENVERVMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIY 467 Query: 1029 KPLAVVIIGGLFSSTALTLLVLPTLYRWLYRGDKR 1063 + ++ I+ + S + L++ P L L + Sbjct: 468 RQFSITIVSAMALSVLVALILTPALCATLLKPVSA 502
>PF06580#Sensor histidine kinase Length = 349 Score = 39.5 bits (92), Expect = 4e-05 Identities = 22/107 (20%), Positives = 37/107 (34%), Gaps = 22/107 (20%) Query: 608 LVVRNLMSNAIKH---HDRDTGVIKVQCEPKGDVYWFSVVDDGPGISKAYHGKVFEMFQT 664 ++V+ L+ N IKH G I ++ V + G Sbjct: 258 MLVQTLVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGS---------------- 301 Query: 665 LKPRDEVEGSGLGLSLVKKTIESLGGE---IKLESEGRGCRFRFSWP 708 L ++ E +G GL V++ ++ L G IKL + P Sbjct: 302 LALKNTKESTGTGLQNVRERLQMLYGTEAQIKLSEKQGKVNAMVLIP 348
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 46.4 bits (110), Expect = 8e-09 Identities = 23/109 (21%), Positives = 43/109 (39%), Gaps = 10/109 (9%) Query: 11 TILLVDDDDVDYMAVQRAMKQLRLLNPLIRARDGLEALHILTNPEAIKGPYLILLDLNMP 70 TIL+ DDD + +A+ + + + + A L++ D+ MP Sbjct: 5 TILVADDDAAIRTVLNQALSRAGY--DVRITSNAATLWRWI----AAGDGDLVVTDVVMP 58 Query: 71 RMNGFEFLEHLRS-DPTLSSSVVFMLTTSSTDEDRMKAYSHHVAGYMVK 118 N F+ L ++ P L V +++ +T +KA Y+ K Sbjct: 59 DENAFDLLPRIKKARPDL---PVLVMSAQNTFMTAIKASEKGAYDYLPK 104
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 62.9 bits (153), Expect = 2e-12 Identities = 36/137 (26%), Positives = 58/137 (42%), Gaps = 6/137 (4%) Query: 3 LLLIDDDEVDRTAVIRALRQSKLAFNVIEANCAFDGLNLALERHFDGILLDYMLPDANGL 62 +L+ DDD RT + +AL S+ ++V + A D ++ D ++PD N Sbjct: 6 ILVADDDAAIRTVLNQAL--SRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63 Query: 63 EVLIKLNAMTQDQTVVVMLSRYEDEKLAQRCIELGAQDFLLK---DEVNSRILTRAIRYA 119 ++L ++ D V+VM S A + E GA D+L K I+ RA+ Sbjct: 64 DLLPRIKKARPDLPVLVM-SAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEP 122 Query: 120 KQRASMALALRNSHQKL 136 K+R S L Sbjct: 123 KRRPSKLEDDSQDGMPL 139
>OUTRMMBRANEA#Outer membrane protein A signature. Length = 346 Score = 28.4 bits (63), Expect = 0.027 Identities = 16/76 (21%), Positives = 29/76 (38%), Gaps = 9/76 (11%) Query: 47 VAIQGGIDYSHDSGFYAGTWASNVDFGDETSYELDLYVGYAGNITEDISYDIGYLYYGYP 106 + G HD+GF +N E + GY + + +++GY + G Sbjct: 30 TGAKLGWSQYHDTGFI-----NNNGPTHENQLGAGAFGGY--QVNPYVGFEMGYDWLGRM 82 Query: 107 DAPGSIDFG--ELHGA 120 GS++ G + G Sbjct: 83 PYKGSVENGAYKAQGV 98
>DNABINDINGHU#Prokaryotic integration host factor signature. Length = 91 Score = 109 bits (275), Expect = 2e-35 Identities = 45/88 (51%), Positives = 66/88 (75%) Query: 2 NKTELIAKIAENADLTKVEAARALKSFEAAITESMKNGDKISIVGFGSFETATRAARTGR 61 NK +LIAK+AE +LTK ++A A+ + +A++ + G+K+ ++GFG+FE RAAR GR Sbjct: 3 NKQDLIAKVAEATELTKKDSAAAVDAVFSAVSSYLAKGEKVQLIGFGNFEVRERAARKGR 62 Query: 62 NPQTGKEIQIAEATVPKFKAGKTLRDSV 89 NPQTG+EI+I + VP FKAGK L+D+V Sbjct: 63 NPQTGEEIKIKASKVPAFKAGKALKDAV 90
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 62.5 bits (152), Expect = 2e-13 Identities = 25/108 (23%), Positives = 44/108 (40%), Gaps = 3/108 (2%) Query: 146 RVLVVDDSRMARNVIKRTIGNLGIKLITEAEDGAQAIELMRNNMFDLVITDYNMPSIDGL 205 +LV DD R V+ + + G + + A + DLV+TD MP + Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRI-TSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63 Query: 206 ALTQFIRNESQQSHIPILMVSSEANDTHLSNVSQAGVNALCDKPFEPQ 253 L I+ + +P+L++S++ S+ G KPF+ Sbjct: 64 DLLPRIKKA--RPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLT 109 Score = 47.9 bits (114), Expect = 2e-08 Identities = 32/155 (20%), Positives = 57/155 (36%), Gaps = 6/155 (3%) Query: 10 SILLVEPSDTQRRIIIQHLQQEGIVSIQTAANIEEAKAVVGRHKPDLIASAMHFEDGTAI 69 +IL+ + R ++ Q L + G ++ +N + DL+ + + D A Sbjct: 5 TILVADDDAAIRTVLNQALSRAGY-DVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63 Query: 70 DLLSYLRVNSDYKDIQFMLVSSECRREQLEIFRQSGVVAILPKPFHAEHLGKALNATIDL 129 DLL R+ D+ +++S++ + G LPKPF L + + Sbjct: 64 DLLP--RIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAE 121 Query: 130 LSHDELDLSHFDVHDVRVLVVDDSRM--ARNVIKR 162 L D D LV + M V+ R Sbjct: 122 PKRRPSKLED-DSQDGMPLVGRSAAMQEIYRVLAR 155
>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase signature. Length = 261 Score = 42.7 bits (100), Expect = 4e-07 Identities = 49/254 (19%), Positives = 90/254 (35%), Gaps = 25/254 (9%) Query: 5 IIITGVGKRIGYALAKHLLAQGHSVIG-----TYRSHYPSIDKLRVLGATIIQCDFYDNV 59 ITG + IG A+A+ L +QG + S K A D D+ Sbjct: 11 AFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAFPADVRDSA 70 Query: 60 QVQGLIDQLSQYPKIRAIIHNASDWLADSSQTYTASEVIQRMMQVHVSVPYQLNLALASQ 119 + + ++ + I+ N + L + E + V+ + + + +++ Sbjct: 71 AIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGVFNASRSVSKY 130 Query: 120 LQAGAEEEIGASDIIHITDYVAEKGSAKHIAYAGSKAALHNLTLSFAAKFAPE-VKVNSI 178 + G+ I+ + A AYA SKAA T + A ++ N + Sbjct: 131 MMD---RRSGS--IVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCNIV 185 Query: 179 APAMI-------LFNQGDDEAYQQKTLAKAL-----LPKEAGNEEIIDLVEYLL--NSRY 224 +P L+ + K + L K A +I D V +L+ + + Sbjct: 186 SPGSTETDMQWSLWADENGAEQVIKGSLETFKTGIPLKKLAKPSDIADAVLFLVSGQAGH 245 Query: 225 VTGRSHHVDGGRHL 238 +T + VDGG L Sbjct: 246 ITMHNLCVDGGATL 259
>GPOSANCHOR#Gram-positive coccus surface protein anchor signature. Length = 539 Score = 30.0 bits (67), Expect = 0.008 Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 4/47 (8%) Query: 28 KASRNQLRKTIRAARNAL----SATEQNKASLCASQKMLNELQAKKA 70 +ASR LR+ + A+R A A E+ + L A +K+ EL+ K Sbjct: 378 EASRQSLRRDLDASREAKKQVEKALEEANSKLAALEKLNKELEESKK 424
>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein signature. Length = 347 Score = 143 bits (362), Expect = 5e-40 Identities = 77/385 (20%), Positives = 144/385 (37%), Gaps = 79/385 (20%) Query: 5 IGIDLGTTNSCVAVLDGGK-----ARVLENAEGDRTTPSIIAYTDDETIVGSPAKRQAVT 59 + IDLGT N+ + V G + V + + S+ A VG AK+ Sbjct: 13 LSIDLGTANTLIYVKGQGIVLNEPSVVAIRQDRAGSPKSVAA-------VGHDAKQMLGR 65 Query: 60 NPTNTFFAIKRLIGRRFKDDEVQRDVNIMPFKIIQADNGDAWVESRGNKMAPPQVSAEIL 119 P N AI+ + +D I F + + + + Sbjct: 66 TPGN-IAAIRPM-----------KDGVIADFFVTEK------------------MLQHFI 95 Query: 120 KKMKKTAEDFLGEEVTEAVITVPAYFNDSQRQATKDAGRIAGLDVKRIINEPTAAALAYG 179 K++ + ++ VP +R+A +++ + AG +I EP AAA+ G Sbjct: 96 KQVHS---NSFMRPSPRVLVCVPVGATQVERRAIRESAQGAGAREVFLIEEPMAAAIGAG 152 Query: 180 IDKKQGDNIVAVYDLGGGTFDISIIEIDSNDGDQTFEVLATNGDTHLGGEDFDNRLINYL 239 + + + V D+GGGT ++++I ++ + + +GG+ FD +INY+ Sbjct: 153 LPVSEATGSM-VVDIGGGTTEVAVISLNG---------VVYSSSVRIGGDRFDEAIINYV 202 Query: 240 ADEFKKEQGLDLRKDPLAMQRLKEAAEKAKIELSST----NHTEVNLPYITADATGPKHL 295 + G + AE+ K E+ S E+ + P+ Sbjct: 203 RRNYGSLIG-------------EATAERIKHEIGSAYPGDEVREIEVRGRNLAEGVPRGF 249 Query: 296 VIKITRAKLESLVEDLILRTLEPLKVALADA--DLSVSDVNE--VILVGGQTRMPKVQEA 351 + + LE+L E + + + VAL +L+ SD++E ++L GG + + Sbjct: 250 TLN-SNEILEALQEP-LTGIVSAVMVALEQCPPELA-SDISERGMVLTGGGALLRNLDRL 306 Query: 352 VTNFFGKEPRKDVNPDEAVAVGAAI 376 + G +P VA G Sbjct: 307 LMEETGIPVVVAEDPLTCVARGGGK 331
>BCTERIALGSPD#Bacterial general secretion pathway protein D signature. Length = 660 Score = 31.4 bits (71), Expect = 0.026 Identities = 14/71 (19%), Positives = 31/71 (43%), Gaps = 5/71 (7%) Query: 354 AGLEPLTIDAQTLFVNVGERTN---VTGSAKFLKLIKEGKFEQALDVAREQVESGAQIID 410 +P+ + + + +TN VT + + ++ + LD+ R QV A I + Sbjct: 298 QAAKPVAALDKNIIIKAHGQTNALIVTAAPDVMNDLE--RVIAQLDIRRPQVLVEAIIAE 355 Query: 411 INMDEGMLDGV 421 + +G+ G+ Sbjct: 356 VQDADGLNLGI 366
>FERRIBNDNGPP#Ferrichrome-binding periplasmic protein signature. Length = 296 Score = 44.9 bits (106), Expect = 1e-07 Identities = 42/175 (24%), Positives = 65/175 (37%), Gaps = 15/175 (8%) Query: 23 AQPAKRIIALSPHAVEMLYAIGAGDTIVAATDYADY------PEAAKKIPRIGGYYGIQM 76 A RI+AL VE+L A+G D +Y P + +G + Sbjct: 32 AIDPNRIVALEWLPVELLLALGI--VPYGVADTINYRLWVSEPPLPDSVIDVGLRTEPNL 89 Query: 77 ERVLELNPDLIVVWDSGNKA--EDINQL-RTLGFNLYGSDPKTLEGVAKELEELGQLTGH 133 E + E+ P + VW +G E + ++ GFN + + L K L E+ L Sbjct: 90 ELLTEMKPSFM-VWSAGYGPSPEMLARIAPGRGFN-FSDGKQPLAMARKSLTEMADLLNL 147 Query: 134 VEEASKAAAAYRAELIRLRVENAKKSE-PKVFYQLWSTPLMTV-SKNSWIQEIMS 186 A A Y + ++ K+ P + L M V NS QEI+ Sbjct: 148 QSAAETHLAQYEDFIRSMKPRFVKRGARPLLLTTLIDPRHMLVFGPNSLFQEILD 202
>INFPOTNTIATR#Macrophage infectivity potentiator signature. Length = 233 Score = 151 bits (382), Expect = 4e-48 Identities = 76/203 (37%), Positives = 118/203 (58%), Gaps = 5/203 (2%) Query: 6 STVEQQASYGVGRQMGEQLAANSFDGVDIPAVQAGLADAFAGLESAVS---MQDLQVAFT 62 +T + + SY +G +G+ D ++ + G+ D +G + ++ M+D+ F Sbjct: 28 TTDKDKLSYSIGADLGKNFKNQGID-INPDVLAKGMQDGMSGAQLILTEEQMKDVLSKFQ 86 Query: 63 -EISGRIQAAQEQAAAAASAEGEAFLAQNAKREGVTVTDSGLQYEVLVQGSGAKPTYEDT 121 ++ + A + A A+G+AFL+ N + G+ V SGLQY+++ G+GAKP DT Sbjct: 87 KDLMAKRSAEFNKKAEENKAKGDAFLSANKSKPGIVVLPSGLQYKIIDAGTGAKPGKSDT 146 Query: 122 VRTHYHGSFINGDVFDSSVVRGQPAEFPVSGVIAGWTEALQLMPVGTKLKLYVPHHLAYG 181 V Y G+ I+G VFDS+ G+PA F VS VI GWTEALQLMP G+ +++VP LAYG Sbjct: 147 VTVEYTGTLIDGTVFDSTEKAGKPATFQVSQVIPGWTEALQLMPAGSTWEVFVPADLAYG 206 Query: 182 ERGAGASIPPYSTLVFEVELLDI 204 R G I P TL+F++ L+ + Sbjct: 207 PRSVGGPIGPNETLIFKIHLISV 229
>PYOCINKILLER#Pyocin S killer protein signature. Length = 617 Score = 30.1 bits (67), Expect = 0.028 Identities = 16/52 (30%), Positives = 26/52 (50%), Gaps = 1/52 (1%) Query: 103 RLDEVYAAYAEPDADFDALAKEQGELEAIIQAQDAHNLEHILERAANALRLP 154 R++ + AA A +A A+EQ EA +A++ + RAAN +P Sbjct: 203 RMNTLTAAKASIEAAAANKAREQAAAEAKRKAEEQAR-QQAAIRAANTYAMP 253
>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase signature. Length = 261 Score = 53.1 bits (127), Expect = 2e-10 Identities = 36/194 (18%), Positives = 72/194 (37%), Gaps = 16/194 (8%) Query: 21 KTVLITGATSGIGLQLAQDYLQQGWHVIACGRDRQRLDALALVELLGA---SIIVFDISQ 77 K ITGA GIG +A+ QG H+ A + ++L+ + A D+ Sbjct: 9 KIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAFPADVRD 68 Query: 78 REQVQQAAKDLSQLLIHKHCQLDLVILNAGSCEYIDDAKAFDDALFERVIHTNLISMGYC 137 + + ++ + + +D+++ AG + E T ++ Sbjct: 69 SAAIDE----ITARIEREMGPIDILVNVAG----VLRPGLIHSLSDEEWEATFSVNSTGV 120 Query: 138 LGAFLPLMP-----KGSHIGLMSSSAIYLPFPRAEAYGASKAGVQYLASSLAIDLTQFGI 192 A + + I + S+ +P AY +SKA L ++L ++ I Sbjct: 121 FNASRSVSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNI 180 Query: 193 GVSLICPGFVATPL 206 +++ PG T + Sbjct: 181 RCNIVSPGSTETDM 194
>TYPE4SSCAGA#Type IV secretion system CagA exotoxin signature. Length = 1147 Score = 27.7 bits (61), Expect = 0.031 Identities = 19/65 (29%), Positives = 28/65 (43%), Gaps = 3/65 (4%) Query: 38 AWVAQKNDESGYHLDGLMDQRVRDAVNAQLAAKGMSLVDAKEADVLVNYLTKVDKKINVD 97 A AQKN+ + Q V++ VN L G+S EA L + + K++N Sbjct: 819 AQQAQKNESLNARKKSEIYQSVKNGVNGTLVGNGLSQA---EATTLSKNFSDIKKELNAK 875 Query: 98 TFNTN 102 N N Sbjct: 876 LGNFN 880
>OMPADOMAIN#OMPA domain signature. Length = 346 Score = 70.0 bits (171), Expect = 1e-16 Identities = 29/116 (25%), Positives = 54/116 (46%), Gaps = 12/116 (10%) Query: 90 VYFEFAIAEVDLSQWKSLALVKAFLEANN--DVALLLVGHTDIVGTPEFNYQLSLQRAEN 147 V F F A + +L + + L + D +++++G+TD +G+ +N LS +RA++ Sbjct: 221 VLFNFNKATLKPEGQAALDQLYSQLSNLDPKDGSVVVLGYTDRIGSDAYNQGLSERRAQS 280 Query: 148 VRRILVEDYGFNPNRFTIVGKGISEPVADNRSSEGRRL---------NRRVQFIVN 194 V L+ G ++ + G G S PV N ++ +RRV+ V Sbjct: 281 VVDYLISK-GIPADKISARGMGESNPVTGNTCDNVKQRAALIDCLAPDRRVEIEVK 335
>ARGREPRESSOR#Bacterial arginine repressor signature. Length = 149 Score = 31.8 bits (72), Expect = 0.003 Identities = 25/103 (24%), Positives = 51/103 (49%), Gaps = 11/103 (10%) Query: 29 IIALLLSHQLRT--EIEDLVTEDVVKVSTALELAKDTEKLQIITTRLNHYD-----NELQ 81 I ++ ++++ T E+ D++ +D V+ A +++D ++L ++ N+ Q Sbjct: 10 IREIITANEIETQDELVDILKKDGYNVTQA-TVSRDIKELHLVKVPTNNGSYKYSLPADQ 68 Query: 82 RLQLLSELATQWG---LLIDSSRTIAKLETSPQLQQAINNIID 121 R LS+L + IDS+ + L+T P QAI ++D Sbjct: 69 RFNPLSKLKRSLMDAFVKIDSASHLIVLKTMPGNAQAIGALMD 111
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 42.1 bits (99), Expect = 3e-06 Identities = 27/111 (24%), Positives = 47/111 (42%), Gaps = 9/111 (8%) Query: 75 SGKLSELYVDSGTKVVQGQALAKLDTHLLEAERQEIQASLAQTQADVDLASSTLKRNLEL 134 + + E+ V G V +G L KL EA+ + Q+SL Q + + L R++EL Sbjct: 104 NSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQ-TRYQILSRSIEL 162 Query: 135 KKSGYVS-------EQLLDENRSQLVSL-ESAKQRLMASQHANRLKLDKSQ 177 K + + + +E +L SL + ++ L LDK + Sbjct: 163 NKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKR 213
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 69.3 bits (169), Expect = 9e-17 Identities = 31/145 (21%), Positives = 55/145 (37%), Gaps = 5/145 (3%) Query: 13 RSEQKRQQVLVAAIDLFCRQGFPHTSMDEVAKLAGVSKQTVYSHYGSKDELFVAAIE--S 70 +++ RQ +L A+ LF +QG TS+ E+AK AGV++ +Y H+ K +LF E Sbjct: 8 EAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWELSE 67 Query: 71 KCVGHNLHDDLLNDPSQPEAALTQFALQFGEMIVSPEAITVFKACVAQSESHP---EVSR 127 +G + P P + L + + E V+ E + + V + Sbjct: 68 SNIGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFVGEMAVVQ 127 Query: 128 LFFEAGPQQIVGILADYLLAVEALG 152 + + L Sbjct: 128 QAQRNLCLESYDRIEQTLKHCIEAK 152
>SYCDCHAPRONE#Gram-negative bacterial type III secretion SycD chaperone signature. Length = 168 Score = 30.7 bits (69), Expect = 0.012 Identities = 18/99 (18%), Positives = 38/99 (38%), Gaps = 8/99 (8%) Query: 727 TLVKILAHSDEYMPQ---YAYILKLQGKVQESINIY--LDYLEKYPSDTQTWVKLGLFMV 781 T+ + S + + Q A+ GK +++ ++ L L+ D++ ++ LG Sbjct: 24 TIAMLNEISSDTLEQLYSLAFNQYQSGKYEDAHKVFQALCVLD--HYDSRFFLGLGACRQ 81 Query: 782 EINQIEPAHTAFSNAVNADPTNQVAQHYLTE-LTQLMTP 819 + Q + A ++S D + E L Q Sbjct: 82 AMGQYDLAIHSYSYGAIMDIKEPRFPFHAAECLLQKGEL 120
>NUCEPIMERASE#Nucleotide sugar epimerase signature. Length = 334 Score = 80.2 bits (198), Expect = 3e-19 Identities = 41/245 (16%), Positives = 86/245 (35%), Gaps = 54/245 (22%) Query: 6 TILITGGTGSFGQKYTKTILQRY-----------------KPKRLIIFSRDELKQYEMQQ 48 L+TG G G +K +L+ K RL + ++ + ++ Sbjct: 2 KYLVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLKQARLELLAQPGFQFHK--- 58 Query: 49 VFNAPCMRYFIGDVRDADRLQQAFNDVDF--VIHAAALKQVPAAEYNPMECIKTNIHGAE 106 D+ D + + F F V + V + NP +N+ G Sbjct: 59 -----------IDLADREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFL 107 Query: 107 NVIRAAISNNVKKVIALST---------------DKAASPINLYGATKLASDKLFVAANN 151 N++ N ++ ++ S+ D P++LY ATK A++ + ++ Sbjct: 108 NILEGCRHNKIQHLLYASSSSVYGLNRKMPFSTDDSVDHPVSLYAATKKANELMAHTYSH 167 Query: 152 IVGSGKTRFAAVRYGNVVGSRGS---VVPFFKQLIANGATSLPITHPDMTRFWITLQDGV 208 + G +R+ V G G + F + + G + + M R + + D Sbjct: 168 LYG---LPATGLRFFTVYGPWGRPDMALFKFTKAMLEGKSIDVYNYGKMKRDFTYIDDIA 224 Query: 209 DFVLK 213 + +++ Sbjct: 225 EAIIR 229
>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase signature. Length = 261 Score = 129 bits (324), Expect = 2e-38 Identities = 79/253 (31%), Positives = 123/253 (48%), Gaps = 13/253 (5%) Query: 4 LRGKKALVTGANRGIGLAIAHKFAQQGAELWINGLDSNKIEQVRVEIVSKY-GTDCHALC 62 + GK A +TGA +GIG A+A A QGA I +D N + +V K A Sbjct: 6 IEGKIAFITGAAQGIGEAVARTLASQGAH--IAAVDYNPEKLEKVVSSLKAEARHAEAFP 63 Query: 63 FDVSDPLAVKAGFQYLFKQTKTLDALVNNAGIMDDALLGMVTHQQLERSFSTNTYSVIYC 122 DV D A+ + ++ +D LVN AG++ L+ ++ ++ E +FS N+ V Sbjct: 64 ADVRDSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGVFNA 123 Query: 123 TQYAARLMERAGSGSVINIASIMGRVGNAGQSVYAGSKAAVIGITQSLAKELASKQIRVN 182 ++ ++ M SGS++ + S V + YA SKAA + T+ L ELA IR N Sbjct: 124 SRSVSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCN 183 Query: 183 AIAPGFIETDLVKIL--NENTYESRLQ--------SIAMGRAGFASEVADVAAFLASNMA 232 ++PG ETD+ L +EN E ++ I + + S++AD FL S A Sbjct: 184 IVSPGSTETDMQWSLWADENGAEQVIKGSLETFKTGIPLKKLAKPSDIADAVLFLVSGQA 243 Query: 233 SYVTGQVIGVDGG 245 ++T + VDGG Sbjct: 244 GHITMHNLCVDGG 256
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 217 bits (554), Expect = 4e-65 Identities = 123/460 (26%), Positives = 193/460 (41%), Gaps = 29/460 (6%) Query: 4 DLLNIARTGVLASQSQLGVTSNNIANANTAGYHRQVATQSTLESQRFGNSFYGTGTYVDD 63 L+N A +G+ A+Q+ L SNNI++ N AGY RQ + S + G G YV Sbjct: 2 SLINNAMSGLNAAQAALNTASNNISSYNVAGYTRQTTIMAQANSTLGAGGWVGNGVYVSG 61 Query: 64 VKRIYNDYAARELRIGQTTLSGAEASYGKLSELDQLFSQIGKMVPQSLNSLFAGVNSLAD 123 V+R Y+ + +LR QT SG A Y ++S++D + S + + F + +L Sbjct: 62 VQREYDAFITNQLRAAQTQSSGLTARYEQMSKIDNMLSTSTSSLATQMQDFFTSLQTLVS 121 Query: 124 LPADLGLRSSTLTDAKQVASSLNQMQSSLNGQLTQTNDQITGMTKRINEISKELANLNLE 183 D R + + ++ + + L Q Q N I +IN +K++A+LN + Sbjct: 122 NAEDPAARQALIGKSEGLVNQFKTTDQYLRDQDKQVNIAIGASVDQINNYAKQIASLNDQ 181 Query: 184 LMKSPNQDAM-----LLDKQDALIQELSQYAQVNVIPQENGAKSIMLGGSVMLVSGEIAM 238 + + A LLD++D L+ EL+Q V V Q+ G +I + LV G A Sbjct: 182 ISRLTGVGAGASPNNLLDQRDQLVSELNQIVGVEVSVQDGGTYNITMANGYSLVQGSTAR 241 Query: 239 TMDTKTGDPFPNELQLTSSIGSQSVAADPSKL--GGQLGALFEYRDQTLIPASHELDQLA 296 + P+ + G+ P KL G LG + +R Q L + L QLA Sbjct: 242 QLAAVPSSADPSRTTVAYVDGTAGNIEIPEKLLNTGSLGGILTFRSQDLDQTRNTLGQLA 301 Query: 297 LGIADNFNKMQQQGLDLNGQVGANIFRDINDPLMSLGRVGGYSNNTGNATLGVNIDDTSL 356 L A+ FN + G D NG G + F + V + N G+ +G + D S Sbjct: 302 LAFAEAFNTQHKAGFDANGDAGEDFFA------IGKPAVLQNTKNKGDVAIGATVTDASA 355 Query: 357 LTGGSYELSF-------TAPASYELRDTETGVITPLTLNGSTLEGGAGFSIDIKAGAMAS 409 + Y++SF T AS + +G L G A Sbjct: 356 VLATDYKISFDNNQWQVTRLASNTTFTVTPDANGKVAFDGLELTFT---------GTPAV 406 Query: 410 GDRFIIRPTAGAANGITVEMTDPKGIAAASPKITPDTANS 449 D F ++P + A + V +TD IA AS + D+ N Sbjct: 407 NDSFTLKPVSDAIVNMDVLITDEAKIAMASEEDAGDSDNR 446 Score = 89.6 bits (222), Expect = 6e-21 Identities = 38/103 (36%), Positives = 55/103 (53%) Query: 535 AEGDNSNAVAMAKLSESKVMNGGKSTLADVFENTKIDIGSKTKAAEVRVGSAEAIYQQAY 594 + DN N A+ L + GG + D + + DIG+KT + + + Q Sbjct: 441 GDSDNRNGQALLDLQSNSKTVGGAKSFNDAYASLVSDIGNKTATLKTSSATQGNVVTQLS 500 Query: 595 ARVESESGVNLDEEAANLMRFQQAYQASARIMTTAQQIFDTLL 637 + +S SGVNLDEE NL RFQQ Y A+A+++ TA IFD L+ Sbjct: 501 NQQQSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALI 543
>FLAGELLIN#Flagellin signature. Length = 507 Score = 59.7 bits (144), Expect = 8e-12 Identities = 66/362 (18%), Positives = 123/362 (33%), Gaps = 16/362 (4%) Query: 20 QTATSKILEQLSSGKKVNTAGDDPVAALGIDNLNQRNALVDQFMKNIDYATNRLAVTESK 79 Q++ S +E+LSSG ++N+A DD + + Q +N + + TE Sbjct: 21 QSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGLTQASRNANDGISIAQTTEGA 80 Query: 80 LGSAENLASSIREQVMRAVNGTLADSERQMIADEMKGSLEELLSIANSKDESGNYMFSGY 139 L N +RE ++A NGT +DS+ + I DE++ LEE+ ++N +G + S Sbjct: 81 LNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLEEIDRVSNQTQFNGVKVLSQ- 139 Query: 140 STDKEPFAFDNSTPPQIVYSGDSGVRNSLVQTGVAL----GTNVPGDTAFMKAPNGLGDY 195 DN Q+ + + L + V G NV G Sbjct: 140 ---------DNQMKIQVGANDGETITIDLQKIDVKSLGLDGFNVNGPKEATVGDLKSSFK 190 Query: 196 SVNYLASQQGEFSVKAAKIADTSTYLADTYTFNFTDNGVGGTNLQVLDSANNPVANVTNF 255 +V + + + + T V N Q+ V F Sbjct: 191 NVTGYDTYAVGANKYRVDVNSGAVVTDTTAPTVPDKVYVNAANGQLTTDDAENNTAVDLF 250 Query: 256 DATTPVSFNGIEVKVSGKPSAGDSFTMEPQAEVSIFDTISSAIALIEDPNSANTPQGRAQ 315 T + ++G G V+ TI + + + T G Sbjct: 251 KTTKSTAGTAEAKAIAGAIKGGKEGDTFDYKGVTF--TIDTKTGNDGNGKVSTTINGEKV 308 Query: 316 LAQILNDIDSGVNQISSARSVAGNNLKAVESYKDTHIEEQVLNTSALSLLEDLDYASAIT 375 + + N ++ + N +V + + T ++ ++ LS LE + + Sbjct: 309 TLTVADITAGAANVDAATLQSSKNVYTSVVNGQFTFDDKTKNESAKLSDLEANNAVKGES 368 Query: 376 EF 377 + Sbjct: 369 KI 370
>FLAGELLIN#Flagellin signature. Length = 507 Score = 134 bits (337), Expect = 4e-38 Identities = 93/271 (34%), Positives = 127/271 (46%), Gaps = 10/271 (3%) Query: 2 AITVNTNVTSMKAQKNLNTSSSGLATSMERLSSGLRINSAKDDAAGLAISNRLNSQVRGL 61 A +NTN S+ Q NLN S S L++++ERLSSGLRINSAKDDAAG AI+NR S ++GL Sbjct: 1 AQVINTNSLSLLTQNNLNKSQSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGL 60 Query: 62 DVGMRNANDAISIAQIAEGAMQEQTNMLQRMRDLTVQAENGANSTDDLDAIQKEIDQLAE 121 RNAND ISIAQ EGA+ E N LQR+R+L+VQA NG NS DL +IQ EI Q E Sbjct: 61 TQASRNANDGISIAQTTEGALNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLE 120 Query: 122 EITAIGDSTAFGNTKLMTGNFSAGKTFQVGHQEGEDITISVGTNNAGTLMV--------S 173 EI + + T F K+++ + QVG +GE ITI + + +L + Sbjct: 121 EIDRVSNQTQFNGVKVLSQDNQ--MKIQVGANDGETITIDLQKIDVKSLGLDGFNVNGPK 178 Query: 174 TLAIATSGGRSTALAAIDAAIKNIDNQRAALGAKQNRLAYNISNSANTQANVADAKSRIV 233 + + D + R + + + A Sbjct: 179 EATVGDLKSSFKNVTGYDTYAVGANKYRVDVNSGAVVTDTTAPTVPDKVYVNAANGQLTT 238 Query: 234 DVDFAKETSVMTKNQVLQQTGSAMLAQANQL 264 D + K + A A + Sbjct: 239 DDAENNTAVDLFKTTKSTAGTAEAKAIAGAI 269 Score = 84.7 bits (209), Expect = 1e-20 Identities = 63/290 (21%), Positives = 113/290 (38%), Gaps = 23/290 (7%) Query: 6 NTNVTSMKAQKNLNTSSSGLATSMERLSSGLRINSAKDDAAGLAISNRLNSQVRGLDVGM 65 +T ++ + +N ++ L T ++ + + AG A + + ++G G Sbjct: 217 DTTAPTVPDKVYVNAANGQLTTDDAENNTAVDLFKTTKSTAGTAEAKAIAGAIKGGKEGD 276 Query: 66 RNANDAISIAQIAEGAMQEQTNMLQRMRDLTVQAENGANSTDDLDAIQKEIDQLAE---- 121 ++ + + + V + + + Sbjct: 277 TFDYKGVTFTIDTKTGNDGNGKVSTTINGEKVTLTVADITAGAANVDAATLQSSKNVYTS 336 Query: 122 -------------EITAIGDSTAFGNTKLMTGNFSAGKTFQVGHQEGEDITISVGTNNAG 168 +A N + + G+ +T++ T Sbjct: 337 VVNGQFTFDDKTKNESAKLSDLEANNAVKGESKITVNGAEYTANAAGDKVTLAGKTMFID 396 Query: 169 TL------MVSTLAIATSGGRSTALAAIDAAIKNIDNQRAALGAKQNRLAYNISNSANTQ 222 +++ A A + LA+ID+A+ +D R++LGA QNR I+N NT Sbjct: 397 KTASGVSTLINEDAAAAKKSTANPLASIDSALSKVDAVRSSLGAIQNRFDSAITNLGNTV 456 Query: 223 ANVADAKSRIVDVDFAKETSVMTKNQVLQQTGSAMLAQANQLPQVALSLL 272 N+ A+SRI D D+A E S M+K Q+LQQ G+++LAQANQ+PQ LSLL Sbjct: 457 TNLNSARSRIEDADYATEVSNMSKAQILQQAGTSVLAQANQVPQNVLSLL 506
>FLAGELLIN#Flagellin signature. Length = 507 Score = 133 bits (336), Expect = 4e-38 Identities = 96/271 (35%), Positives = 126/271 (46%), Gaps = 11/271 (4%) Query: 2 AITVNTNVTSLKAQKNLNTSASGLATSMERLSSGLRINGAKDDAAGLAISNRLNSQVRGL 61 A +NTN SL Q NLN S S L++++ERLSSGLRIN AKDDAAG AI+NR S ++GL Sbjct: 1 AQVINTNSLSLLTQNNLNKSQSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGL 60 Query: 62 DVGMRNANDAISIAQISEGAMQEQTNMLQRMRDLTVQAENGANSTDDLDAIQKEIDELAL 121 RNAND ISIAQ +EGA+ E N LQR+R+L+VQA NG NS DL +IQ EI + Sbjct: 61 TQASRNANDGISIAQTTEGALNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLE 120 Query: 122 EITEIGTNTAFGTTKLLDGTFSAGKTFQVGHQTGEDITISVAKTTASALKVGSLDITGSA 181 EI + T F K+L QVG GE ITI + K +L + ++ G Sbjct: 121 EIDRVSNQTQFNGVKVLSQDNQ--MKIQVGANDGETITIDLQKIDVKSLGLDGFNVNGPK 178 Query: 182 RASALAA---------IDAAIKTIDSQRADLGAKQNRLAYNISNSANTQANIADAKSRIV 232 A+ D + R D+ + + A Sbjct: 179 EATVGDLKSSFKNVTGYDTYAVGANKYRVDVNSGAVVTDTTAPTVPDKVYVNAANGQLTT 238 Query: 233 DVDFAKETSQMTKNQVLQQTGSAMLAQANQL 263 D + K + A A + Sbjct: 239 DDAENNTAVDLFKTTKSTAGTAEAKAIAGAI 269 Score = 85.1 bits (210), Expect = 8e-21 Identities = 64/265 (24%), Positives = 104/265 (39%) Query: 7 TNVTSLKAQKNLNTSASGLATSMERLSSGLRINGAKDDAAGLAISNRLNSQVRGLDVGMR 66 N T++ K ++A + G D G+ + + G Sbjct: 242 ENNTAVDLFKTTKSTAGTAEAKAIAGAIKGGKEGDTFDYKGVTFTIDTKTGNDGNGKVST 301 Query: 67 NANDAISIAQISEGAMQEQTNMLQRMRDLTVQAENGANSTDDLDAIQKEIDELALEITEI 126 N +++ ++ + N D K ++ Sbjct: 302 TINGEKVTLTVADITAGAANVDAATLQSSKNVYTSVVNGQFTFDDKTKNESAKLSDLEAN 361 Query: 127 GTNTAFGTTKLLDGTFSAGKTFQVGHQTGEDITISVAKTTASALKVGSLDITGSARASAL 186 + ++A G+ + I + S L + A+ L Sbjct: 362 NAVKGESKITVNGAEYTANAAGDKVTLAGKTMFIDKTASGVSTLINEDAAAAKKSTANPL 421 Query: 187 AAIDAAIKTIDSQRADLGAKQNRLAYNISNSANTQANIADAKSRIVDVDFAKETSQMTKN 246 A+ID+A+ +D+ R+ LGA QNR I+N NT N+ A+SRI D D+A E S M+K Sbjct: 422 ASIDSALSKVDAVRSSLGAIQNRFDSAITNLGNTVTNLNSARSRIEDADYATEVSNMSKA 481 Query: 247 QVLQQTGSAMLAQANQLPQVALSLL 271 Q+LQQ G+++LAQANQ+PQ LSLL Sbjct: 482 QILQQAGTSVLAQANQVPQNVLSLL 506
>FLAGELLIN#Flagellin signature. Length = 507 Score = 29.6 bits (66), Expect = 0.029 Identities = 24/220 (10%), Positives = 49/220 (22%) Query: 4 TATGIGSGLDIANIVKVLVDAEKTPKEAMFNKTEDSIKAKVSAMGTLKSALTTFQDAVKK 63 G+ + V + V T KS T + Sbjct: 207 VDVNSGAVVTDTTAPTVPDKVYVNAANGQLTTDDAENNTAVDLFKTTKSTAGTAEAKAIA 266 Query: 64 LQTGEALNQRKISVSNSTYLTATADKTAQTGSYAIKVEQLAVNHKIAGANVANPASGVGE 123 T+ T G + + V +A Sbjct: 267 GAIKGGKEGDTFDYKGVTFTIDTKTGNDGNGKVSTTINGEKVTLTVADITAGAANVDAAT 326 Query: 124 GSLDFDINGKNFSVDIAATDSLDAIAKKVNKASDNVGVTATVVTSDAGSRLVFSSNKTGE 183 ++ + D + K++ N V + G+ ++ Sbjct: 327 LQSSKNVYTSVVNGQFTFDDKTKNESAKLSDLEANNAVKGESKITVNGAEYTANAAGDKV 386 Query: 184 DNQINITATDTSGSGLSDMFDASNITTLQDAKNAVIYIDN 223 D + SG+S + + + N + ID+ Sbjct: 387 TLAGKTMFIDKTASGVSTLINEDAAAAKKSTANPLASIDS 426
>NUCEPIMERASE#Nucleotide sugar epimerase signature. Length = 334 Score = 48.6 bits (116), Expect = 1e-08 Identities = 35/162 (21%), Positives = 62/162 (38%), Gaps = 29/162 (17%) Query: 18 MKILITGSNGQVGSSLVKQLNQMPEIEFLAVD-------------RQQL----------- 53 MK L+TG+ G +G + K+L + + + +D R +L Sbjct: 1 MKYLVTGAAGFIGFHVSKRLLEAGH-QVVGIDNLNDYYDVSLKQARLELLAQPGFQFHKI 59 Query: 54 DITDCEAVNKLVNELKPNAIINAAAHTAVDRAEQEVELSYA-INRDGPQFLAQAANSVG- 111 D+ D E + L + + AV R E +YA N G + + Sbjct: 60 DLADREGMTDLFASGHFERVFISPHRLAV-RYSLENPHAYADSNLTGFLNILEGCRHNKI 118 Query: 112 ATILHISTDYVFAGDKDGEYIETDTVA-PQGVYGQSKLAGEL 152 +L+ S+ V+ ++ + D+V P +Y +K A EL Sbjct: 119 QHLLYASSSSVYGLNRKMPFSTDDSVDHPVSLYAATKKANEL 160
>NUCEPIMERASE#Nucleotide sugar epimerase signature. Length = 334 Score = 43.2 bits (102), Expect = 3e-08 Identities = 23/88 (26%), Positives = 36/88 (40%), Gaps = 20/88 (22%) Query: 14 YNIGGSNERSNIEVVQKICDLLEELAPTHPHAFAVNGIGFRGLIQHVEDRPGYDVR--YA 71 YNIG S S +E++ I LE+ +G + +PG DV A Sbjct: 258 YNIGNS---SPVELMDYI-QALEDA------------LGIEAKKNMLPLQPG-DVLETSA 300 Query: 72 IDASKLEHELGWQPYESFESGLRKTVKW 99 D L +G+ P + + G++ V W Sbjct: 301 -DTKALYEVIGFTPETTVKDGVKNFVNW 327
>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature. Length = 1541 Score = 52.8 bits (126), Expect = 5e-09 Identities = 36/208 (17%), Positives = 79/208 (37%), Gaps = 15/208 (7%) Query: 424 KAKERYQAALEQQP-NFPDAKANLALAEKLLEEQQQQSKNDQQ----NKNQGQQGDQQNS 478 + R A P ++ +AE +E + KN+Q + + S Sbjct: 1015 EEIARVDEAPVPPPAPATPSETTETVAENSKQESKTVEKNEQDATETTAQNREVAKEAKS 1074 Query: 479 SDNGEQQSNE-QQSGSQASQEQQQPDQDKSQQNKSEQAEQGSKEQQDNANADQNLEQQKE 537 + Q+NE QSGS+ + Q ++ + K E+A+ +++ Q+ + Sbjct: 1075 NVKANTQTNEVAQSGSETKETQTTETKETATVEKEEKAKVETEKTQE--------VPKVT 1126 Query: 538 DEQPPEQEKLNGHNQSDSDETQENAPVENEAKMQAQAKADTEQSAEQEKQNLGAKEAPEK 597 + P+QE+ Q ++ +EN P N + Q+Q + ++ + ++ + Sbjct: 1127 SQVSPKQEQSET-VQPQAEPARENDPTVNIKEPQSQTNTTADTEQPAKETSSNVEQPVTE 1185 Query: 598 NTPDKQDATITESLEPPMNSEPLPPEMQ 625 +T ++ E+ E + P Sbjct: 1186 STTVNTGNSVVENPENTTPATTQPTVNS 1213 Score = 44.7 bits (105), Expect = 1e-06 Identities = 27/202 (13%), Positives = 66/202 (32%), Gaps = 7/202 (3%) Query: 423 DKAKERYQAALEQQPNFPDAKANLALAEKLLEEQQQQSKNDQQNKNQGQQGDQQNSSDNG 482 + + + A E + N +A+ E ++ Q+ ++ ++ + ++ Sbjct: 1060 ETTAQNREVAKEAKSNVKANTQTNEVAQSGSETKETQTTETKETATVEKEEKAKVETEK- 1118 Query: 483 EQQSNEQQSGSQASQEQQQPDQDKSQQNKSEQAEQGSKEQQDNANADQNLEQQKEDEQP- 541 Q+ + S QEQ + Q +++ + KE Q N + EQ ++ Sbjct: 1119 TQEVPKVTSQVSPKQEQSETVQPQAEPARENDPTVNIKEPQSQTNTTADTEQPAKETSSN 1178 Query: 542 PEQEKLNGHNQSDSDETQENAPVENEAKMQAQAKADTE-----QSAEQEKQNLGAKEAPE 596 EQ + + EN A Q +++ + + E Sbjct: 1179 VEQPVTESTTVNTGNSVVENPENTTPATTQPTVNSESSNKPKNRHRRSVRSVPHNVEPAT 1238 Query: 597 KNTPDKQDATITESLEPPMNSE 618 ++ D+ + + N+ Sbjct: 1239 TSSNDRSTVALCDLTSTNTNAV 1260 Score = 43.1 bits (101), Expect = 4e-06 Identities = 22/174 (12%), Positives = 58/174 (33%), Gaps = 1/174 (0%) Query: 484 QQSNEQQSGSQASQEQQQPDQDKSQQNKSEQAEQGSKEQQDNANADQNLEQQKEDEQPPE 543 + + + ++ + P + SE E ++ + + + EQ + Sbjct: 1006 DVPSVPSNNEEIARVDEAPVPPPAPATPSETTETVAENSKQESKTVEKNEQDATETTAQN 1065 Query: 544 QEKLNGHNQSDSDETQENAPVENEAKMQAQAKADTEQSAEQEKQNLGAKEAPEKNTPDKQ 603 +E + TQ N ++ ++ + +T+++A EK+ E + K Sbjct: 1066 REVAKEAKSNVKANTQTNEVAQSGSETKETQTTETKETATVEKEEKAKVETEKTQEVPKV 1125 Query: 604 DATITESLEPPMNSEP-LPPEMQRALRGVSEDPQVLLRNKMQLEYQKRRQNGQI 656 + ++ E +P P + ++PQ E + + + Sbjct: 1126 TSQVSPKQEQSETVQPQAEPARENDPTVNIKEPQSQTNTTADTEQPAKETSSNV 1179 Score = 37.4 bits (86), Expect = 2e-04 Identities = 25/208 (12%), Positives = 64/208 (30%), Gaps = 3/208 (1%) Query: 424 KAKERYQAALEQQPNFPDAKANLALAEKL--LEEQQQQSKNDQQ-NKNQGQQGDQQNSSD 480 K + + EQ A+ E ++ Q ++ Q ++ + Q + + Sbjct: 1045 KQESKTVEKNEQDATETTAQNREVAKEAKSNVKANTQTNEVAQSGSETKETQTTETKETA 1104 Query: 481 NGEQQSNEQQSGSQASQEQQQPDQDKSQQNKSEQAEQGSKEQQDNANADQNLEQQKEDEQ 540 E++ + + + + Q +Q +SE + ++ ++N E Q + Sbjct: 1105 TVEKEEKAKVETEKTQEVPKVTSQVSPKQEQSETVQPQAEPARENDPTVNIKEPQSQTNT 1164 Query: 541 PPEQEKLNGHNQSDSDETQENAPVENEAKMQAQAKADTEQSAEQEKQNLGAKEAPEKNTP 600 + E+ S+ ++ + N + +T + Q N + P+ Sbjct: 1165 TADTEQPAKETSSNVEQPVTESTTVNTGNSVVENPENTTPATTQPTVNSESSNKPKNRHR 1224 Query: 601 DKQDATITESLEPPMNSEPLPPEMQRAL 628 + +S L Sbjct: 1225 RSVRSVPHNVEPATTSSNDRSTVALCDL 1252
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 34.0 bits (78), Expect = 9e-04 Identities = 35/139 (25%), Positives = 53/139 (38%), Gaps = 19/139 (13%) Query: 45 LIALIANG--HLLVEGPPGLAKT---RAVKALCDGVEGDFHRIQ---FTPDLLPADLTG- 95 ++A + L++ G G K RA+ G F I DL+ ++L G Sbjct: 152 VLARLMQTDLTLMITGESGTGKELVARALHDYGKRRNGPFVAINMAAIPRDLIESELFGH 211 Query: 96 -----TDIYRSQTGTFEFEAGPIFHNLILADEINRAPAKVQSALLEAMAEGQVT-VGKHS 149 T TG FE G + DEI P Q+ LL + +G+ T VG + Sbjct: 212 EKGAFTGAQTRSTGRFEQAEG----GTLFLDEIGDMPMDAQTRLLRVLQQGEYTTVGGRT 267 Query: 150 YKLPPLFLVMATQNPLENE 168 + +V AT L+ Sbjct: 268 PIRSDVRIVAATNKDLKQS 286
>BONTOXILYSIN#Bontoxilysin signature. Length = 1196 Score = 37.6 bits (87), Expect = 5e-04 Identities = 41/207 (19%), Positives = 76/207 (36%), Gaps = 15/207 (7%) Query: 118 LIGTDKGLVLYNKNDESFNTLDIKSEYLDGEIWSLSNNDFNNEILVGINKGIVSLDLKNN 177 LI + L +D +++E + + L+ D I G++ ++ + Sbjct: 226 LIKSLYFLYGIKPSDNLVVPYRLRTELDNKQFSQLNIIDL--LISGGVDLEFINTNP--Y 281 Query: 178 NIRNDYIGKDYLEVKKSLNIDNEIFIKSYDGKLFEIKNNNKKMLMTDVLDIGSYEGNLFI 237 N Y +K NI + I+ + +IK K+ +V DI + N F Sbjct: 282 WFTNSYFPNSIKMFEKYKNI-YKTEIEGNNAIGNDIKLRLKQKFQINVQDIWNLNLNYFC 340 Query: 238 STNNGLYKYRKGNLKKSSSIIYDFLSETEGELYGINKNKIYNIKRNILIGQISNRKEKIE 297 + N + R N K Y + Y ++ YNI + GQI+ + Sbjct: 341 QSFNSIIPDRFSNALKH---FYR------KQYYTMDYTDNYNIN-GFVNGQINTKLPLSN 390 Query: 298 QTYFIAYQNSLIIGLNNQGFELIKKSN 324 + I + ++ L N+ + KSN Sbjct: 391 KNTNIISKPEKVVNLVNENNISLMKSN 417
>TCRTETA#Tetracycline resistance protein signature. Length = 399 Score = 41.3 bits (97), Expect = 5e-06 Identities = 66/356 (18%), Positives = 121/356 (33%), Gaps = 48/356 (13%) Query: 47 GFLLAILMATRIVAPNVWAKVADRTGMRAELIKMGAGAAALAYLSFFYHGGFVYMALSLA 106 G LLA+ + V ++DR G R L+ AGAA + MA + Sbjct: 46 GILLALYALMQFACAPVLGALSDRFGRRPVLLVSLAGAAVDYAI----------MATAPF 95 Query: 107 LYTFFWNAILAQLEVIT----------LETLGENASRYGQIRSFGSIGFICLVVGAGFAI 156 L+ + I+A + T + E A +G + + G + AG + Sbjct: 96 LWVLYIGRIVAGITGATGAVAGAYIADITDGDERARHFGFMSACFGFGMV-----AGPVL 150 Query: 157 GQWGTEVLPYI---------GLMLFTGMLLSALPLPANRAVRPAGQERHRLK-------W 200 G P+ GL TG L LP RP +E Sbjct: 151 GGLMGGFSPHAPFFAAAALNGLNFLTGCFL--LPESHKGERRPLRREALNPLASFRWARG 208 Query: 201 TKPIVWFMISAMLLQMSAGPFYGFFVLYLKQA-GYSESSAGI-FVALGAMAEIVMFMFAP 258 + M ++Q+ +V++ + + ++ GI A G + + M Sbjct: 209 MTVVAALMAVFFIMQLVGQVPAALWVIFGEDRFHWDATTIGISLAAFGILHSLAQAMITG 268 Query: 259 RLLGRYGVNTLLIVSIGMTCLRWLLVAFGVDNVLWLGFSQLLHAFTFGLTHAASIQFVHK 318 + R G L++ + ++L+AF W+ F ++ + G+ A + + Sbjct: 269 PVAARLGERRALMLGMIADGTGYILLAFATRG--WMAFPIMVLLASGGIGMPALQAMLSR 326 Query: 319 HFDASHRSQGQALYASLSFGVGGALGTWICGFIWGDGSGAVWSWVFAAVCAFAAML 374 D + Q Q A+L+ + +G + I+ W + A A + Sbjct: 327 QVDEERQGQLQGSLAALT-SLTSIVGPLLFTAIYAASITTWNGWAWIAGAALYLLC 381
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 47.9 bits (114), Expect = 4e-08 Identities = 34/193 (17%), Positives = 66/193 (34%), Gaps = 15/193 (7%) Query: 91 LAVIDAKRQQYDLDRSEAEVKIIEQELNRLNKMSNKEFISADSLAKLEYNLQAAIAKKDL 150 + + Y + E +I+ + + D L + N+ + Sbjct: 261 YVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDNIGLLTLELAK 320 Query: 151 AELQVKESRVISPIDGVIAKRYVKAGNMAKEFGD-LFYIV-NQDELHGIVHLPEQQLTSL 208 E + + S + +P+ + + V + L IV D L + + + + Sbjct: 321 NEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAETLMVIVPEDDTLEVTALVQNKDIGFI 380 Query: 209 KLGQEAQI-FS--NQQSNQTIDAKVLRISP--IVDPQSGT-FKVTLAVP-------NENA 255 +GQ A I + KV I+ I D + G F V +++ N+N Sbjct: 381 NVGQNAIIKVEAFPYTRYGYLVGKVKNINLDAIEDQRLGLVFNVIISIEENCLSTGNKNI 440 Query: 256 RLKAGMFTRVELK 268 L +GM E+K Sbjct: 441 PLSSGMAVTAEIK 453 Score = 42.9 bits (101), Expect = 1e-06 Identities = 28/184 (15%), Positives = 68/184 (36%), Gaps = 30/184 (16%) Query: 71 SGLIESITVEEGDRVRKGQVLAVIDAKRQQYDLDRSEA------------EVKIIEQELN 118 + +++ I V+EG+ VRKG VL + A + D ++++ ++ ELN Sbjct: 104 NSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELN 163 Query: 119 RLNKMSNKEFISADSLAKLE-------YNLQAAIAKKDLAELQVKESRVISPIDGVIAKR 171 +L ++ + ++++ E Q + + + ++ + + V+A+ Sbjct: 164 KLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARI 223 Query: 172 YVKAGNMAKEFGDLFYIVNQDELHGIVHLPEQQLTSLK--LGQEAQIFSNQQSNQTIDAK 229 E + L L +Q + L QE + + ++ Sbjct: 224 NRYENLSRVE---------KSRLDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQ 274 Query: 230 VLRI 233 + +I Sbjct: 275 LEQI 278
>GPOSANCHOR#Gram-positive coccus surface protein anchor signature. Length = 539 Score = 43.1 bits (101), Expect = 1e-06 Identities = 36/311 (11%), Positives = 98/311 (31%), Gaps = 8/311 (2%) Query: 12 QQVRNELIAQGRHPSVELVRSELGS--GSNTTILKYLRELEVDEKGRLDNLSALSDELGQ 69 + + + + ++E V+ N T+ +L + K D+ L++EL Sbjct: 37 TNEVSAVATRSQTDTLEKVQERADKFEIENNTLKLKNSDLSFNNKALKDHNDELTEELSN 96 Query: 70 FVGHLAQ-----RLQEEAMQRIKTTEERHHLVIAERQRQLDVLRQELMAISEHRDKLEHQ 124 L + + +Q ++ + + ++ + + L + Sbjct: 97 AKEKLRKNDKSLSEKASKIQELEARKADLEKALEGAMNFSTADSAKIKTLEAEKAALAAR 156 Query: 125 HREALAQIEELKHARHEDALQLSSMTSENRHLSGTIQDKEKHIQSLEEKHTHARHALEHY 184 + +E + D+ ++ ++ +E L + EK ++ T A Sbjct: 157 KADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMNFSTADS-AKIKT 215 Query: 185 RESVKTQREQEQHRHDHQVQQLQAELRLSHQALSVKQQECTTLKEQTQQQSAELHHATQS 244 E+ K + + ++ + + E L+ + + L A Sbjct: 216 LEAEKAALAARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMNF 275 Query: 245 VSKIEQQLLGSQNSQQQTEQQLYRKDTELNRLQKQHEDLQQQYAAAAAKVASLQANEQAW 304 + ++ + + E + + + L + L++ A+ L+A Q Sbjct: 276 STADSAKIKTLEAEKAALEAEKADLEHQSQVLNANRQSLRRDLDASREAKKQLEAEHQKL 335 Query: 305 LQEKAALSASL 315 ++ AS Sbjct: 336 EEQNKISEASR 346 Score = 34.7 bits (79), Expect = 6e-04 Identities = 24/236 (10%), Positives = 68/236 (28%), Gaps = 1/236 (0%) Query: 80 EEAMQRIKTTEERHHLVIAERQRQLDVLRQELMAISEHRDKLEHQHREALAQIEELKHAR 139 ++ E ++ L E A+ + +LE A+ Sbjct: 154 AARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMNFSTADSAKI 213 Query: 140 HEDALQLSSMTSENRHLSGTIQDKEKHIQSLEEKHTHARHALEHYRESVKTQREQEQHRH 199 + +++ + L ++ + K + E+ Sbjct: 214 KTLEAEKAALAARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQA-ELEKALEGA 272 Query: 200 DHQVQQLQAELRLSHQALSVKQQECTTLKEQTQQQSAELHHATQSVSKIEQQLLGSQNSQ 259 + A+++ + + E L+ Q+Q +A + + + + Sbjct: 273 MNFSTADSAKIKTLEAEKAALEAEKADLEHQSQVLNANRQSLRRDLDASREAKKQLEAEH 332 Query: 260 QQTEQQLYRKDTELNRLQKQHEDLQQQYAAAAAKVASLQANEQAWLQEKAALSASL 315 Q+ E+Q + L++ + ++ A+ L+ + + +L L Sbjct: 333 QKLEEQNKISEASRQSLRRDLDASREAKKQLEAEHQKLEEQNKISEASRQSLRRDL 388
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 47.3 bits (112), Expect = 6e-09 Identities = 18/71 (25%), Positives = 36/71 (50%) Query: 3 RDTRTTLLDIAEYNARSRGFDGFSYADLAVAVGIRKASIHYHFPTKADLSDHLIARYHTS 62 ++TR +LD+A +G S ++A A G+ + +I++HF K+DL + ++ Sbjct: 10 QETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWELSESN 69 Query: 63 LKERLAEIEND 73 + E E + Sbjct: 70 IGELELEYQAK 80
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 70.8 bits (173), Expect = 2e-17 Identities = 33/180 (18%), Positives = 70/180 (38%), Gaps = 11/180 (6%) Query: 7 KMAENREKLIAAARRAFAEHGYAAASMDTLTAEAGLTRGALYHNFGDKRGLLAAVVDQID 66 + E R+ ++ A R F++ G ++ S+ + AG+TRGA+Y +F DK L + + + + Sbjct: 8 EAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWELSE 67 Query: 67 SEMAEYAK-SVGAKAENAWSGLLAEGAAYIEKALDPEVQRIVLLDGPSVLGDPSQWPSQN 125 S + E + S L +E + E +R+++ + Sbjct: 68 SNIGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFVGEMAVVQ 127 Query: 126 KCLQSTRS--------TIEKLIENGTVKP-VDAEAAAMLLNGAALNAAL-WLASSAEPQA 175 + ++ T++ IE + + AA+++ G WL + Sbjct: 128 QAQRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYISGLMENWLFAPQSFDL 187
>RTXTOXINA#Gram-negative bacterial RTX toxin determinant A family signature. Length = 1024 Score = 30.7 bits (69), Expect = 0.025 Identities = 37/161 (22%), Positives = 66/161 (40%), Gaps = 16/161 (9%) Query: 635 EQLKRQGCSVSIASGDHSGHVYQLAKELGIEDVHSGLTPADKLA-----LVTELQKTSTV 689 E +K+Q +++S + + +L +L ++ V S + + L + L T + Sbjct: 164 ELIKKQKSGGNVSSSELAKASIELINQL-VDTVASLNNNVNSFSQQLNTLGSVLSNTKHL 222 Query: 690 AMFGDGINDAPVL--AGADLSVAMGSGSAIAKNSADLILLGDHLSRFTQAVSVAKLTTQI 747 G+ + + P L GA L G SAI SA IL T+A + +LTT++ Sbjct: 223 NGVGNKLQNLPNLDNIGAGLDTVSGILSAI---SASFILSNADADTRTKAAAGVELTTKV 279 Query: 748 I----KQNLAWALGYNALILPLAVTGHVAPYIAAIGMSASS 784 + K + + L+ + A IA+ A S Sbjct: 280 LGNVGKGISQYIIA-QRAAQGLSTSAAAAGLIASAVTLAIS 319
>FLGFLGJ#Flagellar protein FlgJ signature. Length = 313 Score = 40.1 bits (93), Expect = 5e-06 Identities = 31/89 (34%), Positives = 40/89 (44%), Gaps = 12/89 (13%) Query: 139 VPESMVLIQAANESGWGSSRFARE----GFNFFGEWCFSTGCGIVPSSR------GSGKM 188 VP ++L QAA ESGWG + RE +N FG G V G K Sbjct: 169 VPHHLILAQAALESGWGQRQIRRENGEPSYNLFGVKASGNWKGPVTEITTTEYENGEAKK 228 Query: 189 HEVK--VFSSVDASVSSYMRNLNSNPAYA 215 + K V+SS ++S Y+ L NP YA Sbjct: 229 VKAKFRVYSSYLEALSDYVGLLTRNPRYA 257
>PF05272#Virulence-associated E family protein Length = 892 Score = 30.8 bits (69), Expect = 0.019 Identities = 11/45 (24%), Positives = 20/45 (44%), Gaps = 4/45 (8%) Query: 341 ILEAGAK----LAIIGENGVGKTTLLRCLVNELIHNEGTIKWSEN 381 ++E G K + + G G+GK+TL+ LV ++ Sbjct: 588 VMEPGCKFDYSVVLEGTGGIGKSTLINTLVGLDFFSDTHFDIGTG 632
>TCRTETB#Tetracycline resistance protein TetB signature. Length = 458 Score = 46.4 bits (110), Expect = 1e-07 Identities = 37/217 (17%), Positives = 85/217 (39%), Gaps = 3/217 (1%) Query: 14 LLALALAGFVTILTEALPAGLLPQIGAGLGVSEALAGQLVTVYAIGSLLMAIPLMTITQG 73 L+ L + F ++L E + LP I A + T + + + ++ Sbjct: 16 LIWLCILSFFSVLNEMVLNVSLPDIANDFNKPPASTNWVNTAFMLTFSIGTAVYGKLSDQ 75 Query: 74 VRRRPLLLAAIVGFAVANTVTTFSTSY-TLTLVARFLAGVAAGLLWALLAGYASRMVPEH 132 + + LLL I+ + + S+ +L ++ARF+ G A AL+ +R +P+ Sbjct: 76 LGIKRLLLFGIIINCFGSVIGFVGHSFFSLLIMARFIQGAGAAAFPALVMVVVARYIPKE 135 Query: 133 LKGRAIAIAMVGTPLALSLGVPAGTLLGNLVGWRVCFAMMSLLALMLIVWIRLKVPDFAG 192 +G+A + + +G G ++ + + W + + ++ V +K+ Sbjct: 136 NRGKAFGLIGSIVAMGEGVGPAIGGMIAHYIHWSYLLLIP--MITIITVPFLMKLLKKEV 193 Query: 193 QATGKRLSLGQVFTLPGIRPVLFVVLTFVLAHNILYT 229 + G G + GI + ++ ++ I+ Sbjct: 194 RIKGHFDIKGIILMSVGIVFFMLFTTSYSISFLIVSV 230
>TCRTETA#Tetracycline resistance protein signature. Length = 399 Score = 61.0 bits (148), Expect = 2e-12 Identities = 79/350 (22%), Positives = 129/350 (36%), Gaps = 18/350 (5%) Query: 8 LVALFAGVVAVCGPVMVLWLARFERRKVLAVSLLIFSLCSLLSARAPSFAVLMALRVPSA 67 L+AL+A + C PV+ RF RR VL VSL ++ + A AP VL R+ + Sbjct: 48 LLALYALMQFACAPVLGALSDRFGRRPVLLVSLAGAAVDYAIMATAPFLWVLYIGRIVAG 107 Query: 68 LLHPVFFSVAFASALSLYPADRAAHATSMAFLGTTLGLVLGVPLSTWIEATVSYEASFYF 127 + +VA A + D A G+V G P+ + S A F+ Sbjct: 108 ITGAT-GAVAGAYIADITDGDERARHFGFMSACFGFGMVAG-PVLGGLMGGFSPHAPFFA 165 Query: 128 SAVVNLVAA-AGLWVMLPPRPKTRVASQQ---NPLLVLRTKRVWLAVATAVCMFAAMFSV 183 +A +N + G +++ R ++ NPL R R VA + +F M V Sbjct: 166 AAALNGLNFLTGCFLLPESHKGERRPLRREALNPLASFRWARGMTVVAALMAVFFIMQLV 225 Query: 184 YSYAAE----YLAREVHLGGEAISLLLVVFGIGGVLGN-LIAGRALGRQLAWTVLSYPIV 238 A + H I + L FGI L +I G R L ++ Sbjct: 226 GQVPAALWVIFGEDRFHWDATTIGISLAAFGILHSLAQAMITGPVAARLGERRALMLGMI 285 Query: 239 LASAYSVLLVFSSASFAAMLPICLLWGAAHTSGLIVSQMWMTSAAPDAPEFATSLYVSAA 298 +LL F++ + A + LL + M + + Sbjct: 286 ADGTGYILLAFATRGWMAFPIMVLLASGGIGMPAL-QAMLSRQVDEERQGQLQGSLAALT 344 Query: 299 NLGVVLGAFVGGSFIESVGMPGVIWSGWLF---AGLAVVFVLARRIKSWS 345 +L ++G + I + + W+GW + A L ++ + A R WS Sbjct: 345 SLTSIVGPLLFT-AIYAASIT--TWNGWAWIAGAALYLLCLPALRRGLWS 391
>PF07520#Virulence protein SrfB Length = 1041 Score = 28.8 bits (64), Expect = 0.016 Identities = 21/97 (21%), Positives = 41/97 (42%), Gaps = 12/97 (12%) Query: 64 RLARNTRHLLEIAEFLAKKQVSLQIQNLG-----IDTATPT--GKLMLTMVGAIATFERE 116 R +R++ +AE +A +QI + + P +++L++ A + E+ Sbjct: 455 RFSRSSLFGFMLAEVIA--HAMVQINDPASRSRRSQSDLPRRLNRVILSLPTATSVQEQA 512 Query: 117 LMLERQAEGIALAKQRGKYKGRKPTAITKAKEAAPLL 153 ++ R + + L K + G K T A E P L Sbjct: 513 MIRSRVSGALTLVK---EMLGTKDGTSTIAVEGKPEL 546
>CABNDNGRPT#NodO calcium binding signature. Length = 479 Score = 33.4 bits (76), Expect = 0.001 Identities = 18/51 (35%), Positives = 21/51 (41%), Gaps = 6/51 (11%) Query: 80 GNDQFTRGDKIDRPPGGAG-----GGAGKGDASDSGEGNDDFVFEISKDEY 125 GND + GGAG GGAG D G G D FV+ +D Sbjct: 348 GNDILVGNSADNILQGGAGNDVLYGGAG-ADTLYGGAGRDTFVYGSGQDST 397
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 32.1 bits (73), Expect = 0.009 Identities = 19/108 (17%), Positives = 39/108 (36%), Gaps = 13/108 (12%) Query: 610 KRQEQEQEKRFQNQAA-------HLQKQQSKMQIVNDENNALKQQLAEFNKAFEMQFQIN 662 R E+ + F + + +Q++K +E K QL + +I Sbjct: 230 SRVEKSRLDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIES------EIL 283 Query: 663 LSKAQSQKLMQNFLAEVITQIMQEQDRLLAQICQTQANGGDESQIAIT 710 +K + Q + Q F E++ ++ Q D + + N + I Sbjct: 284 SAKEEYQLVTQLFKNEILDKLRQTTDNIGLLTLELAKNEERQQASVIR 331
>MICOLLPTASE#Microbial collagenase metalloprotease (M9) signature. Length = 1104 Score = 69.7 bits (170), Expect = 4e-14 Identities = 34/127 (26%), Positives = 61/127 (48%), Gaps = 7/127 (5%) Query: 784 APVASFTQVVNGATVQLTST-SSDSDGHIVSAEWNLGDNTVAVGNVVTHSYRQSGEYQVT 842 A + S + V+ + T S D DG I + EW+ GD + TH Y ++GEY+V Sbjct: 777 AVIKSDSSVIVEEEINFDGTESKDEDGEIKAYEWDFGDGEKSNEAKATHKYNKTGEYEVK 836 Query: 843 LTVTDNDGLTHSISQKVTVVVEN-----VKKPPVAQIQRIN-LWLVDMFISTSYDTDGVI 896 LTVTDN+G ++ S+K+ VV + + P ++ N + +M + + + Sbjct: 837 LTVTDNNGGINTESKKIKVVEDKPVEVINESEPNNDFEKANQIAKSNMLVKGTLSEEDYS 896 Query: 897 KQHKWTF 903 ++ + Sbjct: 897 DKYYFDV 903 Score = 40.5 bits (94), Expect = 4e-05 Identities = 18/55 (32%), Positives = 32/55 (58%), Gaps = 1/55 (1%) Query: 889 SYDTDGVIKQHKWTFDNGTRAN-GQVVLRLARRGQHTVELTVKDNDKLTDTTTLT 942 S D DG IK ++W F +G ++N + + + G++ V+LTV DN+ +T + Sbjct: 798 SKDEDGEIKAYEWDFGDGEKSNEAKATHKYNKTGEYEVKLTVTDNNGGINTESKK 852
>SACTRNSFRASE#Streptothricin acetyltransferase signature. Length = 173 Score = 41.1 bits (96), Expect = 3e-07 Identities = 20/57 (35%), Positives = 30/57 (52%) Query: 80 LILNDVFVTQHARCVGIGRALVQRAARYAKEQNISYLILETQRDNRRAQGLYEALGF 136 ++ D+ V + R G+G AL+ +A +AKE + L+LETQ N A Y F Sbjct: 90 ALIEDIAVAKDYRKKGVGTALLHKAIEWAKENHFCGLMLETQDINISACHFYAKHHF 146
>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature. Length = 1541 Score = 61.6 bits (149), Expect = 2e-11 Identities = 68/379 (17%), Positives = 111/379 (29%), Gaps = 36/379 (9%) Query: 516 YK-RIEHPEAKLYEPR--KLERTAAPTPALKGFAAPQKVEQAPSPTVKIEAPQPSFFSKL 572 YK R + LY P K +T T V PS +I Sbjct: 969 YKLRNVNGRYDLYNPEVEKRNQTVDTTNITTPNNIQADVPSVPSNNEEIARVD------- 1021 Query: 573 IGTITALFASSDKAEPAKTTETK--NTDTNAANANRRNRRTDTRRPRNSQDADKAKEGNR 630 A A P++TTET N+ + + + +N + A +AK + Sbjct: 1022 ----EAPVPPPAPATPSETTETVAENSKQESKTVEKNEQDATETTAQNREVAKEAKSNVK 1077 Query: 631 EPRNRNAKKTAEPVAVATQERAVREKEDSAK-RPAKVETKPRVQAPKEVI------ADLE 683 N + TQ +E K AKVET+ + PK E Sbjct: 1078 ANTQTNEVAQSGSETKETQTTETKETATVEKEEKAKVETEKTQEVPKVTSQVSPKQEQSE 1137 Query: 684 ADAPKQEVARERRQRRNMRRKVRIDNGNNTPDNAIPIAPEEAAEVLAEIAAINAAASIDA 743 P+ E ARE N++ N + + + E +N S+ Sbjct: 1138 TVQPQAEPARENDPTVNIKEPQSQTNTTADTEQPAKETSSNVEQPVTESTTVNTGNSVVE 1197 Query: 744 KAEVAAEAPTIEPKA-------PRARRQPRKEAIPAQATLEAVA-EEGTPVETAPIETAS 795 E A T +P P+ R + ++P + + + V + + + Sbjct: 1198 NPENTTPA-TTQPTVNSESSNKPKNRHRRSVRSVPHNVEPATTSSNDRSTVALCDLTSTN 1256 Query: 796 VDVVEIPVTVTADTSEMAEPLVVSQHNEAESAEDENTSA----DEQSKREQRDGQRRSRR 851 + V A + VSQH +E + + Q R Sbjct: 1257 TNAVLSDARAKAQFVALNVGKAVSQHISQLEMNNEGQYNVWVSNTSMNKNYSSSQYRRFS 1316 Query: 852 SPRHLRAAGQRRRRDEDDQ 870 S G + + Q Sbjct: 1317 SKSTQTQLGWDQTISNNVQ 1335 Score = 39.7 bits (92), Expect = 8e-05 Identities = 48/238 (20%), Positives = 75/238 (31%), Gaps = 14/238 (5%) Query: 875 PAQFVPNDELGADQEYPTEVTHSAHITGPSSAPT---VEAVKAETVEQAVTEVVAVVEYV 931 + + AD P+ +++ I AP A +ET E + V Sbjct: 994 TTNITTPNNIQADV--PSVPSNNEEIARVDEAPVPPPAPATPSETTETVAENSKQESKTV 1051 Query: 932 APVTAPVSTTEIEKIAIADAPVAETPVIQKVAAEATITPVVPETTETQVLEPKIEETKAE 991 + T + +A + + + ET ETQ E K T Sbjct: 1052 EKNEQDATETTAQNREVAKEAKSNVKANTQ---TNEVAQSGSETKETQTTETKETAT--- 1105 Query: 992 TVEDIAEAKTEPQVVLQPASVVKATVVQDITKVPTKAVASAPMTKPAAIVK-PQPKVQTE 1050 VE +AK E + Q V + V + T + P + V +P+ QT Sbjct: 1106 -VEKEEKAKVETEKT-QEVPKVTSQVSPKQEQSETVQPQAEPARENDPTVNIKEPQSQTN 1163 Query: 1051 ATNVNSQAADVTDAVVSKPKTTSRFGAMVSSDMTKPVVEVRTQVEVPKGREYDNTPSE 1108 T Q A T + V +P T S +S + P + E N P Sbjct: 1164 TTADTEQPAKETSSNVEQPVTESTTVNTGNSVVENPENTTPATTQPTVNSESSNKPKN 1221
>FLAGELLIN#Flagellin signature. Length = 507 Score = 40.0 bits (93), Expect = 1e-04 Identities = 50/407 (12%), Positives = 99/407 (24%), Gaps = 40/407 (9%) Query: 1095 LASQITTVQASATAANSAASTAQTAADQAKA-----------DAATAAGIANGKGKVIIQ 1143 S I + ++ AN S AQT G + IQ Sbjct: 53 FTSNIKGLTQASRNANDGISIAQTTEGALNEINNNLQRVRELSVQATNGTNSDSDLKSIQ 112 Query: 1144 SSAPAAADRLAQNLWIDTTGNANTPKRWNGSTWVAVTDKAATDAASAAAAAQAAADAAQQ 1203 + + + + N K + + + A + + Sbjct: 113 DEIQQRLEEIDR---VSNQTQFNGVKVLSQDNQMKIQVGANDGETITIDLQKIDVKSLGL 169 Query: 1204 GVIQNAAAIQTEQTARADADSALASQITTVQASATAANSAASTAQTAADQAKADAATAAG 1263 + + + + +++S + A A + A Sbjct: 170 D--------------GFNVNGPKEATVGDLKSSFKNVTGYDTYAVGANKYRVDVNSGAVV 215 Query: 1264 IANGKGKVIIQSSAPATADRLAQNLWIDTTGNANTPKRWSGSAWVAVTDKAATDAASAAA 1323 V + A +L + + T T A A + A Sbjct: 216 TDTTAPTVPDKVYVNAANGQLTTDDAENNTAVDLF----------KTTKSTAGTAEAKAI 265 Query: 1324 AAQAAADAAQQGVIQNAAAIQTEQTARADADSALATQITTVQASATAANSAASTAQTAAD 1383 A + D + ++T I + + T A+ A A A Sbjct: 266 AGAIKGGKEGDTFDYKGVTFTIDTKTGNDGNGKVSTTINGEKVTLTVADITAGAANVDAA 325 Query: 1384 QAKADAAAAAGIANGKGKVIIQSSAPATADRLAQNLWIDTTGNANTPKRWNGSAWVAVTD 1443 ++ + NG+ ++ + + + T +A Sbjct: 326 TLQSSKNVYTSVVNGQFTFDDKTKNESAKLSDLEANNAVKGESKITVNGAEYTA--NAAG 383 Query: 1444 KAATDAASAAAAAQAAADAANTKATQNAAAIQQEQTARADADSALAT 1490 T A + A+ + AAA + A DSAL+ Sbjct: 384 DKVTLAGKTMFIDKTASGVSTLINEDAAAAKKSTANPLASIDSALSK 430 Score = 39.6 bits (92), Expect = 1e-04 Identities = 33/304 (10%), Positives = 72/304 (23%), Gaps = 30/304 (9%) Query: 1348 TARADADSALATQITTVQASATAANSAASTAQTAADQAKADAAAAAGIANGKGKVIIQSS 1407 + + + +++S + A A + A V + Sbjct: 169 LDGFNVNGPKEATVGDLKSSFKNVTGYDTYAVGANKYRVDVNSGAVVTDTTAPTVPDKVY 228 Query: 1408 APATADRLAQNLWIDTTGNANTPKRWNGSAWVAVTDKAATDAASAAAAAQAAADAANTKA 1467 A +L + + T T A A + A A Sbjct: 229 VNAANGQLTTDDAENNTAVDLF----------KTTKSTAGTAEAKAIAGAIKGGKEGDTF 278 Query: 1468 TQNAAAIQQEQTARADADSALATQITTVQASATAANSAASTAQTAADQAKADAAAAAGIA 1527 + D + ++T I + + T A+ A A A ++ + Sbjct: 279 DYKGVTFTIDTKTGNDGNGKVSTTINGEKVTLTVADITAGAANVDAATLQSSKNVYTSVV 338 Query: 1528 NGKGKVIIQSSAPATADRLAQNLWIDTTGNANTPKRWNGSAWVAVTDKAATDAASAAAAA 1587 NG+ ++ + A+ ++ + + + A A Sbjct: 339 NGQFTFDDKTKNES-----AKLSDLEANNAVKGESKITVNGAEYTANAAGDKVTLAGKTM 393 Query: 1588 QAAADAANTKATQNAAAIQQEQTARADADSALATQITTVQASAAFNAAAIQNEATARADA 1647 A+ N A + A +A+ R+ Sbjct: 394 FIDKTASGVSTLINEDAA---------------AAKKSTANPLASIDSALSKVDAVRSSL 438 Query: 1648 DSTQ 1651 + Q Sbjct: 439 GAIQ 442
>CLENTEROTOXN#Clostridium enterotoxin signature. Length = 319 Score = 28.1 bits (62), Expect = 0.017 Identities = 11/44 (25%), Positives = 17/44 (38%), Gaps = 5/44 (11%) Query: 128 DLADGTYYVTTSITWMTGDYSRQGGLLLKRVYLQDGETAEVIMS 171 +L+DG Y + W+ G+ S + L ET S Sbjct: 36 NLSDGLYVIDKGDGWILGEPSVVSSQI-----LNPNETGTFSQS 74
>PF07520#Virulence protein SrfB Length = 1041 Score = 30.7 bits (69), Expect = 0.006 Identities = 23/73 (31%), Positives = 30/73 (41%), Gaps = 12/73 (16%) Query: 72 PDASSKPSQRDIA--MCEASGLPWHILSWPDGDLRTIAPTGERKPLLERPFVHGVWDCYS 129 P A+S Q I + A L +L DG TIA G +P + WD S Sbjct: 503 PTATSVQEQAMIRSRVSGALTLVKEMLGTKDGT-STIAVEG-------KPELLVDWDEAS 554 Query: 130 CVR--DWYSEVQQ 140 C + YSE+ Q Sbjct: 555 CTQLVYLYSELTQ 567
>PF00577#Outer membrane usher protein FimD Length = 878 Score = 29.4 bits (66), Expect = 0.031 Identities = 24/121 (19%), Positives = 40/121 (33%), Gaps = 12/121 (9%) Query: 283 FYDSTSAAGGAPRLNSQVINRLG----AIGDSANAGNSASVEFKLLTKEAAYTPSELMRR 338 F S G P L + +G ++ + A V + +A +R Sbjct: 96 FNTGDSEQGIVPCLTRAQLASMGLNTASVSGMNLLADDACVPLTSMIHDATAQLDVGQQR 155 Query: 339 LLIETATANNLQGRVYVRNFGQRLPIRGGDWSSGVSAGLGALNLNYSRSSSSIYVGFRPA 398 L + A ++ N R I W G++AGL N + + + I A Sbjct: 156 LNLTIPQA-------FMSN-RARGYIPPELWDPGINAGLLNYNFSGNSVQNRIGGNSHYA 207 Query: 399 Y 399 Y Sbjct: 208 Y 208
>GPOSANCHOR#Gram-positive coccus surface protein anchor signature. Length = 539 Score = 34.3 bits (78), Expect = 0.003 Identities = 22/123 (17%), Positives = 43/123 (34%), Gaps = 3/123 (2%) Query: 79 LSERLEQTKNATYEANSAFADQYKQINRVVSQLDPAIAKYAELDNMQARLSEGVKVGVIS 138 L + A +++ A+ A L+ QA L + ++ + Sbjct: 216 LEAEKAALAARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKALE---GA 272 Query: 139 GEDFTKYNSQLATMREEYDRVYTASGRLQSAQQKEQVELQGLLRQLDPVTAKLAELESQN 198 T ++++ T+ E + L+ Q Q L R LD +LE+++ Sbjct: 273 MNFSTADSAKIKTLEAEKAALEAEKADLEHQSQVLNANRQSLRRDLDASREAKKQLEAEH 332 Query: 199 TKL 201 KL Sbjct: 333 QKL 335
>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature. Length = 1541 Score = 27.3 bits (60), Expect = 0.010 Identities = 16/72 (22%), Positives = 23/72 (31%), Gaps = 5/72 (6%) Query: 21 RASEPFKVDEHHFNELKHNKLVERAPEEKTEEVDAKAVAEAEAKAKEEADAKAAAEAEAK 80 A+E + E K N E A++ +E + E A E E K Sbjct: 1057 DATETTAQNREVAKEAKSNVKANTQTNEV-----AQSGSETKETQTTETKETATVEKEEK 1111 Query: 81 AKEEADAKAAAA 92 AK E + Sbjct: 1112 AKVETEKTQEVP 1123
>GPOSANCHOR#Gram-positive coccus surface protein anchor signature. Length = 539 Score = 30.4 bits (68), Expect = 0.014 Identities = 20/59 (33%), Positives = 32/59 (54%), Gaps = 1/59 (1%) Query: 22 DQIKSAAEETNKQIKASGEMHAETRDKVDKLLLEQGALQARLQEAEQKLLKGPQSQQEE 80 Q++ A EE N ++ A +++ E + E+ LQA+L EAE K LK ++Q E Sbjct: 396 KQVEKALEEANSKLAALEKLNKELEESKKLTEKEKAELQAKL-EAEAKALKEKLAKQAE 453
>SECETRNLCASE#Bacterial translocase SecE signature. Length = 127 Score = 26.4 bits (58), Expect = 0.039 Identities = 9/39 (23%), Positives = 18/39 (46%) Query: 13 VFGLLVVSVLAFGVFFKINQGQIALLKSDLARSEQSKKI 51 ++++ A GV +G+ + + AR+E K I Sbjct: 45 ALAVVILIAAAGGVALLTTKGKATVAFAREARTEVRKVI 83
>CHLAMIDIAOMP#Chlamydia major outer membrane protein signature. Length = 393 Score = 30.4 bits (68), Expect = 0.004 Identities = 9/25 (36%), Positives = 17/25 (68%) Query: 83 SLPNVELNQASYDLYIDWTYQYGIG 107 S+PN+ L+Q+ +LY D + + +G Sbjct: 172 SVPNMSLDQSVVELYTDTAFSWSVG 196
>BICOMPNTOXIN#Staphylococcal bi-component toxin signature. Length = 315 Score = 28.0 bits (62), Expect = 0.006 Identities = 11/60 (18%), Positives = 19/60 (31%), Gaps = 18/60 (30%) Query: 33 TLHYTVTYLESAPWRAAIKHDVQLSNFVRGQERLEEVAATIEAIKEIDWEKHLVKLAAAN 92 + HY +Y H+ FV E++W+ H +K+ N Sbjct: 274 STHYGNSY-----LDGHRVHN----AFVN---------RNYTVKYEVNWKTHEIKVKGQN 315
>SSPAMPROTEIN#Salmonella surface presentation of antigen gene type M signature. Length = 147 Score = 28.9 bits (64), Expect = 0.009 Identities = 20/59 (33%), Positives = 36/59 (61%), Gaps = 3/59 (5%) Query: 136 EALAPLKAPFIEKMKASLVEMAQSEEFHLLLKQEIEQSNIMADLQIKIANIVEQRLNEL 194 E +A LK ++ ++A ++++ E + LL KQ I + I DL+++I I E+R +EL Sbjct: 44 EQIAGLKL-LLDTLRAENRQLSREEIYALLRKQSIVRRQI-KDLELQIIQIQEKR-SEL 99
>OMPADOMAIN#OMPA domain signature. Length = 346 Score = 31.4 bits (71), Expect = 0.020 Identities = 23/90 (25%), Positives = 33/90 (36%), Gaps = 25/90 (27%) Query: 975 KGALAEALVKLYEQEVKADPQLVKDTVLNDTKETSLSAEDILTRWHIALYNLSVKAQNVT 1034 K AL +LY Q DP+ VL T A YN Sbjct: 231 KPEGQAALDQLYSQLSNLDPKDGSVVVLGYTDRIGSDA-----------YNQ-------- 271 Query: 1035 NGMLGDLAQERAKTVKAYLVDAKDISPERI 1064 L++ RA++V YL+ +K I ++I Sbjct: 272 -----GLSERRAQSVVDYLI-SKGIPADKI 295
>adhesinb#Adhesin B signature. Length = 310 Score = 27.5 bits (61), Expect = 0.023 Identities = 14/42 (33%), Positives = 19/42 (45%) Query: 3 LRSISLVALSCISLIACSSAPIDPTELAGKLKDRLTTDIKAD 44 R + L+ L+ + L ACSS + KL T I AD Sbjct: 4 CRFLVLLLLAFVGLAACSSQKSSTETGSSKLNVVATNSIIAD 45
>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature. Length = 1541 Score = 47.4 bits (112), Expect = 3e-07 Identities = 47/310 (15%), Positives = 100/310 (32%), Gaps = 22/310 (7%) Query: 198 AADIRALVKDQRSRRDGILQSAGLASDDELSCELAK--LTPELETAQSAKEQALQQQQWV 255 +I+A V S + I + ++ T + Q +K +Q Sbjct: 1000 PNNIQADVPSVPSNNEEIARVDEAPVPPPAPATPSETTETVAENSKQESKTVEKNEQDAT 1059 Query: 256 IKTSDAAQHLLAEFAQFDALTQTVAALDAQQENMAAQTYKLNLAKQAQHMAPMLEVFVAR 315 T+ + + A TQT + E QT + K+ + + V Sbjct: 1060 ETTAQNREVAKEAKSNVKANTQTNEVAQSGSETKETQTTE---TKETATVEKEEKAKVET 1116 Query: 316 EQEAKAASLALDHAKTALIHAKQAFDNAELKTADL--PVLEASLLEQEQVKQQLNALGPQ 373 E+ + T+ + KQ A+ +++ Q + A Q Sbjct: 1117 EKTQEVPK------VTSQVSPKQEQSETVQPQAEPARENDPTVNIKEPQSQTNTTADTEQ 1170 Query: 374 L-RELDRLSKTLEQEQAQLISAKTQLQNSKHELTTVVQKRRELESALPQLQANSETRLSL 432 +E + E + + + ++N ++ Q ES+ + + Sbjct: 1171 PAKETSSNVEQPVTESTTVNTGNSVVENPENTTPATTQPTVNSESSNKPKNRHRRSV--- 1227 Query: 433 QQAHQQQQQLLSTYQQWQQVVARVSL----TQAKLVEAKVKGQQLSAQHQQAQVAYKALL 488 ++ + +T + VA L T A L +A+ K Q ++ +A + + L Sbjct: 1228 -RSVPHNVEPATTSSNDRSTVALCDLTSTNTNAVLSDARAKAQFVALNVGKAVSQHISQL 1286 Query: 489 LTWHQGQAAI 498 ++GQ + Sbjct: 1287 EMNNEGQYNV 1296 Score = 37.4 bits (86), Expect = 3e-04 Identities = 45/325 (13%), Positives = 106/325 (32%), Gaps = 14/325 (4%) Query: 276 TQTVAALDAQQENMAAQTYKLNLAKQAQHMAPMLEVFVAREQEAKAASLALDHAKTALIH 335 T + Q + + + +A+ + P E A + +KT + Sbjct: 995 TNITTPNNIQADVPSVPSNNEEIARVDEAPVPPPAPATPSETTETVAENSKQESKTVEKN 1054 Query: 336 AKQAFD----NAELKTADLPVLEASLLEQEQVKQQLNALGPQLRELDRLSKTLEQEQAQL 391 + A + N E+ ++A+ E + Q E + ++E+A++ Sbjct: 1055 EQDATETTAQNREVAKEAKSNVKANTQTNEVAQSGSETKETQTTETKETATVEKEEKAKV 1114 Query: 392 ISAKTQLQNSKHELTTVVQKRRELESALPQLQANSETRLSLQQAHQQQQQLLSTYQQWQQ 451 + KTQ + Q++ E + ++ +++++ Q T Q ++ Sbjct: 1115 ETEKTQEVPKVTSQVSPKQEQSETVQPQAEPARENDPTVNIKEPQSQTNTTADTEQPAKE 1174 Query: 452 VVARVSLTQAKLVEAKVKGQQLSAQHQQAQVAYKALLLTWHQGQAAILARQLQQDEPCPV 511 T + + + + ++ + + T + + + + V Sbjct: 1175 -------TSSNVEQPVTESTTVNTGNSVVENPENTTPATTQPTVNSESSNKPKNRHRRSV 1227 Query: 512 CGSQTHPQPAQSQEPLPSDEVLQLALEAETNAQEILSKARAEYRGLQTQLETLQQQAQ-- 569 + +PA + S L TNA ++A+A++ L Q +Q Sbjct: 1228 RSVPHNVEPATTSSNDRSTVALCDLTSTNTNAVLSDARAKAQFVALNVGKAVSQHISQLE 1287 Query: 570 -DLAVQLGTAVDIPLDEHTHTLSQY 593 + Q V ++ SQY Sbjct: 1288 MNNEGQYNVWVSNTSMNKNYSSSQY 1312
>SYCDCHAPRONE#Gram-negative bacterial type III secretion SycD chaperone signature. Length = 168 Score = 29.5 bits (66), Expect = 0.017 Identities = 11/51 (21%), Positives = 21/51 (41%) Query: 196 YFNQKKYKQAVGVLETMVPLFPEDGRLWVQLAQFYLMVEDYDKSLATYDLA 246 + KY+ A V + + L D R ++ L + YD ++ +Y Sbjct: 46 QYQSGKYEDAHKVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYG 96
>PF03544#Gram-negative bacterial tonB protein Length = 243 Score = 101 bits (252), Expect = 1e-28 Identities = 36/169 (21%), Positives = 64/169 (37%), Gaps = 11/169 (6%) Query: 39 TPVIEITMDRQDSKAQNKPRVVPKPPPPPEQPQKPDTTPPDTSSNID----TSMSFNMGG 94 P E + K PKP P P+ P S N Sbjct: 75 EPEPEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKVEQPKRDVKPVESRPASPFENTAP 134 Query: 95 VEAGGPSTG-FKLGNMMTRDGDATPIVRIEPQYPIAAARDGKEGWVQLRFTINELGGVDD 153 + + + + R +PQYP A EG V+++F + G VD+ Sbjct: 135 ARPTSSTATAATSKPVTSVASGPRALSRNQPQYPARAQALRIEGQVKVKFDVTPDGRVDN 194 Query: 154 VEVIQAEPKRLFDKEAIRALKKWKYKPKIVDGKPLKQPGMTVQLDFTLD 202 V+++ A+P +F++E A+++W+Y+P G+ V + F ++ Sbjct: 195 VQILSAKPANMFEREVKNAMRRWRYEP------GKPGSGIVVNILFKIN 237
>DNABINDINGHU#Prokaryotic integration host factor signature. Length = 91 Score = 119 bits (300), Expect = 4e-39 Identities = 53/88 (60%), Positives = 69/88 (78%) Query: 2 NKSELIEKIASGADISKAAAGRALDSFIAAVTEGLKEGDKISLVGFGTFEVRERAERTGR 61 NK +LI K+A +++K + A+D+ +AV+ L +G+K+ L+GFG FEVRERA R GR Sbjct: 3 NKQDLIAKVAEATELTKKDSAAAVDAVFSAVSSYLAKGEKVQLIGFGNFEVRERAARKGR 62 Query: 62 NPQTGEEIKIAAAKIPAFKAGKALKDAV 89 NPQTGEEIKI A+K+PAFKAGKALKDAV Sbjct: 63 NPQTGEEIKIKASKVPAFKAGKALKDAV 90
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 35.2 bits (81), Expect = 0.001 Identities = 45/211 (21%), Positives = 76/211 (36%), Gaps = 37/211 (17%) Query: 262 NMPSEAKEKALAELNKLRMMSP---MSAEATV---VRSY----VDWMTSVPWSQRSKIKR 311 MP E L + K R P MSA+ T +++ D++ P+ I Sbjct: 56 VMPDENAFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPK-PFDLTELIGI 114 Query: 312 D---------LAKAQEVLDTDHYGLEKVKERILEYLAVQSRVRQLKGPILCLVGPPGVGK 362 E D L + E V +R+ Q ++ + G G GK Sbjct: 115 IGRALAEPKRRPSKLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTDLTLM-ITGESGTGK 173 Query: 363 TSLGQSIAKATGRK---YVRVALGGVRD---EAEIRGHRRTYIGSMPGKVIQKMAKVGVK 416 + +++ R+ +V + + + E+E+ GH + G+ G + + Sbjct: 174 ELVARALHDYGKRRNGPFVAINMAAIPRDLIESELFGHEK---GAFTGAQTRSTGRFEQA 230 Query: 417 N--PLFLLDEIDKMSSDMRGDPASALLEVLD 445 LFL DEI M D + + LL VL Sbjct: 231 EGGTLFL-DEIGDMPMDAQ----TRLLRVLQ 256
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 31.0 bits (70), Expect = 0.009 Identities = 14/70 (20%), Positives = 28/70 (40%), Gaps = 13/70 (18%) Query: 64 KLPTPHELRAHLDDYVIGQDRAKKVLSVAVYNHYKRLKNSSPKDGVELGKSNILLIGPTG 123 + P+ E + ++G+ A +Y RL + +++ G +G Sbjct: 124 RRPSKLEDDSQDGMPLVGRSAA----MQEIYRVLARLMQT---------DLTLMITGESG 170 Query: 124 SGKTLLAETL 133 +GK L+A L Sbjct: 171 TGKELVARAL 180
>TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family signature. Length = 639 Score = 42.5 bits (100), Expect = 6e-06 Identities = 47/219 (21%), Positives = 84/219 (38%), Gaps = 62/219 (28%) Query: 14 NAGKSTLFNAL---TGANQQVG---------NW------SGVTVEKKTGHFTLNGADVYL 55 +AGK+TL +L +GA ++G + G+T++ F V + Sbjct: 13 DAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQWENTKVNI 72 Query: 56 TDLPGIYDLLPAGNSCDCSLDEQIAQQYLAEQRIDGIINLVDA-------TNIERHLYLT 108 D PG D +A+ Y + +DG I L+ A T I L Sbjct: 73 IDTPGHMDF--------------LAEVYRSLSVLDGAILLISAKDGVQAQTRI-----LF 113 Query: 109 AQLRELAIPMVVVLNKIDAAIKRGIKVD--LQKMSQELGCPVI---------GVCSRDPA 157 LR++ IP + +NKID GI + Q + ++L ++ +C + Sbjct: 114 HALRKMGIPTIFFINKIDQN---GIDLSTVYQDIKEKLSAEIVIKQKVELYPNMCVTNFT 170 Query: 158 DVEKVQAQVL---DLLQGRVSEAPL-MLDYDEQIEAGVQ 192 + E+ + DLL+ +S L L+ +++ Sbjct: 171 ESEQWDTVIEGNDDLLEKYMSGKSLEALELEQEESIRFH 209
>ARGDEIMINASE#Bacterial arginine deiminase signature. Length = 409 Score = 25.6 bits (56), Expect = 0.035 Identities = 12/43 (27%), Positives = 18/43 (41%), Gaps = 5/43 (11%) Query: 5 CGGANYWA--REFELLGHNVKLIAPQFVVPFRQGNKNDYNDAL 45 C G + RE G NV IAP ++ + +N + L Sbjct: 335 CAGGDLIHGAREQWNDGANVLAIAPGEIIAYS---RNHVTNKL 374
>ABC2TRNSPORT#ABC-2 type transport system membrane protein signature. Length = 262 Score = 39.1 bits (91), Expect = 2e-05 Identities = 42/160 (26%), Positives = 70/160 (43%), Gaps = 11/160 (6%) Query: 186 GVILTMTMVMFT----SAAIVREREQGNMEFLITTPVRPLELMLGKIVPYVLVGFVQVTI 241 G++ T M T AA R Q E ++ T +R +++LG++ + Sbjct: 72 GMVATSAMTAATFETIYAAFGRMEGQRTWEAMLYTQLRLGDIVLGEMAWAATKAALAGAG 131 Query: 242 ILSAGHLLFDVP---IRGGLDSIALAAMLFICASLTLGLVISTMAKTQLQSMQMTVFVLL 298 I L + L IAL + F +LG+V++ +A + + V+ Sbjct: 132 IGVVAAALGYTQWLSLLYALPVIALTGLAFA----SLGMVVTALAPSYDYFIFYQTLVIT 187 Query: 299 PSILLSGFMFPFDAMPIAAQWIAEALPATHFMRMSRAIVL 338 P + LSG +FP D +PI Q A LP +H + + R I+L Sbjct: 188 PILFLSGAVFPVDQLPIVFQTAARFLPLSHSIDLIRPIML 227
>adhesinb#Adhesin B signature. Length = 310 Score = 29.4 bits (66), Expect = 0.017 Identities = 14/87 (16%), Positives = 28/87 (32%), Gaps = 12/87 (13%) Query: 220 SPQQLMAAMGARVLEVSGDDLRT---------LKQSLMSESA---VLSAAQIGSRLRVLV 267 P+ + A ++ +G +L T ++ + E+ +S L Sbjct: 73 LPEDVKKTSQADLIFYNGINLETGGNAWFTKLVENAKKKENKDYYAVSEGVDVIYLEGQS 132 Query: 268 RSDIADPLAWLKPKIANRAMEEVRASL 294 DP AWL + + + L Sbjct: 133 EKGKEDPHAWLNLENGIIYAQNIAKRL 159
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 56.4 bits (136), Expect = 5e-11 Identities = 43/318 (13%), Positives = 97/318 (30%), Gaps = 77/318 (24%) Query: 33 TVERDRLTLTAPVGELITQINVVEGQRVKAGEVLIQLDATSANA---------------- 76 T + ++ +I V EG+ V+ G+VL++L A A A Sbjct: 91 THSGRSKEIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQ 150 Query: 77 ---RLALRQAELDQAKAKLSEAVTGARLE----------------------------DID 105 ++ R EL++ + ++D Sbjct: 151 TRYQILSRSIELNKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLD 210 Query: 106 RAKAVLDGANATVKEAQRAFERTN-------RLFATKVLS--------------QADLDT 144 + +A A + + L + ++ +L Sbjct: 211 KKRAERLTVLARINRYENLSRVEKSRLDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRV 270 Query: 145 ARAARDTSLAKQAEAQQSLRLLENGTRSE---QLAQAKAAVAAASASVAVEQKALADLSL 201 ++ + ++ A++ +L+ ++E +L Q + + +A ++ + Sbjct: 271 YKSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDNIGLLTLELAKNEERQQASVI 330 Query: 202 VAARDAVVDTLP-WREGDRIAAGTQLIGLLASDNPY-VRVYLPATWLDRVKAGDSVNILV 259 A V L EG + L+ ++ D+ V + + + G + I V Sbjct: 331 RAPVSVKVQQLKVHTEGGVVTTAETLMVIVPEDDTLEVTALVQNKDIGFINVGQNAIIKV 390 Query: 260 DG----REAPIAGTVRNI 273 + R + G V+NI Sbjct: 391 EAFPYTRYGYLVGKVKNI 408
>NUCEPIMERASE#Nucleotide sugar epimerase signature. Length = 334 Score = 177 bits (450), Expect = 3e-55 Identities = 82/348 (23%), Positives = 152/348 (43%), Gaps = 42/348 (12%) Query: 1 MTILVTGGAGYIGTHTVVELLKAGSEVIVLDNLSNSSIEALN--RVERITGKSVTFYQGD 58 M LVTG AG+IG H LL+AG +V+ +DNL++ +L R+E + F++ D Sbjct: 1 MKYLVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLKQARLELLAQPGFQFHKID 60 Query: 59 ILNKALLQKVFSDHAIDSVIHFAGLKAVGESVAKPLKYYENNVTGTLVLCQVMAEFKVKN 118 + ++ + +F+ + V AV S+ P Y ++N+TG L + + K+++ Sbjct: 61 LADREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFLNILEGCRHNKIQH 120 Query: 119 LVFSSSATVYGDPASLPITEDFPTG-ATNPYGQSKLMVEHILADLHHSDPSWNI--ARLR 175 L+++SS++VYG +P + D + Y +K E + H + + LR Sbjct: 121 LLYASSSSVYGLNRKMPFSTDDSVDHPVSLYAATKKANELMAHTYSH---LYGLPATGLR 177 Query: 176 YFNPVGAHSSGLIGEDPNDIPN-NLMPFIAQVAVGKRAVLSVFGHDYPTHDGTGVRDYIH 234 +F G P P+ L F + GK + V+ + G RD+ + Sbjct: 178 FFTVYG----------PWGRPDMALFKFTKAMLEGKS--IDVYNY------GKMKRDFTY 219 Query: 235 VVDLAKGHLKALEKLAIRPGLVT---------------YNLGTGQGYSVLDMVKAFEKAC 279 + D+A+ ++ + + T YN+G ++D ++A E A Sbjct: 220 IDDIAEAIIRLQDVIPHADTQWTVETGTPAASIAPYRVYNIGNSSPVELMDYIQALEDAL 279 Query: 280 GKTIAYQIAPRRPGDIAACYADPTHAKQSLGWHATHTLEDMANSSWHW 327 G + P +PGD+ AD + +G+ T++D + +W Sbjct: 280 GIEAKKNMLPLQPGDVLETSADTKALYEVIGFTPETTVKDGVKNFVNW 327
>SALSPVBPROT#Salmonella virulence plasmid 65kDa B protein signature. Length = 591 Score = 45.5 bits (107), Expect = 3e-06 Identities = 45/180 (25%), Positives = 70/180 (38%), Gaps = 20/180 (11%) Query: 296 GAAVFSVPIDIPPGRNGMQPAVSLDYSSRSGQGIAGVGWSVTAGSALHRCDTTVAQEGLS 355 G A ++P+ I R G PA++L YSS G G GVGWS S V Q S Sbjct: 34 GLASITLPLPISAER-GFAPALALHYSSGGGNGPFGVGWSCATMSIARSTSHGVPQYNDS 92 Query: 356 --------RAVIMSASDRLCLDGQKLMAVSG-----QYGTSGAQYRTELDQFARVTQYGA 402 ++ + S + A Y + Q RTE F R+ + Sbjct: 93 DEFLGPDGEVLVQTLSTGDAPNPVTCFAYGDVSFPQSYTVTRYQPRTESS-FYRLEYWVG 151 Query: 403 LTSAATYFVVERKDNIVATYGGTTDSRHI---ALGHTLPMTWAINKQQDRAGNTMTYAYL 459 ++ ++++ + I+ G T +R A HT W + + AG + Y+YL Sbjct: 152 NSNGDDFWLLHDSNGILHLLGKTAAARLSDPQAASHT--AQWLVEESVTPAGEHIYYSYL 209
>NUCEPIMERASE#Nucleotide sugar epimerase signature. Length = 334 Score = 30.1 bits (68), Expect = 0.007 Identities = 11/44 (25%), Positives = 18/44 (40%), Gaps = 1/44 (2%) Query: 171 LTAFIEALSPRIAPPVKHEELPMPALDHPGIFANIKRMWQNLFG 214 L +I+AL + K LP+ D A+ K + + G Sbjct: 268 LMDYIQALEDALGIEAKKNMLPLQPGDVLETSADTKAL-YEVIG 310
>PF03544#Gram-negative bacterial tonB protein Length = 243 Score = 36.9 bits (85), Expect = 7e-04 Identities = 22/126 (17%), Positives = 34/126 (26%), Gaps = 8/126 (6%) Query: 1183 PAVASQPRATAPAPASVDPAPVAATTMPHNAAPVTQAVATEAVSTPV-APVVQTAPVAYS 1241 PA P+A P PV P A + P P + PV Sbjct: 57 PADLEPPQA-----VQPPPEPVVEPEPEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKV 111 Query: 1242 PAVTVQVAPAAPALVMPAVVMPEVTPAAPATSGLSAGLVQASEIESTMMAVVADKTGYPT 1301 V P P P + + ++ + + S A+ ++ YP Sbjct: 112 EQPKRDVKPVESRPASPFENTAPARPTSSTATAATSK--PVTSVASGPRALSRNQPQYPA 169 Query: 1302 EMLELG 1307 L Sbjct: 170 RAQALR 175
>SACTRNSFRASE#Streptothricin acetyltransferase signature. Length = 173 Score = 31.5 bits (71), Expect = 9e-04 Identities = 29/135 (21%), Positives = 48/135 (35%), Gaps = 7/135 (5%) Query: 19 ELMLAASLIEQRDDNAHPLEHSVFFRSRAVVLAKTPQGNIVGCAAIKAGEGKIGEFGYLV 78 E + +Q +D+ + + V +A L N +G I++ + Sbjct: 39 EERFSKPYFKQYEDDDMDVSY-VEEEGKAAFLYYLEN-NCIGRIKIRSNWNGYALIEDIA 96 Query: 79 VSPLYRRQGIAQGLTQKRIEVAKSLGIAILFATIRAENISSRANLLKAGFKFWR-DYLSI 137 V+ YR++G+ L K IE AK L + NIS+ K F D + Sbjct: 97 VAKDYRKKGVGTALLHKAIEWAKENHFCGLMLETQDINISACHFYAKHHFIIGAVDTMLY 156 Query: 138 RGTGNT----VGWYY 148 + WYY Sbjct: 157 SNFPTANEIAIFWYY 171
>PF06580#Sensor histidine kinase Length = 349 Score = 32.5 bits (74), Expect = 0.003 Identities = 19/105 (18%), Positives = 34/105 (32%), Gaps = 26/105 (24%) Query: 327 LISNAIRY----TEPGGKITVQWRSVATGGLFSVTDTGEGIAPQHIARLTERFYRVDSAR 382 L+ N I++ GGKI ++ V +TG Sbjct: 263 LVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSLALKN---------------- 306 Query: 383 SRQTGGSGLGLAIVKHALNHHHSE---LTITSEVGKGSTFSFVIP 424 +G GL V+ L + + ++ + GK + +IP Sbjct: 307 --TKESTGTGLQNVRERLQMLYGTEAQIKLSEKQGKVNAM-VLIP 348
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 91.4 bits (227), Expect = 2e-23 Identities = 34/130 (26%), Positives = 64/130 (49%), Gaps = 4/130 (3%) Query: 3 ARILIVEDELAIREMLTFVMEQHGFTTSAAEDFDSAIALLKEPYPDLILLDWMFPGGSGI 62 A IL+ +D+ AIR +L + + G+ + + + DL++ D + P + Sbjct: 4 ATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63 Query: 63 QLAKRLKQDEFTRQIPIIMLTARGEEEDKVKGLEVGADDYITKPFSPKELVARIKAVL-- 120 L R+K+ +P+++++A+ +K E GA DY+ KPF EL+ I L Sbjct: 64 DLLPRIKKAR--PDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAE 121 Query: 121 RRSAPTRLEE 130 + P++LE+ Sbjct: 122 PKRRPSKLED 131
>ECOLNEIPORIN#E.coli/Neisseria porin superfamily signature. Length = 331 Score = 72.9 bits (179), Expect = 9e-17 Identities = 87/351 (24%), Positives = 131/351 (37%), Gaps = 58/351 (16%) Query: 7 KTLLASALASTTLASAYAAEPLTVYGKLNV---TAQSNDEKGDAT------TTIQSNASR 57 K+L+A LA+ +A A +T+YG + T++S G T I S+ Sbjct: 3 KSLIALTLAALPVA---AMADVTLYGTIKAGVETSRSVAHNGAQAASVETGTGIVDLGSK 59 Query: 58 FGVKGDFALSSSLEAFYTVEYQVDTGNASSDNFTARNQFVGLKGAFGSFSVGRNDTLLKI 117 G KG L + L+A + VE + S R F+GLKG FG VGR +++LK Sbjct: 60 IGFKGQEDLGNGLKAIWQVEQKASIAGTDSGWGN-RQSFIGLKGGFGKLRVGRLNSVLK- 117 Query: 118 SQGDVDQFNDLSGDLG--KLFKGEVRAAQTATYLTPSMGDFVFGVTYVAEGNAVKDQ--- 172 GD++ ++ S LG K+ + E R Y +P V Y NA + Sbjct: 118 DTGDINPWDSKSDYLGVNKIAEPEARLIS-VRYDSPEFAGLSGSVQYALNDNAGRHNSES 176 Query: 173 ----FAQDGFSLAAMYG-----------DAKLKKTPVYASIA-YDSDVSGYEIVRATLQA 216 F YG + ++K ++ ++ YD+D + Y V Q Sbjct: 177 YHAGFNYKNGGFFVQYGGAYKRHHQVQENVNIEKYQIHRLVSGYDND-ALYASVAVQQQD 235 Query: 217 KLAGIKLGGMFQQQE--QTYKLDSTNLPVEVSTDSVNGYLLSAAYDIDAVTLKAQFQDME 274 + Q E T N+ VS Y DA + Sbjct: 236 AKLVEENYSHNSQTEVAATLAYRFGNVTPRVS------YAHGFKGSFDAT-------NYN 282 Query: 275 DLGDSWSVGADYSLGKPTKLFAFYTNRSLEASTDDDKYI----GVGLEHKF 321 + D VGA+Y K T L+ + K++ GVGL HKF Sbjct: 283 NDYDQVVVGAEYDFSKRTSALVSA--GWLQEGKGESKFVSTAGGVGLRHKF 331
>SECA#SecA protein signature. Length = 901 Score = 31.0 bits (70), Expect = 0.008 Identities = 11/41 (26%), Positives = 24/41 (58%), Gaps = 1/41 (2%) Query: 81 EALEEKVALIEDEENRKLAKKEKDALKD-EIITSLLPRAFS 120 A+E ++ + DEE + + + L+ E++ +L+P AF+ Sbjct: 29 NAMEPEMEKLSDEELKGKTAEFRARLEKGEVLENLIPEAFA 69
>V8PROTEASE#V8 serine protease family signature. Length = 336 Score = 26.5 bits (58), Expect = 0.037 Identities = 12/67 (17%), Positives = 25/67 (37%) Query: 70 LKTAAHKKLPFGSSVKVTNVKNGKSVIVKINDRGPFVRGRIIDLSKSAFSSIGNTSSGLI 129 + + + ++ VT K V +G + + ++ GN+ S + Sbjct: 183 ATMSNNAETQVNQNITVTGYPGDKPVATMWESKGKITYLKGEAMQYDLSTTGGNSGSPVF 242 Query: 130 DVKIEVI 136 + K EVI Sbjct: 243 NEKNEVI 249
>PF00577#Outer membrane usher protein FimD Length = 878 Score = 38.7 bits (90), Expect = 1e-05 Identities = 16/102 (15%), Positives = 36/102 (35%), Gaps = 3/102 (2%) Query: 104 LSYDITLY--RYNYSGESDLGYFEVTAGVEFKGFRL-AYWFTNDYGGSDLDYHYTELNYS 160 L+Y+ + + G S Y + +G+ +RL + + + Sbjct: 187 LNYNFSGNSVQNRIGGNSHYAYLNLQSGLNIGAWRLRDNTTWSYNSSDSSSGSKNKWQHI 246 Query: 161 YTFVENWNLDLHYGYNAGDALDDGEGFDSYSDYSIGVSTEFA 202 T++E + L GD G+ FD + ++++ Sbjct: 247 NTWLERDIIPLRSRLTLGDGYTQGDIFDGINFRGAQLASDDN 288
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 29.5 bits (66), Expect = 0.003 Identities = 10/27 (37%), Positives = 20/27 (74%) Query: 5 QKGFSLIELITTLSISTILLTVGVPSL 31 Q+GF+L+E++ + I +L ++ VP+L Sbjct: 7 QRGFTLLEIMVVIVIIGVLASLVVPNL 33
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 34.5 bits (79), Expect = 7e-05 Identities = 12/28 (42%), Positives = 19/28 (67%) Query: 6 TGFTLVELMVTIAVAAILLSIGSPSLIS 33 GFTL+E+MV I + +L S+ P+L+ Sbjct: 8 RGFTLLEIMVVIVIIGVLASLVVPNLMG 35
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 58.0 bits (140), Expect = 6e-14 Identities = 24/70 (34%), Positives = 43/70 (61%), Gaps = 2/70 (2%) Query: 5 RGFTLIELMITVAIVGILAAIAYPSYIEYVTKSGRSEGVAAVMRVANLQEQYYLDNKAYA 64 RGFTL+E+M+ + I+G+LA++ P+ + K+ + + V+ ++ + N + Y LDN Y Sbjct: 8 RGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQKAVSDIVALENALDMYKLDNHHYP 67 Query: 65 TDMTKLGLSA 74 T T GL + Sbjct: 68 T--TNQGLES 75
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 41.4 bits (97), Expect = 1e-05 Identities = 35/180 (19%), Positives = 66/180 (36%), Gaps = 30/180 (16%) Query: 552 LEGEREKLLQMEVALHER--VIGQNEAVDAVANAIRRSRAGLADPNRPIGSFLFLGPTGV 609 L + + ++E + ++G++ A+ + + R L + + + G +G Sbjct: 119 LAEPKRRPSKLEDDSQDGMPLVGRSAAMQEIYRVLAR----LMQTDLTL---MITGESGT 171 Query: 610 GKTELCKSLARFLFDTESALVRIDMSEFMEKHSVSRLVGAPPGYVGYEEGGYLTEAVRRK 669 GK + ++L + V I+M+ S L G +E+G + T A R Sbjct: 172 GKELVARALHDYGKRRNGPFVAINMAAIPRDLIESELFG-------HEKGAF-TGAQTRS 223 Query: 670 PYSV-------ILLDEVEKAHPDVFNILLQVLDDG---RLTDGQGRTVDFRNTVIIMTSN 719 + LDE+ D LL+VL G + D R I+ +N Sbjct: 224 TGRFEQAEGGTLFLDEIGDMPMDAQTRLLRVLQQGEYTTVGGRTPIRSDVR---IVAATN 280 Score = 31.0 bits (70), Expect = 0.020 Identities = 14/68 (20%), Positives = 29/68 (42%), Gaps = 3/68 (4%) Query: 151 DPNAEDQRQALKKFTIDLTERAEQG-KLDPVIGRDDEIRRTIQVLQRRSKNN-PVLI-GE 207 +AL + ++ + P++GR ++ +VL R + + ++I GE Sbjct: 109 TELIGIIGRALAEPKRRPSKLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTDLTLMITGE 168 Query: 208 PGVGKTAI 215 G GK + Sbjct: 169 SGTGKELV 176
>CHANLCOLICIN#Channel forming colicin signature. Length = 522 Score = 31.2 bits (70), Expect = 0.013 Identities = 37/218 (16%), Positives = 81/218 (37%), Gaps = 6/218 (2%) Query: 289 KRMQQQQAETEQTATAMNEMTATVAEVAQSAAAAADSAKDADTYAANGNSIVMQSIDSMS 348 K +++++AETE+ +A +++ A A + K + + + S Sbjct: 158 KEIEREKAETERQLKLAEAEEKRLAALSEEAKAVEIAQKKLSAAQSEVVKMDGEIKTLNS 217 Query: 349 QLSDQIQKTAKVIGFLANESQNIGRVLDVIKSIAEQTNLLALNAAIE-AARAGEQGRGFA 407 +LS I + LA + + + K + E L+ A R + Sbjct: 218 RLSSSIHARDAEMKTLAGKRNELAQASAKYKELDELVKKLSPRANDPLQNRPFFEATRRR 277 Query: 408 VVADEVRTLAQRTQKSTQE----IEAMIATLQQGVKEAVSAMEIGIHQVDDANDKANQAG 463 V A ++R Q+ +++ I A I +Q+ + + + GI +V +A + +A Sbjct: 278 VGAGKIREEKQKQVTASETRINRINADITQIQKAISQVSNNRNAGIARVHEAEENLKKAQ 337 Query: 464 QALKEIVTSVDSITELNTHIATAAEEQSSVAESINRSI 501 L D++ + T E+ + + + Sbjct: 338 NNLLNSQIK-DAVDATVSFYQTLTEKYGEKYSKMAQEL 374
>PF05272#Virulence-associated E family protein Length = 892 Score = 28.5 bits (63), Expect = 0.047 Identities = 10/34 (29%), Positives = 15/34 (44%) Query: 30 MIGLLGPSGSGKTTLLRIIAGLEGADSGQIQFGN 63 + L G G GK+TL+ + GL+ G Sbjct: 598 SVVLEGTGGIGKSTLINTLVGLDFFSDTHFDIGT 631
>PF06057#Type IV secretory pathway VirJ component Length = 243 Score = 31.3 bits (71), Expect = 0.005 Identities = 10/28 (35%), Positives = 13/28 (46%), Gaps = 2/28 (7%) Query: 17 GCGELGKEVAIELQRLGVEVIGVD--RY 42 G L K V LQ+ G V+G +Y Sbjct: 62 GWATLDKAVGGILQQQGWPVVGWSSLKY 89
>PF03544#Gram-negative bacterial tonB protein Length = 243 Score = 64.2 bits (156), Expect = 3e-14 Identities = 24/162 (14%), Positives = 46/162 (28%), Gaps = 4/162 (2%) Query: 122 PMLKPSSAKTASQAKTVNPPTEAEPRLADATLSQLSEITTANHIEKKQAKTEMAAELTQS 181 P P K A P + Q A S Sbjct: 80 PEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKVEQPKRDVKPVESRPASPFENTAPARPTS 139 Query: 182 THQTTSIKTNIVELEKPLFTTPPPRPNYPRIARKKGLEGTAMVEVMFNEWGEQLALTLVK 241 + T + + + +P YP A+ +EG V+ G + ++ Sbjct: 140 STATAATSKPVTSVASGPRALSRNQPQYPARAQALRIEGQVKVKFDVTPDGRVDNVQILS 199 Query: 242 SSGFSLLDKAALEAVETWQFEAPPQKLASHYKVRVPIRFALN 283 + ++ ++ A+ W++E + V I F +N Sbjct: 200 AKPANMFEREVKNAMRRWRYEPGKP----GSGIVVNILFKIN 237
>ECOLNEIPORIN#E.coli/Neisseria porin superfamily signature. Length = 331 Score = 37.9 bits (88), Expect = 4e-05 Identities = 38/202 (18%), Positives = 69/202 (34%), Gaps = 7/202 (3%) Query: 24 LDFYGRLWLGVANSSN----GLSGNEKVDGFSLENYASYLGVKGEYAAYDNFSLLYKFEA 79 + YG + GV S + G G + + S +G KG+ + +++ E Sbjct: 21 VTLYGTIKAGVETSRSVAHNGAQAASVETGTGIVDLGSKIGFKGQEDLGNGLKAIWQVEQ 80 Query: 80 GIESFDNDDSNIFKPRNAYLGFKTNYGSAVFGRNDTVFKSAEGKVDLFNITSSDMNMIIA 139 D R +++G K +G GR ++V K + + IA Sbjct: 81 KASIAGTDSGW--GNRQSFIGLKGGFGKLRVGRLNSVLKDTGDINPWDSKSDYLGVNKIA 138 Query: 140 GNDRLGDSVTLNSAKVVGVTMGISYVFDKDFNQKNPELSDKQNNYAVSFTVGDASLKNKN 199 + SV +S + G++ + Y + + + N E NY K Sbjct: 139 EPEARLISVRYDSPEFAGLSGSVQYALNDNAGRHNSESYHAGFNYKNGGFFVQYGGAYKR 198 Query: 200 HYVSIAYADGLNLLEATRLVGG 221 H+ + + RLV G Sbjct: 199 HHQVQENVNIEK-YQIHRLVSG 219
>ANTHRAXTOXNA#Anthrax toxin LF subunit signature. Length = 800 Score = 29.3 bits (65), Expect = 0.026 Identities = 29/116 (25%), Positives = 42/116 (36%), Gaps = 31/116 (26%) Query: 137 DAMKQVVDIPVTVKTRIGIDE---------QDSYEFLT------YFIDIVNAKGCTDFTI 181 D++ +V T +T I + +D E + YF DI D Sbjct: 61 DSINNLVKTEFTNETLDKIQQTQDLLKKIPKDVLEIYSELGGEIYFTDI-------DLVE 113 Query: 182 HARKAWLQGLSPKENR------EIPPLDYERVYQLKRDYPVLNISINGGVTTLEQA 231 H LQ LS +E E P V++ KR+ P L I+I EQ+ Sbjct: 114 HKE---LQDLSEEEKNSMNSRGEKVPFASRFVFEKKRETPKLIINIKDYAINSEQS 166
>ALARACEMASE#Alanine racemase signature. Length = 356 Score = 432 bits (1112), Expect = e-154 Identities = 155/350 (44%), Positives = 217/350 (62%), Gaps = 6/350 (1%) Query: 6 RAEISSSALQNNLAVLRQQARASQVMAVVKANGYGHGLLNVANCLVNADGFGLARLEEAL 65 +A + AL+ NL+++RQ A ++V +VVKAN YGHG+ + + + DGF L LEEA+ Sbjct: 6 QASLDLQALKQNLSIVRQAATHARVWSVVKANAYGHGIERIWSAIGATDGFALLNLEEAI 65 Query: 66 ELRAGGVKARLLLLEGFFRSTDLPLLVAHDIDTVVHHESQIEMLEQVKLTKPVTVWLKVD 125 LR G K +L+LEGFF + DL + H + T VH Q++ L+ +L P+ ++LKV+ Sbjct: 66 TLRERGWKGPILMLEGFFHAQDLEIYDQHRLTTCVHSNWQLKALQNARLKAPLDIYLKVN 125 Query: 126 SGMHRLGVTPEQFATVYARLMACPNIAKPIHLMTHFACADEPDNHYTDVQMAAFNELTAG 185 SGM+RLG P++ TV+ +L A N+ + LM+HFA A+ PD MA + G Sbjct: 126 SGMNRLGFQPDRVLTVWQQLRAMANV-GEMTLMSHFAEAEHPDGISG--AMARIEQAAEG 182 Query: 186 LPGFRTLANSAGALYWPKSQGDWIRPGIALYGVSPVA--GDCGTNHGLIPAMNLVSRLIA 243 L R+L+NSA L+ P++ DW+RPGI LYG SP D N GL P M L S +I Sbjct: 183 LECRRSLSNSAATLWHPEAHFDWVRPGIILYGASPSGQWRDI-ANTGLRPVMTLSSEIIG 241 Query: 244 VRDHKANQPVGYGCYWTAKQDTRLGVVAIGYGDGYPRNAPEGTPVWVNGRRVPIVGRVSM 303 V+ KA + VGYG +TA+ + R+G+VA GY DGYPR+AP GTPV V+G R VG VSM Sbjct: 242 VQTLKAGERVGYGGRYTARDEQRIGIVAAGYADGYPRHAPTGTPVLVDGVRTMTVGTVSM 301 Query: 304 DMLTVDLGQDATDKVGDDVLLWGQDLPVEEVAERIGTIAYELVTKLTPRV 353 DML VDL +G V LWG+++ +++VA GT+ YEL+ L RV Sbjct: 302 DMLAVDLTPCPQAGIGTPVELWGKEIKIDDVAAAAGTVGYELMCALALRV 351
>V8PROTEASE#V8 serine protease family signature. Length = 336 Score = 47.3 bits (112), Expect = 1e-07 Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 1/51 (1%) Query: 650 SVPVNFLS-SVDTTGGNSGSPVFNGKGELVGLNFDSTYEAITKDWFFNPTI 699 + + + TTGGNSGSPVFN K E++G+++ F N + Sbjct: 220 YLKGEAMQYDLSTTGGNSGSPVFNEKNEVIGIHWGGVPNEFNGAVFINENV 270
>CHANLCOLICIN#Channel forming colicin signature. Length = 522 Score = 29.7 bits (66), Expect = 0.037 Identities = 37/209 (17%), Positives = 76/209 (36%), Gaps = 17/209 (8%) Query: 340 EDMARSATLAAKATRDADTEAKNGVTSVGQTITAIDALKVKLEQVSDVIGQLSKRGDEI- 398 E + A A KA ++A+ K +T + + E+ + + +K + Sbjct: 137 EKARKEAEAAEKAFQEAEQRRKEIEREKAETERQLKLAE-AEEKRLAALSEEAKAVEIAQ 195 Query: 399 ----GAVTDVIGAIAEQTNLLALNAAIEAARAGEMGR------GFAVVADEVRTLASRSQ 448 A ++V+ E L + ++ AR EM A + + + L + Sbjct: 196 KKLSAAQSEVVKMDGEIKTLNSRLSSSIHARDAEMKTLAGKRNELAQASAKYKELDELVK 255 Query: 449 ASTQDINRRIQGIQQDSANAVQSMAQSRTETEQTIVCSQQASEALTRINTAVSSITDVND 508 + N +Q A + A E +Q +Q + + TRIN + IT + Sbjct: 256 KLSPRANDPLQNRPFFEATRRRVGAGKIREEKQ-----KQVTASETRINRINADITQIQK 310 Query: 509 QLASATEQLAVVSGTINQNMENIAQAVEN 537 ++ + +++ EN+ +A N Sbjct: 311 AISQVSNNRNAGIARVHEAEENLKKAQNN 339
>GPOSANCHOR#Gram-positive coccus surface protein anchor signature. Length = 539 Score = 53.1 bits (127), Expect = 5e-09 Identities = 53/316 (16%), Positives = 102/316 (32%), Gaps = 10/316 (3%) Query: 598 EYAASEQELRIRLSKAEEALQSAQELQTEAESQLISINGELDNLSRELTFARTAYKNSRD 657 EL LS A+E L+ + +E S++ + +L + L A Sbjct: 82 ALKDHNDELTEELSNAKEKLRKNDKSLSEKASKIQELEARKADLEKALEGAMNFSTADSA 141 Query: 658 DLRRLFDEKRSEQDKINKALSERKAHAGQRLTQLDGELKQLKHQHELWLEDQKEQALEAR 717 ++ L EK + KA G K + E + ++ LE Sbjct: 142 KIKTLEAEK---AALAARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKA 198 Query: 718 MEKNAYWQEVIGALDNQLGQIKATIEGRRESAKIEQKACETWYKNELKSRGVDEDNILKL 777 +E + A L KA + R+ + + + + E L Sbjct: 199 LEGAMNFSTADSAKIKTLEAEKAALAARKADLEKALEGAMNFSTADSAKIKTLEAEKAAL 258 Query: 778 KQQIRELETKISRAEQRRSDVLRFDDWY-----QHTWLIRKPKLQTQLSDVKR-AVSEID 831 + + ELE + A + + Q+Q+ + R ++ Sbjct: 259 EARQAELEKALEGAMNFSTADSAKIKTLEAEKAALEAEKADLEHQSQVLNANRQSLRRDL 318 Query: 832 QQLKAKTLEVKTRRQKLDTELKASNAAQVEASENLTKLRAVMRKLAELKLPTNNEEAQGS 891 + +++ QKL+ + K S A++ +L R ++L E + E+ + S Sbjct: 319 DASREAKKQLEAEHQKLEEQNKISEASRQSLRRDLDASREAKKQL-EAEHQKLEEQNKIS 377 Query: 892 LGERLRQGEDLLLKRD 907 R DL R+ Sbjct: 378 EASRQSLRRDLDASRE 393 Score = 32.0 bits (72), Expect = 0.019 Identities = 50/346 (14%), Positives = 117/346 (33%), Gaps = 27/346 (7%) Query: 360 WRNDVENLSERHKLQTEKHQDIEAAYNARRSKIGEQLNRELESLHSDQDKQREARDKQRE 419 + + + K+ D+ A + N EL S+ ++ DK Sbjct: 55 VQERADKFEIENNTLKLKNSDLSFNNKAL-----KDHNDELTEELSNAKEKLRKNDKSLS 109 Query: 420 VARADIDALEAQWRNQIDAGKASFSEQEYQFKLTAAELKLRVDGVTYTEEEKLSLAIFDE 479 + I LEA+ + D KA + +A L + + ++ Sbjct: 110 EKASKIQELEAR---KADLEKALEGAMNFSTADSAKIKTLEAEKAALAARKADL----EK 162 Query: 480 RIHRADEEQESCNVKVERLASDERKLRSKRDQANEALRIASLRVNERQAELDELHHML-- 537 + A + + K++ L +++ L +++ + +AL A A++ L Sbjct: 163 ALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMNFSTADSAKIKTLEAEKAA 222 Query: 538 FPESHTLLEFLRKEAQGWEQSLGKVIAPELLHRTDLHPSVTGSGDTLFGVHLDLKAIDVP 597 LE + A + + I + L +L+ + Sbjct: 223 LAARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQA-----------ELEKA-LE 270 Query: 598 EYAASEQELRIRLSKAEEALQSAQELQTEAESQLISINGELDNLSRELTFARTAYKNSRD 657 ++ E + + + + E Q +N +L R+L +R A K Sbjct: 271 GAMNFSTADSAKIKTLEAEKAALEAEKADLEHQSQVLNANRQSLRRDLDASREAKKQLEA 330 Query: 658 DLRRLFDEKRSEQDKINKALSERKAHAGQRLTQLDGELKQLKHQHE 703 + ++L ++ + + ++L + + QL+ E ++L+ Q++ Sbjct: 331 EHQKLEEQNKI-SEASRQSLRRDLDASREAKKQLEAEHQKLEEQNK 375
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 88.3 bits (219), Expect = 9e-23 Identities = 31/150 (20%), Positives = 57/150 (38%), Gaps = 4/150 (2%) Query: 7 VYLIDDDDSVRRSLRFMLESYGLKITDFDSAEAFFTAVDLTLPGCALVDVRMPGLSGQQL 66 + + DDD ++R L L G + +A + + + DV MP + L Sbjct: 6 ILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFDL 65 Query: 67 HLELVAKNSPLAVIYLTGHGDVPMAVDALKLGAVDFFQKPADGAKLAEAVVKALEHT--- 123 + L V+ ++ A+ A + GA D+ KP D +L + +AL Sbjct: 66 LPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKRR 125 Query: 124 -KAHHQDNQYLETYQALTPREREILNLIAQ 152 D+Q + +EI ++A+ Sbjct: 126 PSKLEDDSQDGMPLVGRSAAMQEIYRVLAR 155
>PF06580#Sensor histidine kinase Length = 349 Score = 31.8 bits (72), Expect = 0.008 Identities = 39/198 (19%), Positives = 73/198 (36%), Gaps = 33/198 (16%) Query: 459 LQSVLALIQQEVTRADSIISRLRNLLKK--RPVSKQPLYLHELVNDTVPLLAYEFEQHQI 516 L ++ ALI ++ T+A +++ L L++ R + + + L + + L Q + Sbjct: 179 LNNIRALILEDPTKAREMLTSLSELMRYSLRYSNARQVSLADELTVVDSYLQLASIQFED 238 Query: 517 NLAVNVNGEPYLQSLDEVGMQQLLLN-LLKNAFDACVQRLELESSGTEQSITQKPYTPTI 575 L P ++ +V + +L+ L++N + I Q P I Sbjct: 239 RLQFENQINP---AIMDVQVPPMLVQTLVENGI--------------KHGIAQLPQGGKI 281 Query: 576 DIDLRYQECTLLLTVTDNGTGLTEETSLLMQAFYSTKSEGLGLGLVICRDIAESHGGTFS 635 + T+ L V + G+ + T +S G GL V R + +G Sbjct: 282 LLKGTKDNGTVTLEVENTGSLALKNTK---------ESTGTGLQNVRER-LQMLYGTEAQ 331 Query: 636 L--ESAMGGGCQAQVAIP 651 + G A V IP Sbjct: 332 IKLSEKQGKV-NAMVLIP 348
>PF03544#Gram-negative bacterial tonB protein Length = 243 Score = 29.6 bits (66), Expect = 0.010 Identities = 18/100 (18%), Positives = 31/100 (31%), Gaps = 6/100 (6%) Query: 125 PMGGGMPQNAGYQSAPQQAAPAQNQYAPAPQAAPAYQAPAQQQYAPPAPAQQQGYGQPQA 184 P+ M A + P + P P+ P + P + P Sbjct: 49 PISVTMVAPADLEPPQAVQPPPEPVVEPEPEPEPIPEPPKEAPVVIEKPK------PKPK 102 Query: 185 QQPQQGGYAPKPQAAPAPAYQAPAAPAQRPAPQPQQNFTP 224 +P+ +P+ P PA+P + AP + T Sbjct: 103 PKPKPVKKVEQPKRDVKPVESRPASPFENTAPARPTSSTA 142
>TCRTETB#Tetracycline resistance protein TetB signature. Length = 458 Score = 77.6 bits (191), Expect = 2e-17 Identities = 70/358 (19%), Positives = 138/358 (38%), Gaps = 48/358 (13%) Query: 48 LWVGIAIGAYGLTQAVLQIPMGILSDKYGRKPIILGGLVLFAVGSVIAANADTIYGV-VF 106 WV A+ LT ++ G LSD+ G K ++L G+++ GSVI + + + + Sbjct: 52 NWV---NTAFMLTFSIGTAVYGKLSDQLGIKRLLLFGIIINCFGSVIGFVGHSFFSLLIM 108 Query: 107 GRAVQGMGAIA--AAVLALAADLTRDEQRTKVMAIIGMCIGLSFALSLLMGPIVAQHLGL 164 R +QG GA A A V+ + A E R K +IG + + + +G ++A ++ Sbjct: 109 ARFIQGAGAAAFPALVMVVVARYIPKENRGKAFGLIGSIVAMGEGVGPAIGGMIAHYIHW 168 Query: 165 TGLFWLTAVLAIVGMLLIQFLVPNPITQAP---KGDTLATPAKLKRM-------FLEPQL 214 + L + + I L++ L + KG L + + M + Sbjct: 169 SYLLLIPMITIITVPFLMKLLKKEVRIKGHFDIKGIILMSVGIVFFMLFTTSYSISFLIV 228 Query: 215 FRLNAGIFILHL-----------------VLTAVFVALPLDLVDAGLVKEKHWMLYF--- 254 L+ IF+ H+ + V + AG V +M+ Sbjct: 229 SVLSFLIFVKHIRKVTDPFVDPGLGKNIPFMIGVLCGGIIFGTVAGFVSMVPYMMKDVHQ 288 Query: 255 --PAFVGA---FILMVPLIIIG------VKRKNTKAMFQIALVIMICSLAGMAIFA-SNL 302 A +G+ F + +II G V R+ + I + + S + + Sbjct: 289 LSTAEIGSVIIFPGTMSVIIFGYIGGILVDRRGPLYVLNIGVTFLSVSFLTASFLLETTS 348 Query: 303 WALSAAVLLFFTGFNYLEASLPSLIAKFCPVGEKGSAMGVYSTSQFLGAFCGGMLGGG 360 W ++ ++ G ++ + + ++++ E G+ M + + + FL G + GG Sbjct: 349 WFMTIIIVFVLGGLSFTKTVISTIVSSSLKQQEAGAGMSLLNFTSFLSEGTGIAIVGG 406
>PF03544#Gram-negative bacterial tonB protein Length = 243 Score = 65.4 bits (159), Expect = 3e-14 Identities = 25/89 (28%), Positives = 40/89 (44%), Gaps = 5/89 (5%) Query: 281 EQEQQPIFRIVPNYPMSYVQQRKSGWVQLKFTVDEHGFVKNPEIIASKGGALFEKESIKT 340 + + R P YP R G V++KF V G V N +I+++K +FE+E Sbjct: 154 ASGPRALSRNQPQYPARAQALRIEGQVKVKFDVTPDGRVDNVQILSAKPANMFEREVKNA 213 Query: 341 LDKWRYAPKFENGKAVEAQTSVQLDYTID 369 + +WRY P V V + + I+ Sbjct: 214 MRRWRYEPGKPGSGIV-----VNILFKIN 237
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 60.6 bits (147), Expect = 3e-12 Identities = 30/215 (13%), Positives = 72/215 (33%), Gaps = 25/215 (11%) Query: 85 SQAKLALEQARQDNAELDASLIAAKADVNASKATALQKRSEAKRLDALYATHGVS----- 139 S + Q + + A + A +N + + ++S +L ++ Sbjct: 196 STWQNQKYQKELNLDKKRAERLTVLARINRYENLSRVEKSRLDDFSSLLHKQAIAKHAVL 255 Query: 140 --QQQRDQADSDADAAEANLLAANARLDKLKVS------------RGAYGEANLKVRQAL 185 + + +A ++ ++ L + + K + + Sbjct: 256 EQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDNIGLLT 315 Query: 186 NSLEQAELNLSYTQIRADQDGVVTNLQL-EVGSFATVGQPLLALV--SDKVDIIADFREK 242 L + E + IRA V L++ G T + L+ +V D +++ A + K Sbjct: 316 LELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAETLMVIVPEDDTLEVTALVQNK 375 Query: 243 SLRGVNASSTALIAFDGEPGRLY---RAQVSSVDA 274 + +N A+I + P Y +V +++ Sbjct: 376 DIGFINVGQNAIIKVEAFPYTRYGYLVGKVKNINL 410 Score = 55.6 bits (134), Expect = 1e-10 Identities = 34/194 (17%), Positives = 70/194 (36%), Gaps = 5/194 (2%) Query: 1 MTPDQQFARLVKFAMFGFVMI-FGYFMLA--DTVMPLTPQAMATRVVTKVTPQISGKIQT 57 TP + RLV + + GF++I F +L + V + + ++ P + ++ Sbjct: 50 ETPVSRRPRLVAYFIMGFLVIAFILSVLGQVEIVATANGKLTHSGRSKEIKPIENSIVKE 109 Query: 58 IAVTNNQAVTKGDLLFQVDPAPYELAVSQAKLALEQARQDNAELDASLIAAKAD-VNASK 116 I V ++V KGD+L ++ E + + +L QAR + + + + + K Sbjct: 110 IIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELK 169 Query: 117 ATALQKRSEAKRLDALYATHGVSQQQRDQADSDADAAEANLLAANARLDKLKVSRGAYGE 176 + L T + ++Q + E NL A + Y Sbjct: 170 LPDEPYFQNVSEEEVLRLTSLI-KEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYEN 228 Query: 177 ANLKVRQALNSLEQ 190 + + L+ Sbjct: 229 LSRVEKSRLDDFSS 242
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 29.5 bits (66), Expect = 0.018 Identities = 28/109 (25%), Positives = 46/109 (42%), Gaps = 9/109 (8%) Query: 155 VHPDASNAQADLINLKRKIDAGASRAITQFFFDVESYLRFRDRCVAAGIDV---EIVPGI 211 + SNA+ D R+ G S + F + YLR +D+ V I +I Sbjct: 116 LQTLVSNAE-DPA--ARQALIGKSEGLVNQFKTTDQYLRDQDKQVNIAIGASVDQINNYA 172 Query: 212 LPVTNFT-QLKRFAGMTNVSLPNWLHKQFDGLENDAGTRQLVGANVAID 259 + + Q+ R G+ + PN L Q D L ++ Q+VG V++ Sbjct: 173 KQIASLNDQISRLTGVGAGASPNNLLDQRDQLVSE--LNQIVGVEVSVQ 219
>INTIMIN#Intimin signature. Length = 939 Score = 38.9 bits (90), Expect = 8e-05 Identities = 61/330 (18%), Positives = 112/330 (33%), Gaps = 44/330 (13%) Query: 74 AKLKKGSAAVSNQKVDFTTDLGVLTPS--SKLTDNNGEAIIIVSNPDLLINAGTISATTI 131 A +KK A +N V F G S S T+ +G+A + + + + Sbjct: 582 ATVKKNGVAQANVPVSFNIVSGTAVLSANSANTNGSGKATVTLKS-------DKPGQVVV 634 Query: 132 PKDSTTALTASRNFEFLSTGDNTSPTTPKLSASILSSSALVTRFKVDEAVKLQAIL-LDS 190 T +T++ N + D T ASI A T + + + + Sbjct: 635 SAK-TAEMTSALNANAVIFVDQTK-------ASITEIKADKTTAVANGQDAITYTVKVMK 686 Query: 191 ESKGIEGAKVTFTAGSATLNPASALTNNQGIAQVTYTPSGSELGANALTVTVDYQGQSLQ 250 K + +VTFT L+ ++ T+ G A+VT T + G + ++ V ++ Sbjct: 687 GDKPVSNQEVTFTTTLGKLSNSTEKTDTNGYAKVTLT--STTPGKSLVSARVSDVAVDVK 744 Query: 251 --TSSLYEVLSKDAVNQEGTLKLGSFNGTVFTEGKLASTLTADAKGVYKISAGGSFGV-- 306 + L+ D N E GT L G + A G G Sbjct: 745 APEVEFFTTLTIDDGNIEIV-------GTGVKGKLPTVWLQ---YGQVNLKASGGNGKYT 794 Query: 307 -----SASLVLEANDGTIT-RVQTPASISFSSDCTTNNSATLDTPVTTLSGNASSTFQDT 360 A ++A+ G +T + + +IS S + T+ TP + + N S Sbjct: 795 WRSANPAIASVDASSGQVTLKEKGTTTISVISSDNQTATYTIATPNSLIVPNMSK----R 850 Query: 361 SCSGNSERNDQIIATTVAGNQTLTASLPFT 390 ++ + + +Q ++ Sbjct: 851 VTYNDAVNTCKNFGGKLPSSQNELENVFKA 880
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 49.4 bits (118), Expect = 1e-08 Identities = 36/231 (15%), Positives = 81/231 (35%), Gaps = 26/231 (11%) Query: 6 MLALVALVALGLILAYGLKLAYSPQPSLLQGQI--EAREYNVSSKVPGRVEQVLVRRGDS 63 ++ + + IL+ ++ + G++ R + V++++V+ G+S Sbjct: 61 AYFIMGFLVIAFILSVLGQVE---IVATANGKLTHSGRSKEIKPIENSIVKEIIVKEGES 117 Query: 64 VAEGDLLFAIHSPELDAKLMQAEGGRDAAKAKQLEANNGARSQEVMAAKEQWLKAQAAAT 123 V +GD+L + + +A ++ + A+ +Q +RS E+ E L + Sbjct: 118 VRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELKLPDEPYFQ 177 Query: 124 LAKTTYTRVENLFNEGVAARQKRDEAFTQWQAAKYTEQAALAMYQMAEEG--ARVETKAA 181 E + E F+ WQ KY ++ L + AR+ Sbjct: 178 NVSE---------EEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYEN 228 Query: 182 AAGNARM---------AEGAVKEVSAVMEDSQMRAPKSGEISEVLLQAGEL 223 + + + A+ + AV+E E+ Q ++ Sbjct: 229 LSRVEKSRLDDFSSLLHKQAIAK-HAVLEQENKYVEAVNELRVYKSQLEQI 278
>TONBPROTEIN#Gram-negative bacterial tonB protein signature. Length = 239 Score = 30.3 bits (68), Expect = 0.042 Identities = 16/98 (16%), Positives = 31/98 (31%), Gaps = 9/98 (9%) Query: 1265 EPVVEELERKSKEIEIPESILPIIGAGDKAMPTEGNNEQHTPKLGPKASEDMKLGEPL-- 1322 V E E + + I P P++ K P + K+ + D+K E Sbjct: 65 PEPVVEPEPEPEPIPEPPKEAPVVIEKPKPKP--KPKPKPVKKVQEQPKRDVKPVESRPA 122 Query: 1323 -PQGSQPDTMPPEPAI--KPIEP--TNSQDVKPIKQNQ 1355 P + +P + + + + +NQ Sbjct: 123 SPFENTAPARLTSSTATAATSKPVTSVASGPRALSRNQ 160
>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein signature. Length = 347 Score = 556 bits (1435), Expect = 0.0 Identities = 313/348 (89%), Positives = 331/348 (95%), Gaps = 1/348 (0%) Query: 1 MFKKLRGIFSNDLSIDLGTANTLIYVRDEGIVLNEPSVVAIRGERNSSGQKSVAAVGTEA 60 M KK RG+FSNDLSIDLGTANTLIYV+ +GIVLNEPSVVAIR +R + KSVAAVG +A Sbjct: 1 MLKKFRGMFSNDLSIDLGTANTLIYVKGQGIVLNEPSVVAIRQDR-AGSPKSVAAVGHDA 59 Query: 61 KQMLGRTPGNIQAIRPMKDGVIADFYVTEKMLQHFIKQVHNNSFFRPSPRVLVCVPVGAT 120 KQMLGRTPGNI AIRPMKDGVIADF+VTEKMLQHFIKQVH+NSF RPSPRVLVCVPVGAT Sbjct: 60 KQMLGRTPGNIAAIRPMKDGVIADFFVTEKMLQHFIKQVHSNSFMRPSPRVLVCVPVGAT 119 Query: 121 QVERRAIRESAMGAGAREVYLIEEPMAAAIGAGLPVSEATGSMVVDIGGGTTEVAIISLN 180 QVERRAIRESA GAGAREV+LIEEPMAAAIGAGLPVSEATGSMVVDIGGGTTEVA+ISLN Sbjct: 120 QVERRAIRESAQGAGAREVFLIEEPMAAAIGAGLPVSEATGSMVVDIGGGTTEVAVISLN 179 Query: 181 GVVYSSSVRIGGDKFDDAIINYVRRNYGSLIGEATAERIKHTIGTAYPGDEVLEIEVRGR 240 GVVYSSSVRIGGD+FD+AIINYVRRNYGSLIGEATAERIKH IG+AYPGDEV EIEVRGR Sbjct: 180 GVVYSSSVRIGGDRFDEAIINYVRRNYGSLIGEATAERIKHEIGSAYPGDEVREIEVRGR 239 Query: 241 NLAEGVPRSFILNSNEILEALQEPLSGIVSAVMVALEQSPPELASDISERGMVLTGGGAL 300 NLAEGVPR F LNSNEILEALQEPL+GIVSAVMVALEQ PPELASDISERGMVLTGGGAL Sbjct: 240 NLAEGVPRGFTLNSNEILEALQEPLTGIVSAVMVALEQCPPELASDISERGMVLTGGGAL 299 Query: 301 LRDLDRLLMQETGIPVMVADDPLTCVARGGGKALEMIDMHGGDLFSEE 348 LR+LDRLLM+ETGIPV+VA+DPLTCVARGGGKALEMIDMHGGDLFSEE Sbjct: 300 LRNLDRLLMEETGIPVVVAEDPLTCVARGGGKALEMIDMHGGDLFSEE 347
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 32.6 bits (74), Expect = 6e-04 Identities = 11/18 (61%), Positives = 17/18 (94%) Query: 13 RGFTLVEMVTVILILGIL 30 RGFTL+E++ VI+I+G+L Sbjct: 8 RGFTLLEIMVVIVIIGVL 25
>TATBPROTEIN#Bacterial sec-independent translocation TatB protein signature. Length = 171 Score = 109 bits (274), Expect = 3e-33 Identities = 65/150 (43%), Positives = 90/150 (60%), Gaps = 6/150 (4%) Query: 1 MFDGIGFMELLLIGVLGLVVLGPERLPVAVRSVTGWIRAMKRMANSVKEELEQELKIEQL 60 MFD IGF ELLL+ ++GLVVLGP+RLPVAV++V GWIRA++ +A +V+ EL QELK+++ Sbjct: 1 MFD-IGFSELLLVFIIGLVVLGPQRLPVAVKTVAGWIRALRSLATTVQNELTQELKLQEF 59 Query: 61 HADLKKAESKGLSNLSPELKESIEQLKQAAQSVNRPYQVQDSSSQGTAA-----PDNQIH 115 LKK E L+NL+PELK S+++L+QAA+S+ R Y D A P + + Sbjct: 60 QDSLKKVEKASLTNLTPELKASMDELRQAAESMKRSYVANDPEKASDEAHTIHNPVVKDN 119 Query: 116 SPAQVSQTNPTTPLETSQHLTSPAAHNEPS 145 A T + S P EP Sbjct: 120 EAAHEGVTPAAAQTQASSPEQKPETTPEPV 149
>PF02370#M protein repeat Length = 168 Score = 30.5 bits (68), Expect = 0.013 Identities = 13/69 (18%), Positives = 32/69 (46%) Query: 387 DERKAKLRIQQEALKQAQKIRSAREEALKLEAETNEKLEQMVQERTLELEITLRELHEVN 446 D RK + + Q + + ++ + +E + E + ++ QE+ + + ++L Sbjct: 59 DLRKREGQYQDKIEELEKERKEKQERPERREKFERQHQDKHYQEQQKKHQQEQQQLEAEK 118 Query: 447 QKLTEQSTI 455 QKL ++ I Sbjct: 119 QKLAKEKQI 127
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 45.0 bits (106), Expect = 4e-08 Identities = 22/102 (21%), Positives = 36/102 (35%), Gaps = 3/102 (2%) Query: 1 MARRKEHSHDEIRAMAIQAATELLIDQGVAGLSLRKVASQIGYVPSTLINIFGSYNYLLL 60 MAR+ + E R + A L QGV+ SL ++A G + F + L Sbjct: 1 MARKTKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFS 60 Query: 61 AV---SEATLRALHLRLAEVCAADSLGKIIAMAWEYSQFAHE 99 + SE+ + L L D L + + + Sbjct: 61 EIWELSESNIGELELEYQAKFPGDPLSVLREILIHVLESTVT 102
>OMPADOMAIN#OMPA domain signature. Length = 346 Score = 40.3 bits (94), Expect = 9e-05 Identities = 35/184 (19%), Positives = 54/184 (29%), Gaps = 24/184 (13%) Query: 2277 LLSVVLLLVGMVNPVNAA-NEGYWYAEGFIGQAQVDNGKRVLQPQAGAGAVTSVDTTDTA 2335 +++ + L G AA + WY +G +Q + Sbjct: 5 AIAIAVALAGFATVAQAAPKDNTWYTGAKLGWSQYHDTGF-------INNNGPTHENQLG 57 Query: 2336 IGVSVGYQWTPLVAVELGYADFGNGSARIEGASLTPEQYHEQVKGVTPVLADGVTLGLRF 2395 G GYQ P V E+GY G R+ ++ A GV L + Sbjct: 58 AGAFGGYQVNPYVGFEMGYDWLG----RMPYKGSVENGAYK---------AQGVQLTAKL 104 Query: 2396 TLLQHEAWRFEVPIGLFRWQADISSTMGNSRLTTALDGTDWYAGVRFSYQFTESWSVGLG 2455 + +G W+AD S + T G Y T + L Sbjct: 105 GYPITDDLDIYTRLGGMVWRADTKSNVYGKNHDT---GVSPVFAGGVEYAITPEIATRLE 161 Query: 2456 YQYV 2459 YQ+ Sbjct: 162 YQWT 165
>SACTRNSFRASE#Streptothricin acetyltransferase signature. Length = 173 Score = 38.0 bits (88), Expect = 5e-06 Identities = 16/81 (19%), Positives = 38/81 (46%), Gaps = 2/81 (2%) Query: 71 YILFYHQQAVGKVMLDTSEHRVHII-DLIVINSMREQGFGSAILAFIKQEAAIRNLP-VG 128 ++ + +G++ + ++ + +I D+ V R++G G+A+L + A + + Sbjct: 68 FLYYLENNCIGRIKIRSNWNGYALIEDIAVAKDYRKKGVGTALLHKAIEWAKENHFCGLM 127 Query: 129 LSVEKENARAKKLYLQHGFKL 149 L + N A Y +H F + Sbjct: 128 LETQDINISACHFYAKHHFII 148
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 31.7 bits (72), Expect = 0.006 Identities = 15/78 (19%), Positives = 37/78 (47%), Gaps = 7/78 (8%) Query: 86 YQQLQQQIQQQQLAQDEKNNALQSQLAQALLQPNQRIEQLEQQQLNDAKT-----YQELS 140 + Q Q Q++L D+K + LA+ + + + ++E+ +L+D + Sbjct: 195 FSTWQNQKYQKELNLDKKRAERLTVLAR--INRYENLSRVEKSRLDDFSSLLHKQAIAKH 252 Query: 141 KLVENQSQLQDRVNKLAE 158 ++E +++ + VN+L Sbjct: 253 AVLEQENKYVEAVNELRV 270 Score = 29.4 bits (66), Expect = 0.025 Identities = 6/41 (14%), Positives = 15/41 (36%) Query: 88 QLQQQIQQQQLAQDEKNNALQSQLAQALLQPNQRIEQLEQQ 128 Q++ +I + ++++ L Q I L + Sbjct: 277 QIESEILSAKEEYQLVTQLFKNEILDKLRQTTDNIGLLTLE 317
>CABNDNGRPT#NodO calcium binding signature. Length = 479 Score = 82.7 bits (204), Expect = 6e-18 Identities = 51/218 (23%), Positives = 77/218 (35%), Gaps = 26/218 (11%) Query: 2264 GGGQSGIITNSNGKEVVAS-----GANNKSYSTTDAQFVNGGDGNDHIETGKGNDVIYAG 2318 G +G + + +A+ GAN + + N D + + Sbjct: 235 GADYNGHYGGAPMIDDIAAIQRLYGANMTTRTGDSVYGFNSNTDRDFYTATDSSKALIFS 294 Query: 2319 RTGSTGYGSDDALELSVNTLLNHHIMTGELTGANRMVDSNGLLLANDVASHKADIVNGGS 2378 + G + D S N +N G L N + G Sbjct: 295 VWDAGGTDTFDFSGYSNNQRIN---------LNEGSFSDVGGLKGNVS-------IAHGV 338 Query: 2379 GDDRIYGQSGSDILYGHTGNDYIDGGSHNDALRGGEGNDTLIGGLGDDVLRGDSGADTFV 2438 + G SG+DIL G++ ++ + GG+ ND L GG G DTL GG G D SG D+ Sbjct: 339 TIENAIGGSGNDILVGNSADNILQGGAGNDVLYGGAGADTLYGGAGRDTFVYGSGQDST- 397 Query: 2439 WRYAEFGTDHIMDFKVTEDKLDLSDLLQGESANNLDSY 2476 D I DF+ DK+DLS + + Sbjct: 398 ----VAAYDWIADFQKGIDKIDLSAFRNEGQLSFVQDQ 431 Score = 40.3 bits (94), Expect = 9e-05 Identities = 24/176 (13%), Positives = 43/176 (24%), Gaps = 52/176 (29%) Query: 2253 NPNQKILNVSFGGGQSGIITNSNGKEVVASGANNKSYSTTDAQFVNGGDGNDHIETGKGN 2312 + Q + + +V N + GG GND + + Sbjct: 299 GGTDTFDFSGYSNNQRINLNEGSFSDVGGLKGNVSIAHGVTIENAIGGSGNDILVGNSAD 358 Query: 2313 DVIYAGRTGSTGYGSDDALELSVNTLLNHHIMTGELTGANRMVDSNGLLLANDVASHKAD 2372 +++ G G+D Sbjct: 359 NILQGGA------GND-------------------------------------------- 368 Query: 2373 IVNGGSGDDRIYGQSGSDILYGHTGNDYIDGGSH--NDALRGGEGNDTLIGGLGDD 2426 ++ GG+G D +YG +G D +G D D +G + D Sbjct: 369 VLYGGAGADTLYGGAGRDTFVYGSGQDSTVAAYDWIADFQKGIDKIDLSAFRNEGQ 424
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 316 bits (812), Expect = e-106 Identities = 96/434 (22%), Positives = 196/434 (45%), Gaps = 15/434 (3%) Query: 29 RLIIWAMAAMIVCFLLWAAFAKLDKVTTGSGKVIPSSQVQVIQSLDGGIMQELYVREGEL 88 RL+ + + +V + + +++ V T +GK+ S + + I+ ++ I++E+ V+EGE Sbjct: 58 RLVAYFIMGFLVIAFILSVLGQVEIVATANGKLTHSGRSKEIKPIENSIVKEIIVKEGES 117 Query: 89 VTKGQPLVRIDDTRFRSDFAQQEQEVFGLKTNTIRMRAELDSILISDMTSDWREQVLITK 148 V KG L+++ +D + + + + R + SI L Sbjct: 118 VRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSI------------ELNKL 165 Query: 149 KALVFPDSIV--AAEPALVHRQQEEYNGRLDNLSNQLEILVRQIQQRQQEIDELASKTTT 206 L PD V R + NQ + +++ E + ++ Sbjct: 166 PELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINR 225 Query: 207 LTTSMQLISRELELTRPLAKKGIVPEVELLKLERAVNDAQGELNSLRLLRPKLKSALDEA 266 ++ L+ L K + + +L+ E +A EL + +++S + A Sbjct: 226 YENLSRVEKSRLDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSA 285 Query: 267 ILKRREAVFVYAADLRAQLNETQTRLSRMNEAQVGAQDKVSKAIITSPVNGTIKTTHINT 326 + + ++ ++ +L +T + + +++ ++I +PV+ ++ ++T Sbjct: 286 KEEYQLVTQLFKNEILDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHT 345 Query: 327 LGGVVQPGVNIIEIVPSEDQLLIETKVLPKDIAFLHPGLPAIVKVTAYDFTRYGGLKGTV 386 GGVV ++ IVP +D L + V KDI F++ G AI+KV A+ +TRYG L G V Sbjct: 346 EGGVVTTAETLMVIVPEDDTLEVTALVQNKDIGFINVGQNAIIKVEAFPYTRYGYLVGKV 405 Query: 387 EHISADTSQDEEGNSFYLIRVRTEESSLVKDDGTQMPIIPGMLTTVDVITGQRSILEYIL 446 ++I+ D +D+ + + + EE+ L +P+ GM T ++ TG RS++ Y+L Sbjct: 406 KNINLDAIEDQRLGLVFNVIISIEENCLS-TGNKNIPLSSGMAVTAEIKTGMRSVISYLL 464 Query: 447 NPILRAKDTALRER 460 +P+ + +LRER Sbjct: 465 SPLEESVTESLRER 478
>OMPADOMAIN#OMPA domain signature. Length = 346 Score = 90.8 bits (225), Expect = 6e-24 Identities = 32/118 (27%), Positives = 53/118 (44%), Gaps = 12/118 (10%) Query: 77 NILFPNDSAFIAPEYYSQIEDIAAFLRQY--PTTKVTIEGHTSRTGTDERNAVLSQERAD 134 ++LF + A + PE + ++ + + L V + G+T R G+D N LS+ RA Sbjct: 220 DVLFNFNKATLKPEGQAALDQLYSQLSNLDPKDGSVVVLGYTDRIGSDAYNQGLSERRAQ 279 Query: 135 AVTAALADRFNIDRSRLTAIGYGSSRPIVLEQTPEAEMR---------NRRVVAEVTG 183 +V L + I +++A G G S P+ + R +RRV EV G Sbjct: 280 SVVDYLISK-GIPADKISARGMGESNPVTGNTCDNVKQRAALIDCLAPDRRVEIEVKG 336
>PF06580#Sensor histidine kinase Length = 349 Score = 25.2 bits (55), Expect = 0.037 Identities = 8/29 (27%), Positives = 14/29 (48%) Query: 47 MVSREEFDVQQHVLLKTREKLEALQAQVN 75 + E D + + +L AL+AQ+N Sbjct: 143 NYKQAEIDQWKMASMAQEAQLMALKAQIN 171
>ECOLIPORIN#E.coli/Salmonella-type porin signature. Length = 383 Score = 76.9 bits (189), Expect = 1e-17 Identities = 99/410 (24%), Positives = 160/410 (39%), Gaps = 53/410 (12%) Query: 1 MNKTCIALVLPVLLTATSSQAIELYKDSKNSLDLSGWLGFAALNDSHDTSVIDDLSRVRF 60 M + +ALV+P LL A ++ A E+Y N LDL G + S D+S D + +R Sbjct: 1 MKRKVLALVIPALLAAGAAHAAEIYNKDGNKLDLYGKVD-GLHYFSDDSSKDGDQTYMRV 59 Query: 61 SF--ERNEKHGWTAFATTEWGINMVSSDDSLVMQGGKLAAEKNEDFLYNRLGYVGMSHDE 118 F E T + E+ + Q E + RL + G+ + Sbjct: 60 GFKGETQINDQLTGYGQWEYNV-----------QANTTEGEGANSW--TRLAFAGLKFGD 106 Query: 119 WGSLSFGKQWGVYYDIAGTTDLPNVFAGYSVGAYAFSDGGLTGTGRADSAFIYRNT--LG 176 +GS +G+ +GV YD+ G TD+ F G S Y ++D + TGRA+ YRNT G Sbjct: 107 YGSFDYGRNYGVLYDVEGWTDMLPEFGGDS---YTYADNYM--TGRANGVATYRNTDFFG 161 Query: 177 PV---HIALQYAAKTNGDIVLKNADGSEMADSELNFDSS----YGASLTYSVTDKFKLLA 229 V + ALQY K G+ ++ + +G S TY + F A Sbjct: 162 LVDGLNFALQYQGKNESQSADDVNIGTNNRNNGDDIRYDNGDGFGISTTYDIGMGFSAGA 221 Query: 230 GFNRGDFDGHLGNTQVDETNKIVGISAMYGDYYHYAENREASGLYVGFNAHQSKNNELVD 289 + D N QV+ I G D + +A+ +Y+ +++N Sbjct: 222 AYTTSD----RTNEQVNAGGTIAG--GDKADAWTAGLKYDANNIYLATMYSETRNMTPYG 275 Query: 290 GELYDATG--------VELMTAYQFDNGFVPMLVLSYLDLDTDATTPIQGKWTRQ----F 337 G E+ YQFD G P +S+L T + + Sbjct: 276 KTDKGYDGGVANKTQNFEVTAQYQFDFGLRPA--VSFLMSKGKDLTYNNVNGDDKDLVKY 333 Query: 338 AMLGLHYRYSNDTVMFAEMKLDFSKMDDAALEAL---EDNGFAVGINYFF 384 A +G Y ++ + + + K++ DD + D+ A+G+ Y F Sbjct: 334 ADVGATYYFNKNFSTYVDYKINLLDDDDPFYKDAGISTDDIVALGMVYQF 383
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 46.9 bits (111), Expect = 9e-09 Identities = 18/79 (22%), Positives = 30/79 (37%), Gaps = 4/79 (5%) Query: 18 KVLHAFKEMLKQQDYRDIAVADIAYKADVGRTTFYRYFKRKLDILIALHQNIFEDIFADL 77 +L + QQ ++ +IA A V R Y +FK K D+ I+E +++ Sbjct: 15 HILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSE----IWELSESNI 70 Query: 78 QSAEDWLSTNTPPSLEKLL 96 E P +L Sbjct: 71 GELELEYQAKFPGDPLSVL 89
>TYPE3IMSPROT#Type III secretion system inner membrane S protein family signature. Length = 354 Score = 32.8 bits (75), Expect = 0.001 Identities = 22/91 (24%), Positives = 30/91 (32%), Gaps = 17/91 (18%) Query: 164 IGYEKAFEQIRTGDVIYCDPP-------YAPLSTTASFTTYVGAGFSLDDQALLARHSRH 216 I E ++ V+ +P Y T T+ D Q R Sbjct: 245 IQSRNMRENVKRSSVVVANPTHIAIGILYKRGETPLPLVTFKYT----DAQVQ---TVRK 297 Query: 217 TALERGIPVLISNHDIPLTRELYRGAHLAKL 247 A E G+P+L IPL R LY A + Sbjct: 298 IAEEEGVPIL---QRIPLARALYWDALVDHY 325
>PF05272#Virulence-associated E family protein Length = 892 Score = 31.6 bits (71), Expect = 0.007 Identities = 15/65 (23%), Positives = 24/65 (36%) Query: 14 ALIQRLHHIASYSDQLLVLSGAQGSGKTTLVTALATDFDESNAALVICPMHADNAEIRRK 73 + R+ D +VL G G GK+TL+ L S+ I +I Sbjct: 583 GHVARVMEPGCKFDYSVVLEGTGGIGKSTLINTLVGLDFFSDTHFDIGTGKDSYEQIAGI 642 Query: 74 ILVQL 78 + +L Sbjct: 643 VAYEL 647
>PF05272#Virulence-associated E family protein Length = 892 Score = 31.2 bits (70), Expect = 0.002 Identities = 16/64 (25%), Positives = 25/64 (39%), Gaps = 8/64 (12%) Query: 9 LVGPMGAGKSTIGRHLAQML-----HLEFHDSDQEIEQRTGADIAWVFDVEGEEGFRRRE 63 L G G GKST+ L + H + EQ G +++ FRR + Sbjct: 601 LEGTGGIGKSTLINTLVGLDFFSDTHFDIGTGKDSYEQIAG---IVAYELSEMTAFRRAD 657 Query: 64 AQVI 67 A+ + Sbjct: 658 AEAV 661
>BCTERIALGSPD#Bacterial general secretion pathway protein D signature. Length = 660 Score = 247 bits (631), Expect = 1e-74 Identities = 93/401 (23%), Positives = 178/401 (44%), Gaps = 38/401 (9%) Query: 313 DVPWDQALDLILQTKGLDKRIEGNILMVAPSEELAIRESQNLKNKQEVKELAPLYSEYLQ 372 + W A D++ L+K + L + + E N ++ Sbjct: 198 PLSWASAADVVKLVTELNKDTSKSALPGSMVANVVADERTNAVLVSGEPNSRQRIIAMIK 257 Query: 373 ----------------INYAKAIDIAELLKSADSSLLSPRG------------SVAVDER 404 + YAKA D+ E+L S++ S + + + Sbjct: 258 QLDRQQATQGNTKVIYLKYAKASDLVEVLTGISSTMQSEKQAAKPVAALDKNIIIKAHGQ 317 Query: 405 TNTVLVKDTAEIIENIHRLVEVLDIPIRQVLIESRMVTVKDNVSEDLGIRWGITDQQGNK 464 TN ++V +++ ++ R++ LDI QVL+E+ + V+D +LGI+W + + Sbjct: 318 TNALIVTAAPDVMNDLERVIAQLDIRRPQVLVEAIIAEVQDADGLNLGIQWANKNAGMTQ 377 Query: 465 GSSGSLEGAQDIANGIVPSIGDRLNVNLPAQVDSAASIAFHVAKLADGTILDLELSALEQ 524 ++ L + IA + ++ +L + + S IA + + L+AL Sbjct: 378 FTNSGLPISTAIAGANQYNKDGTVSSSLASALSSFNGIAAGFYQGN----WAMLLTALSS 433 Query: 525 ENKGEIIASPRITTSNQKAAYIEQGIEIPYV-----QSTSSGATSVTFKKAVLSLRVTPQ 579 K +I+A+P I T + A G E+P + S + +V K + L+V PQ Sbjct: 434 STKNDILATPSIVTLDNMEATFNVGQEVPVLTGSQTTSGDNIFNTVERKTVGIKLKVKPQ 493 Query: 580 ITPDNRVILDLEITQDSEGKTVPTSTGP-AVAIDTQRIGTQVLVNNGETIVLGGIYQQNL 638 I + V+L++E S +++ +T+ + VLV +GET+V+GG+ +++ Sbjct: 494 INEGDSVLLEIEQEVSSVADAASSTSSDLGATFNTRTVNNAVLVGSGETVVVGGLLDKSV 553 Query: 639 ISRVSKVPVLGDIPLVGFLFRNTTDKNERQELLIFVTPKIV 679 KVP+LGDIP++G LFR+T+ K ++ L++F+ P ++ Sbjct: 554 SDTADKVPLLGDIPVIGALFRSTSKKVSKRNLMLFIRPTVI 594 Score = 48.4 bits (115), Expect = 8e-08 Identities = 33/175 (18%), Positives = 75/175 (42%), Gaps = 14/175 (8%) Query: 274 SLNFQNISVRTVLQIIADYNNFNLVTSDTVEGNITLR-LDDVPWDQALDLILQTKGLDKR 332 S +F+ ++ + ++ N ++ +V G IT+R D + +Q L Sbjct: 31 SASFKGTDIQEFINTVSKNLNKTVIIDPSVRGTITVRSYDMLNEEQYYQFFLSVL----D 86 Query: 333 IEGNILMVAPSEELAIRESQNLKNKQEVK--ELAP-----LYSEYLQINYAKAIDIAELL 385 + G ++ + L + S++ K + AP + + + + A D+A LL Sbjct: 87 VYGFAVINMNNGVLKVVRSKDAKTAAVPVASDAAPGIGDEVVTRVVPLTNVAARDLAPLL 146 Query: 386 KSADSSLLSPRGSVAVDERTNTVLVKDTAEIIENIHRLVEVLDIPIRQVLIESRM 440 + + + + GSV E +N +L+ A +I+ + +VE +D + ++ + Sbjct: 147 RQLNDN--AGVGSVVHYEPSNVLLMTGRAAVIKRLLTIVERVDNAGDRSVVTVPL 199
>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein signature. Length = 347 Score = 42.1 bits (99), Expect = 2e-06 Identities = 33/156 (21%), Positives = 59/156 (37%), Gaps = 34/156 (21%) Query: 199 VDIGANMTTFSVVESGETTFIREQAFGGELFTQSILSFYGMSY------EQAEKAKIE-- 250 VDIG T +V+ + GG+ F ++I+++ +Y AE+ K E Sbjct: 164 VDIGGGTTEVAVISLNGVVYSSSVRIGGDRFDEAIINYVRRNYGSLIGEATAERIKHEIG 223 Query: 251 -------------------GDLPRNY------MFEVLSPFQTQLLQQVKRTLQIYCTSSG 285 +PR + + E L T ++ V L+ Sbjct: 224 SAYPGDEVREIEVRGRNLAEGVPRGFTLNSNEILEALQEPLTGIVSAVMVALEQCPPELA 283 Query: 286 RDKVDY-LVLCGGTSKLEGMANLLINELGVHTIIAD 320 D + +VL GG + L + LL+ E G+ ++A+ Sbjct: 284 SDISERGMVLTGGGALLRNLDRLLMEETGIPVVVAE 319
>CARBMTKINASE#Bacterial carbamate kinase signature. Length = 314 Score = 42.1 bits (99), Expect = 1e-06 Identities = 32/140 (22%), Positives = 65/140 (46%), Gaps = 18/140 (12%) Query: 135 LKFILEQGWMPICSS---IAMMDDGQMLN-----VNADQAATALAKLVGGK-LVLLSDVS 185 +K ++E+G + I S + ++ + + ++ D A LA+ V ++L+DV+ Sbjct: 179 IKKLVERGVIVIASGGGGVPVILEDGEIKGVEAVIDKDLAGEKLAEEVNADIFMILTDVN 238 Query: 186 GVLDGKG----QLIHSLNGKQIADLVKQGVIEKG-MKVKVEAALEVAQWMGQAVQVASWR 240 G G Q + + +++ ++G + G M KV AA+ +W G+ +A Sbjct: 239 GAALYYGTEKEQWLREVKVEELRKYYEEGHFKAGSMGPKVLAAIRFIEWGGERAIIAHLE 298 Query: 241 DASQLIALAKGEAVGTQIQP 260 A + + G+ GTQ+ P Sbjct: 299 KAVEALE---GKT-GTQVLP 314
>BINARYTOXINA#Clostridial binary toxin A signature. Length = 454 Score = 33.5 bits (76), Expect = 0.002 Identities = 24/93 (25%), Positives = 41/93 (44%), Gaps = 10/93 (10%) Query: 483 LNNDGGNIFNLL---PVPNEQVRNDYYRLSHGLEFGYAAAMFNLPYNQVDNLADFQDSYN 539 L++ NI N L P+P+ + YR S EFG +N+++N+ F++ + Sbjct: 312 LDSKVNNIENALKLTPIPSNLI---VYRRSGPQEFGLTLTSPEYDFNKIENIDAFKEKWE 368 Query: 540 ----EALDFQGASIIEVNVSQTQASDQIAELNL 568 +F SI VN+S I +N+ Sbjct: 369 GKVITYPNFISTSIGSVNMSAFAKRKIILRINI 401
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 60.2 bits (146), Expect = 6e-12 Identities = 42/229 (18%), Positives = 75/229 (32%), Gaps = 36/229 (15%) Query: 1 MSKVRVIVLEDHPFQRAVLEHNLASLANIEVFAFGSAQDALTWLDVHNSADIVICDLMMA 60 M+ ++V +D R VL L S A +V +A W+ D+V+ D++M Sbjct: 1 MTGATILVADDDAAIRTVLNQAL-SRAGYDVRITSNAATLWRWIA-AGDGDLVVTDVVMP 58 Query: 61 GTDGLSFLRKAKAKYDIASVALFSCIDKELRRAVSQMIKMLNFEYLGDLSKSPSVDNLQS 120 + L + K V + S A+ + ++Y L K + L Sbjct: 59 DENAFDLLPRIKKARPDLPVLVMS-AQNTFMTAIKAS-EKGAYDY---LPKPFDLTELIG 113 Query: 121 MLDKFVYSRAQKRKVISTPRVEIRPKDFTLADFQLALDQHQFVGFYQPKFNVANFNLA-- 178 ++ + + ++ + + P A Q + +L Sbjct: 114 IIGRALAEPKRRPSKLEDDSQDGMPLVGRSAAMQEIYRVLA---------RLMQTDLTLM 164 Query: 179 -------GVEVLARWIHPE-------LGTLNPAAFIEPLITYGLLDELF 213 G E++AR +H +N AA LI ELF Sbjct: 165 ITGESGTGKELVARALHDYGKRRNGPFVAINMAAIPRDLIE----SELF 209
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 78.7 bits (194), Expect = 3e-19 Identities = 28/121 (23%), Positives = 58/121 (47%), Gaps = 2/121 (1%) Query: 1 MKR-KVLIVDDHPVVVLALKIILEQSGFEVIAETNNGVDALKLMKALSPDAVILDIGIPQ 59 M +L+ DD + L L ++G++V T+N + + A D V+ D+ +P Sbjct: 1 MTGATILVADDDAAIRTVLNQALSRAGYDVRI-TSNAATLWRWIAAGDGDLVVTDVVMPD 59 Query: 60 LDGLEVIERSRKLSKCPPILVLTAQPSEHFISRCIQAGASGFVSKQKDMNEVTGALKAII 119 + +++ R +K P+LV++AQ + + + GA ++ K D+ E+ G + + Sbjct: 60 ENAFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRAL 119 Query: 120 T 120 Sbjct: 120 A 120
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 70.6 bits (173), Expect = 1e-14 Identities = 34/116 (29%), Positives = 48/116 (41%), Gaps = 4/116 (3%) Query: 953 ILIVDDHPANRLLLAQQLKYLGHSVDEAENGLTALDMFKSKKYPVVITDCNMPEMNGYEL 1012 IL+ DD A R +L Q L G+ V N T + +V+TD MP+ N ++L Sbjct: 6 ILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFDL 65 Query: 1013 CQKIRQFERKRHAHAIVIGYTANAQKEAKDACLVAGMDDCLFKPISLMELESMIKR 1068 +I +K V+ +A G D L KP L EL +I R Sbjct: 66 LPRI----KKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGR 117
>CARBMTKINASE#Bacterial carbamate kinase signature. Length = 314 Score = 43.7 bits (103), Expect = 7e-07 Identities = 38/149 (25%), Positives = 60/149 (40%), Gaps = 19/149 (12%) Query: 116 KETIFCLLEHGLM---------PIINENDAVTADKLKVGDNDNLSAMVAAAADADTLIIC 166 ETI L+E G++ P+I E+ + + V D D +A +AD +I Sbjct: 176 AETIKKLVERGVIVIASGGGGVPVILEDGEIKGVE-AVIDKDLAGEKLAEEVNADIFMIL 234 Query: 167 SDVNGLYTQNPHENPNAELIKQVTEINADIYAMAGGASSNVGTGGMRTKIQAAEKAISHG 226 +DVNG + + +++V Y G G M K+ AA + I G Sbjct: 235 TDVNGAALY--YGTEKEQWLREVKVEELRKYYEEGH----FKAGSMGPKVLAAIRFIEWG 288 Query: 227 IETFIINGFVADSFSQLLKGQNPGTLFIP 255 E II + + L+G GT +P Sbjct: 289 GERAIIAHL--EKAVEALEG-KTGTQVLP 314
>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature. Length = 1541 Score = 33.1 bits (75), Expect = 0.003 Identities = 24/148 (16%), Positives = 48/148 (32%), Gaps = 25/148 (16%) Query: 345 RERDNRAPTYQNTKAELKERRS--ANAEQMPATKGRSDPVHTQRERSDAQAKQMQANKDI 402 E+D T QN + + + + AN + + S+ TQ + A + K Sbjct: 1054 NEQDATETTAQNREVAKEAKSNVKANTQTNEVAQSGSETKETQTTETKETATVEKEEKAK 1113 Query: 403 QQKQYQTREPQRQENSRAITPRVESPRQEIKRSEPQRMEQPRQSVPRQREEVKVRQSEPR 462 + + P+ ++P+ E ++EP R P ++ EP+ Sbjct: 1114 VETEKTQEVPKVTSQ---VSPKQEQSETVQPQAEPARENDPTVNI-----------KEPQ 1159 Query: 463 QNQNMQATRAVDQNKGRSTQSQERRNRE 490 N A + Q + + Sbjct: 1160 SQTNTTAD---------TEQPAKETSSN 1178 Score = 32.0 bits (72), Expect = 0.008 Identities = 25/160 (15%), Positives = 46/160 (28%), Gaps = 11/160 (6%) Query: 337 KETHNYNSRERDNRAPTYQNTKAELKERRSANAEQMP--------ATKGRSDPVHTQRER 388 N R + AP A E AE + ++ RE Sbjct: 1009 SVPSNNEEIARVDEAPVPPPAPATPSETTETVAENSKQESKTVEKNEQDATETTAQNREV 1068 Query: 389 SDAQAKQMQANK---DIQQKQYQTREPQRQENSRAITPRVESPRQEIKRSEPQRMEQPRQ 445 + ++AN ++ Q +T+E Q E T E + + + Q Sbjct: 1069 AKEAKSNVKANTQTNEVAQSGSETKETQTTETKETATVEKEEKAKVETEKTQEVPKVTSQ 1128 Query: 446 SVPRQREEVKVRQSEPRQNQNMQATRAVDQNKGRSTQSQE 485 P+Q + V+ +N + +T + Sbjct: 1129 VSPKQEQSETVQPQAEPARENDPTVNIKEPQSQTNTTADT 1168
>PF06580#Sensor histidine kinase Length = 349 Score = 29.4 bits (66), Expect = 0.031 Identities = 15/80 (18%), Positives = 25/80 (31%), Gaps = 15/80 (18%) Query: 365 KAAKSTVKLTVTGDAYQLQICIEDDGPGISELLKNQIFERGIRADSYRQGNGIGLAIVRD 424 + L T D + + +E+ G + ++ G GL VR+ Sbjct: 275 LPQGGKILLKGTKDNGTVTLEVENTGSLA--------------LKNTKESTGTGLQNVRE 320 Query: 425 -LVDSYNGRISVSHSETLGG 443 L Y + SE G Sbjct: 321 RLQMLYGTEAQIKLSEKQGK 340
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 82.6 bits (204), Expect = 2e-20 Identities = 31/125 (24%), Positives = 62/125 (49%) Query: 2 RLLLVEDDLELQTNLKQHLLDAHYSIDVASDGEEGLFQALECNYDAAIIDVGLPKLDGIS 61 +L+ +DD ++T L Q L A Y + + S+ + D + DV +P + Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64 Query: 62 LIRSVRQKERDFPILILTARDSWQDKVEGLDAGADDYLTKPFHPQELVARLKALIRRSAG 121 L+ +++ D P+L+++A++++ ++ + GA DYL KPF EL+ + + Sbjct: 65 LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKR 124 Query: 122 KASPL 126 + S L Sbjct: 125 RPSKL 129
>PF06580#Sensor histidine kinase Length = 349 Score = 52.9 bits (127), Expect = 9e-10 Identities = 26/179 (14%), Positives = 59/179 (32%), Gaps = 28/179 (15%) Query: 270 IVNDIEDMDAIISQFIAYIRQ----DQEANRELAQINKLIQDIVQAEANRAGEIEMVLTD 325 I+ D +++ +R LA ++ +Q + + + Sbjct: 186 ILEDPTKAREMLTSLSELMRYSLRYSNARQVSLADELTVVDSYLQLASIQFEDRLQFENQ 245 Query: 326 CPETLFQAIAIKRVLSNLVENAFRYG------SGWIRISSQYDGKRIGFSVEDNGPGIDE 379 + ++ LVEN ++G G I + D + VE+ G + Sbjct: 246 INPAIMDVQVPPMLVQTLVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSLALK 305 Query: 380 SQIQKLFQPFTQGDIARGSVGSGLGLA-IIKRIIDRHQGQITLS-NRKEGGLKAQVWLP 436 + + +G GL + +R+ + + + + K+G + A V +P Sbjct: 306 NTKE----------------STGTGLQNVRERLQMLYGTEAQIKLSEKQGKVNAMVLIP 348
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 98.4 bits (245), Expect = 7e-26 Identities = 38/129 (29%), Positives = 66/129 (51%) Query: 6 SKILVVDDDMRLRALLERYLMEQGYQVRSAANAEQMDRLLERENFHLLVLDLMLPGEDGL 65 + ILV DDD +R +L + L GY VR +NA + R + + L+V D+++P E+ Sbjct: 4 ATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63 Query: 66 SICRRLRQQGSLIPIVMLTAKGDEVDRIIGLELGADDYLPKPFNPRELLARIKAVMRRQT 125 + R+++ +P+++++A+ + I E GA DYLPKPF+ EL+ I + Sbjct: 64 DLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPK 123 Query: 126 LEVPGAPAQ 134 Sbjct: 124 RRPSKLEDD 132
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 333 bits (856), Expect = e-110 Identities = 122/340 (35%), Positives = 194/340 (57%), Gaps = 10/340 (2%) Query: 296 RDPQLERAWQHANKVITKQIPLLVLGETGVGKEQFVKKLHAQSARRTEPLVAVNCAALPA 355 R ++ ++ +++ + L++ GE+G GKE + LH RR P VA+N AA+P Sbjct: 142 RSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVARALHDYGKRRNGPFVAINMAAIPR 201 Query: 356 ELVESELFGYQAGAFTGANRTGFIGKIRQAHGGFLFLDEIGEMPLAAQSRLLRVLQEREV 415 +L+ESELFG++ GAFTGA G+ QA GG LFLDEIG+MP+ AQ+RLLRVLQ+ E Sbjct: 202 DLIESELFGHEKGAFTGAQTRS-TGRFEQAEGGTLFLDEIGDMPMDAQTRLLRVLQQGEY 260 Query: 416 VPVGSNQSFKVDIQIIAATHMDLEQQVTQGLFRQDLFYRLNGLQVRLPALRERQ-DIERI 474 VG + D++I+AAT+ DL+Q + QGLFR+DL+YRLN + +RLP LR+R DI + Sbjct: 261 TTVGGRTPIRSDVRIVAATNKDLKQSINQGLFREDLYYRLNVVPLRLPPLRDRAEDIPDL 320 Query: 475 IH---KLHRKHRIAAQDICPELLGQMMQYDWPGNLRELDNLMQVACLMAEGDNTLNWQHL 531 + + K + + E L M + WPGN+REL+NL++ + D + + + Sbjct: 321 VRHFVQQAEKEGLDVKRFDQEALELMKAHPWPGNVRELENLVRRLTALYPQD-VITREII 379 Query: 532 PDYLAAKLTCEPLKGDLLQAASLCDEFKEVSRQRSASPLPSGKLAVEPNVTKVQSDSLNE 591 + L +++ P++ ++ SL + + S A+ P+ + L E Sbjct: 380 ENELRSEIPDSPIEKAAARSGSL--SISQAVEENMRQYFASFGDALPPSG--LYDRVLAE 435 Query: 592 AIYSNVLQAFQACNGNVSQCAKRLGISRNALYRKLKQMGL 631 Y +L A A GN + A LG++RN L +K++++G+ Sbjct: 436 MEYPLILAALTATRGNQIKAADLLGLNRNTLRKKIRELGV 475
>PF06580#Sensor histidine kinase Length = 349 Score = 37.2 bits (86), Expect = 1e-04 Identities = 20/118 (16%), Positives = 47/118 (39%), Gaps = 12/118 (10%) Query: 277 EAEQLEKLIAELLELSRVKLNTNETKVRLGLAESLSQVLDDAEFEADQQDKKIT--IDID 334 + + +++ L EL R L + + + LA+ L+ V + + Q + ++ I+ Sbjct: 189 DPTKAREMLTSLSELMRYSLRYSNARQ-VSLADELTVVDSYLQLASIQFEDRLQFENQIN 247 Query: 335 EDIELTHFPKSLSRAIENLLRNAIRYA------KNDIYIHASATADEVYITIKDDGPG 386 I P L ++ L+ N I++ I + + V + +++ G Sbjct: 248 PAIMDVQVPPML---VQTLVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSL 302
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 92.2 bits (229), Expect = 7e-24 Identities = 44/163 (26%), Positives = 75/163 (46%), Gaps = 3/163 (1%) Query: 2 SRILLIDDDLGLSELLGQLLELEGFTLTLAYDGKKGLDLALTTDFDLILLDVMLPKLNGF 61 + IL+ DDD + +L Q L G+ + + + D DL++ DV++P N F Sbjct: 4 ATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63 Query: 62 EVLRALRQH-KQTPVLMLTARGDEIDRVVGLEIGADDYLPKPFNDRELIARIRAIIRRAH 120 ++L +++ PVL+++A+ + + E GA DYLPKPF+ ELI I + Sbjct: 64 DLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPK 123 Query: 121 LTAQEIHAAPAQEFGDLRLDPSRQEAYCNEQLIILTGTEFTLL 163 ++ + + QE Y L L T+ TL+ Sbjct: 124 RRPSKLEDDSQDGMPLVGRSAAMQEIY--RVLARLMQTDLTLM 164
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 560 bits (1445), Expect = 0.0 Identities = 197/473 (41%), Positives = 294/473 (62%), Gaps = 11/473 (2%) Query: 7 VWILDDDSSIRWVLEKALQGAKLSTASFAAAESLWQALEISQPRVIVSDIRMPGTDGLSL 66 + + DDD++IR VL +AL A + A +LW+ + ++V+D+ MP + L Sbjct: 6 ILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFDL 65 Query: 67 LERLQIHYPHIPVIIMTAHSDLDSAVSAYQAGAFEYLPKPFDIDEAISLVERALTHATEQ 126 L R++ P +PV++M+A + +A+ A + GA++YLPKPFD+ E I ++ RAL + Sbjct: 66 LPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKRR 125 Query: 127 SPAPVQETQVKTPEIIGEAPAMQEVFRAIGRLSRSSISVLINGQSGTGKELVAGALHKHS 186 P+ +++ ++G + AMQE++R + RL ++ ++++I G+SGTGKELVA ALH + Sbjct: 126 -PSKLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVARALHDYG 184 Query: 187 PRKDKPFIALNMAAIPKDLIESELFGHEKGAFTGAANVRQGRFEQANGGTLFLDEIGDMP 246 R++ PF+A+NMAAIP+DLIESELFGHEKGAFTGA GRFEQA GGTLFLDEIGDMP Sbjct: 185 KRRNGPFVAINMAAIPRDLIESELFGHEKGAFTGAQTRSTGRFEQAEGGTLFLDEIGDMP 244 Query: 247 LDVQTRLLRVLADGQFYRVGGHNAVQVDVRIIAATHQDLELLVQKGGFREDLFHRLNVIR 306 +D QTRLLRVL G++ VGG ++ DVRI+AAT++DL+ + +G FREDL++RLNV+ Sbjct: 245 MDAQTRLLRVLQQGEYTTVGGRTPIRSDVRIVAATNKDLKQSINQGLFREDLYYRLNVVP 304 Query: 307 VHLPPLSQRREDIPQLATHFLASAAKEIGVEPKILTKETAAKLSQLPWPGNVRQLENTCR 366 + LPPL R EDIP L HF+ A KE G++ K +E + PWPGNVR+LEN R Sbjct: 305 LRLPPLRDRAEDIPDLVRHFVQQAEKE-GLDVKRFDQEALELMKAHPWPGNVRELENLVR 363 Query: 367 WLTVMASGQEILPQDLPPELLKDPVSITHATKVGQDWQSALTEWIDQKLSE--------- 417 LT + I + + EL + + ++++ +++ + + Sbjct: 364 RLTALYPQDVITREIIENELRSEIPDSPIEKAAARSGSLSISQAVEENMRQYFASFGDAL 423 Query: 418 GNSDLLTEVQPAFERILLETALRHTQGHKQEAAKRLGWGRNTLTRKLKELSMD 470 S L V E L+ AL T+G++ +AA LG RNTL +K++EL + Sbjct: 424 PPSGLYDRVLAEMEYPLILAALTATRGNQIKAADLLGLNRNTLRKKIRELGVS 476
>PF06580#Sensor histidine kinase Length = 349 Score = 40.2 bits (94), Expect = 7e-06 Identities = 35/188 (18%), Positives = 71/188 (37%), Gaps = 33/188 (17%) Query: 166 TLIIEQADRLRNLVDRL-------LGPQRPTQHSLHNIHKVVQKVYKLVEMALPANIQLK 218 LI+E + R ++ L L Q SL + VV +L + +Q + Sbjct: 184 ALILEDPTKAREMLTSLSELMRYSLRYSNARQVSLADELTVVDSYLQLASIQFEDRLQFE 243 Query: 219 RDYDPSIPDIEMDPDQMQQAVLNILQNAVQALEHTGGEILIRTRTQHQVTIGSQRHKLVL 278 +P+I D+++ P +Q V N +++ + L GG+IL++ + + Sbjct: 244 NQINPAIMDVQVPPMLVQTLVENGIKHGIAQLPQ-GGKILLKGTKDNGT----------V 292 Query: 279 TLSIIDNGPGIPPELMDTLFYPMVTSREQGSGLGLSIAHNIARLHSG---RIDCLSSAGH 335 TL + + G + + ++ +G GL ++ G +I G Sbjct: 293 TLEVENTGSL------------ALKNTKESTGTGLQNVRERLQMLYGTEAQIKLSEKQGK 340 Query: 336 TEFTISLP 343 + +P Sbjct: 341 VNAMVLIP 348
>TYPE3IMSPROT#Type III secretion system inner membrane S protein family signature. Length = 354 Score = 323 bits (829), Expect = e-111 Identities = 114/350 (32%), Positives = 188/350 (53%), Gaps = 6/350 (1%) Query: 8 DKTEEATPQKLRKARKEGQVPRSKDLASAALVLGCSVMLTSNANWFATKVSGLTKYNMLL 67 +KTE+ TP+K+R ARK+GQV +SK++ S AL++ S ML ++++ S L ML+ Sbjct: 4 EKTEQPTPKKIRDARKKGQVAKSKEVVSTALIVALSAMLMGLSDYYFEHFSKL----MLI 59 Query: 68 TRAELDQPD--MMVRHLGTSLVEMLTILSPLFIMVALLAAIAGALPGGPIFNVGNANFKY 125 + P + + L+E + PL + AL+A + + G + + Sbjct: 60 PAEQSYLPFSQALSYVVDNVLLEFFYLCFPLLTVAALMAIASHVVQYGFLISGEAIKPDI 119 Query: 126 SRIDPIAGVGRIFSTQSLVELLKSCLKIVLLISIMLVFLNGHLQSLLSYSHRPIDEAVRD 185 +I+PI G RIFS +SLVE LKS LK+VLL ++ + + G+L +LL I+ Sbjct: 120 KKINPIEGAKRIFSIKSLVEFLKSILKVVLLSILIWIIIKGNLVTLLQLPTCGIECITPL 179 Query: 186 GINLLSQGMLYLGVGLLVIAFIDVPYQYWHHKKQLRMSRQEVKDEHTQQEGKPEIKAKIR 245 +L Q M+ VG +VI+ D ++Y+ + K+L+MS+ E+K E+ + EG PEIK+K R Sbjct: 180 LGQILRQLMVICTVGFVVISIADYAFEYYQYIKELKMSKDEIKREYKEMEGSPEIKSKRR 239 Query: 246 QLQQRMARSRADTTIPKADVLLVNPTHYAVALKYNPDLADAPYVLTKGTEELALYMRELA 305 Q Q + + ++ V++ NPTH A+ + Y P V K T+ +R++A Sbjct: 240 QFHQEIQSRNMRENVKRSSVVVANPTHIAIGILYKRGETPLPLVTFKYTDAQVQTVRKIA 299 Query: 306 KKHGVEIIDIPPLTRAIYHSTQVDQQIPSALFIAIAHVLSYVMQIKASRK 355 ++ GV I+ PL RA+Y VD IP+ A A VL ++ + ++ Sbjct: 300 EEEGVPILQRIPLARALYWDALVDHYIPAEQIEATAEVLRWLERQNIEKQ 349
>TYPE3IMRPROT#Type III secretion system inner membrane R protein family signature. Length = 261 Score = 110 bits (277), Expect = 1e-31 Identities = 71/229 (31%), Positives = 118/229 (51%), Gaps = 2/229 (0%) Query: 1 MIMPLLGNAYVPVMVRIFLALSIAALLAPMLPPVPPVDAISLASLFLAIEQLLIGFMLAL 60 P+L VP V++ LA+ I +AP LP S +L+LA++Q+LIG L Sbjct: 28 STAPILSERSVPKRVKLGLAMMITFAIAPSLPANDVPV-FSFFALWLAVQQILIGIALGF 86 Query: 61 FLTLLIHVMTMLGNIMSMQMGLAMAVMNDPANGDSSPIISEWFQIFGTLIFLALNGHLVA 120 + + G I+ +QMGL+ A DPA+ + P+++ + L+FL NGHL Sbjct: 87 TMQFAFAAVRTAGEIIGLQMGLSFATFVDPASHLNMPVLARIMDMLALLLFLTFNGHLWL 146 Query: 121 INIIVDSFRLWPIGH-GIFELPLMGLVSRLAWLFAASLMLAIPAVLAMLMVNITFGVLSR 179 I+++VD+F PIG + + L + +F LMLA+P + +L +N+ G+L+R Sbjct: 147 ISLLVDTFHTLPIGGEPLNSNAFLALTKAGSLIFLNGLMLALPLITLLLTLNLALGLLNR 206 Query: 180 SAPSLNIFSLGFPMTMLMGLLCVFLSLSGIPSRYSDLCLDALTAMYQFI 228 AP L+IF +GFP+T+ +G+ + + I L + + I Sbjct: 207 MAPQLSIFVIGFPLTLTVGISLMAALMPLIAPFCEHLFSEIFNLLADII 255
>TYPE3IMQPROT#Type III secretion system inner membrane Q protein family signature. Length = 86 Score = 47.1 bits (112), Expect = 9e-11 Identities = 20/80 (25%), Positives = 39/80 (48%) Query: 3 INELTALFADSMFLVIMMVSALVTPGLILGLIVAVFQAATQVNEQTLSFLPRLIITLLMV 62 +++L +++LV+++ I+GL+V +FQ TQ+ EQTL F +L+ L + Sbjct: 1 MDDLVFAGNKALYLVLILSGWPTIVATIIGLLVGLFQTVTQLQEQTLPFGIKLLGVCLCL 60 Query: 63 LFSGHWLIQQLSDLFDRLFM 82 W + L ++ Sbjct: 61 FLLSGWYGEVLLSYGRQVIF 80
>FLGBIOSNFLIP#Escherichia coli: Flagellar biosynthetic protein FliP signature. Length = 245 Score = 227 bits (580), Expect = 4e-77 Identities = 120/244 (49%), Positives = 166/244 (68%), Gaps = 2/244 (0%) Query: 1 MIVRLLLLSTFLFVPHAIASEGL-TLFTLDSGESSQAVNIKLEILALMTAISFLPVMLMM 59 M L + L++ +A L + + Q+ ++ ++ L +T+++F+P +L+M Sbjct: 1 MRRLLSVAPVLLWLITPLAFAQLPGITSQPLPGGGQSWSLPVQTLVFITSLTFIPAILLM 60 Query: 60 LTSFTRIIIVLAILRQALGLQQSPPNRVLVGIALILTIFIMRPVGDKIYKEAYLPYDQGK 119 +TSFTRIIIV +LR ALG +PPN+VL+G+AL LT FIM PV DKIY +AY P+ + K Sbjct: 61 MTSFTRIIIVFGLLRNALGTPSAPPNQVLLGLALFLTFFIMSPVIDKIYVDAYQPFSEEK 120 Query: 120 IELMEAISIAKVPLTRFMLAQTRETDLEQMLKIANEPTHMKTAEEVPFFVLMPAFVLSEL 179 I + EA+ PL FML QTRE DL ++AN ++ E VP +L+PA+V SEL Sbjct: 121 ISMQEALEKGAQPLREFMLRQTREADLGLFARLANTGP-LQGPEAVPMRILLPAYVTSEL 179 Query: 180 KTAFQIGFLIFLPFLVIDLVVASVLMSMGMMMLSPLIISLPFKLMIFVLVDGWAMTVSTL 239 KTAFQIGF IF+PFL+IDLV+ASVLM++GMMM+ P I+LPFKLM+FVLVDGW + V +L Sbjct: 180 KTAFQIGFTIFIPFLIIDLVIASVLMALGMMMVPPATIALPFKLMLFVLVDGWQLLVGSL 239 Query: 240 TASF 243 SF Sbjct: 240 AQSF 243
>FLGMOTORFLIN#Flagellar motor switch protein FliN signature. Length = 137 Score = 80.7 bits (199), Expect = 8e-23 Identities = 45/119 (37%), Positives = 71/119 (59%), Gaps = 19/119 (15%) Query: 17 SDDDFLLDDDIFSEKSLSKQDTQSRKLKNNNFFQQL------------------PVQVTL 58 SD++ DD++++ +L++Q + K + FQQL PV++T+ Sbjct: 8 SDENTGALDDLWAD-ALNEQKATTTKSAADAVFQQLGGGDVSGAMQDIDLIMDIPVKLTV 66 Query: 59 ELASAEMSLGELNRMGEGDVIALDRMVGEPLDIRVNGALLGRGEVVEVAGRYGVRLLEI 117 EL M++ EL R+ +G V+ALD + GEPLDI +NG L+ +GEVV VA +YGVR+ +I Sbjct: 67 ELGRTRMTIKELLRLTQGSVVALDGLAGEPLDILINGYLIAQGEVVVVADKYGVRITDI 125
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 373 bits (960), Expect = e-128 Identities = 139/401 (34%), Positives = 205/401 (51%), Gaps = 45/401 (11%) Query: 73 ELAAAAMRAGVQDYLLIPVESEQLLASIHR----LRRLELPDSS-------LVVSASVSR 121 A A G DYL P + +L+ I R +R LV ++ + Sbjct: 88 MTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKRRPSKLEDDSQDGMPLVGRSAAMQ 147 Query: 122 QLLMLAHRAATTEASVLLLGESGTGKEPLARYIHRHSSRSHKPFIAINCAAIPESILESV 181 ++ + R T+ ++++ GESGTGKE +AR +H + R + PF+AIN AAIP ++ES Sbjct: 148 EIYRVLARLMQTDLTLMITGESGTGKELVARALHDYGKRRNGPFVAINMAAIPRDLIESE 207 Query: 182 LFGHVKGAFTGAICDKAGKFEQANGGTLLLDEIGEMPLTLQAKLLRVLQEREVERLGGQH 241 LFGH KGAFTGA G+FEQA GGTL LDEIG+MP+ Q +LLRVLQ+ E +GG+ Sbjct: 208 LFGHEKGAFTGAQTRSTGRFEQAEGGTLFLDEIGDMPMDAQTRLLRVLQQGEYTTVGGRT 267 Query: 242 AIALDIRIIASTNRDLRQAVELGHFREDLFYRLDVLPLKISPLRDRKADILPLAEHFLDL 301 I D+RI+A+TN+DL+Q++ G FREDL+YRL+V+PL++ PLRDR DI L HF+ Sbjct: 268 PIRSDVRIVAATNKDLKQSINQGLFREDLYYRLNVVPLRLPPLRDRAEDIPDLVRHFVQQ 327 Query: 302 YHQPDTTSTCYFSEHAKQALVSYDWPGNVRELENCIQRALVMRRGLAIQAADLGLNIQLE 361 + F + A + + ++ WPGNVRELEN ++R + I + ++ E Sbjct: 328 AEKEG-LDVKRFDQEALELMKAHPWPGNVRELENLVRRLTALYPQDVITREIIENELRSE 386 Query: 362 V------------------QAVEH------------PEVTDGLRASKQQAEFQYIIDVLK 391 + QAVE + + E+ I+ L Sbjct: 387 IPDSPIEKAAARSGSLSISQAVEENMRQYFASFGDALPPSGLYDRVLAEMEYPLILAALT 446 Query: 392 RFNGQRTLSAQALGMTTRALRYRLVQMREAGIDIEMLLEQA 432 G + +A LG+ LR + +RE G+ + A Sbjct: 447 ATRGNQIKAADLLGLNRNTLRKK---IRELGVSVYRSSRSA 484
>FLGHOOKFLIE#Flagellar hook-basal body complex protein FliE signature. Length = 103 Score = 47.0 bits (111), Expect = 3e-10 Identities = 20/72 (27%), Positives = 34/72 (47%), Gaps = 1/72 (1%) Query: 42 SFTDLIKSKVAAVNQDQNQSSMAMTAVDSGKSD-DLVGAMVASQKASLSFATMLQIRNRL 100 SF + + + ++ Q + G+ L M QKAS+S +Q+RN+L Sbjct: 32 SFAGQLHAALDRISDTQTAARTQAEKFTLGEPGVALNDVMTDMQKASVSMQMGIQVRNKL 91 Query: 101 VQAFDDVMKMPI 112 V A+ +VM M + Sbjct: 92 VAAYQEVMSMQV 103
>FLGMRINGFLIF#Flagellar M-ring protein signature. Length = 559 Score = 314 bits (807), Expect = e-103 Identities = 154/555 (27%), Positives = 276/555 (49%), Gaps = 56/555 (10%) Query: 34 RGDRQVIALALLAVVVASVIVLMLWTATAGYRPLYGSQENVDTSQVLNVLEAEGIHYRLE 93 R + ++ + + VA V+ ++LW T YR L+ + + D ++ L I YR Sbjct: 20 RANPRIPLIVAGSAAVAIVVAMVLWAKTPDYRTLFSNLSDQDGGAIVAQLTQMNIPYRFA 79 Query: 94 ANTGAVLVAEEQVGNARMLLAAKGVKAKVPSGMEALDNNALGTSQFMEQAKYRHSLEGEL 153 +GA+ V ++V R+ LA +G+ G E LD G SQF EQ Y+ +LEGEL Sbjct: 80 NGSGAIEVPADKVHELRLRLAQQGLPKGGAVGFELLDQEKFGISQFSEQVNYQRALEGEL 139 Query: 154 ARTIMSLKLVRAARVHLAIPKQSLFIRQEPELPTASVMLQLDPNTRLSESQVEAIVNLVA 213 ARTI +L V++ARVHLA+PK SLF+R++ + P+ASV + L+P L E Q+ A+V+LV+ Sbjct: 140 ARTIETLGPVKSARVHLAMPKPSLFVREQ-KSPSASVTVTLEPGRALDEGQISAVVHLVS 198 Query: 214 GSVTGLTASNIKVVDQDGRYLSENISGNQDLSQSRNKQLQYTRELEHSLVANAASMLEPV 273 +V GL N+ +VDQ G L+++ + +DL+ + QL++ ++E + ++L P+ Sbjct: 199 SAVAGLPPGNVTLVDQSGHLLTQSNTSGRDLN---DAQLKFANDVESRIQRRIEAILSPI 255 Query: 274 LGHDNFQVRVTAKVNFNQVEETKESLDPQ------NVVTQERTSIDDSSNSIAAGIPGAL 327 +G+ N +VTA+++F E+T+E P + +++ + G+PGAL Sbjct: 256 VGNGNVHAQVTAQLDFANKEQTEEHYSPNGDASKATLRSRQLNISEQVGAGYPGGVPGAL 315 Query: 328 SNKPP-----------------------QVGTAATDDKTRNLKQEESRQYDVGRSVRHVR 364 SN+P T + R+ ++ E+ Y+V R++RH + Sbjct: 316 SNQPAPPNEAPIATPPTNQQNAQNTPQTSTSTNSNSAGPRSTQRNETSNYEVDRTIRHTK 375 Query: 365 YQQMQLENLSVSVLINS---AAGQGVFNNEAQLVKFGNMVKDAIGFSAARGDSFTINAFE 421 +E LSV+V++N A G+ + Q+ + ++ ++A+GFS RGD+ + Sbjct: 376 MNVGDIERLSVAVVVNYKTLADGKPLPLTADQMKQIEDLTREAMGFSDKRGDTLNVVNSP 435 Query: 422 FTPTVVAEIPTSPWWQSENY----QSYLRYIIGGILGFGLILFVLRPLVKHLTRTAQITA 477 F V P+WQ +++ + R+++ ++ + L +RP LTR + Sbjct: 436 F-SAVDNTGGELPFWQQQSFIDQLLAAGRWLLVLVVAWILWRKAVRPQ---LTRRVEEAK 491 Query: 478 PSIEPAALSAASANALDGPTVDYAPNQAHQLPSADWLGSQGLPEPGSPLTVKMEHLALLA 537 + E A + + A++ Q Q + LG++ V + + ++ Sbjct: 492 AAQEQAQVRQETEEAVEVRLSK--DEQLQQRRANQRLGAE----------VMSQRIREMS 539 Query: 538 NKEPARVAEVIAHWI 552 + +P VA VI W+ Sbjct: 540 DNDPRVVALVIRQWM 554
>FLGMOTORFLIG#Flagellar motor switch protein FliG signature. Length = 344 Score = 172 bits (437), Expect = 3e-53 Identities = 80/324 (24%), Positives = 170/324 (52%), Gaps = 1/324 (0%) Query: 6 QAAMLLLSMGEEGAARVMAHLDRNDVQHLSHKMARLSSITQQEAEAVLSRFFQRYKEQSG 65 +AA+LL+S+G E +++V +L + +++ L+ ++A+L +IT + + VL F + Q Sbjct: 20 KAAILLVSIGSEISSKVFKYLSQEEIESLTFEIAKLETITSELKDNVLLEFKELMMAQEF 79 Query: 66 IARASRSYLQKTLDIALGDRLSKSLIDSIYGDEIKVLVKRLEWVDPQLLAREITHEHCQL 125 I + Y ++ L+ +LG + + +I+++ + + DP + I EH Q Sbjct: 80 IQKGGIDYARELLEKSLGTQKAVDIINNLGSALQSRPFEFVRRADPANILNFIQQEHPQT 139 Query: 126 QAVLLGLLPAESAAKILKMLPSDSQDEVLVRIAQLGELDRNVVDELRELVERCMLMAMEK 185 A++L L + A+ IL LP++ Q V RIA + VV E+ ++E+ + + Sbjct: 140 IALILSYLDPQKASFILSSLPTEVQTNVARRIALMDRTSPEVVREVERVLEKKLASLSSE 199 Query: 186 SHTQVAGVKQVADILNRFE-GDREQLMEMIKLHDKQMAIDVTDNMFDFIILGRQKQETLQ 244 +T GV V +I+N + + ++E ++ D ++A ++ MF F + ++Q Sbjct: 200 DYTSAGGVDNVVEIINMADRKTEKFIIESLEEEDPELAEEIKKKMFVFEDIVLLDDRSIQ 259 Query: 245 TLLGQVPSETLSLALKGIDFELKDALLNALPKRMSSAIETQIEALGGVPVSRASGARKEI 304 +L ++ + L+ ALK +D +++ + + KR +S ++ +E LG ++++I Sbjct: 260 RVLREIDGQELAKALKSVDIPVQEKIFKNMSKRAASMLKEDMEFLGPTRRKDVEESQQKI 319 Query: 305 MELAKQLMQEGEIELQLFEEQVVV 328 + L ++L ++GEI + E+ V+ Sbjct: 320 VSLIRKLEEQGEIVISRGGEEDVL 343
>FLGFLIH#Flagellar assembly protein FliH signature. Length = 228 Score = 60.2 bits (145), Expect = 4e-13 Identities = 40/186 (21%), Positives = 83/186 (44%), Gaps = 2/186 (1%) Query: 40 QQAFDEGYEEGVLQGKNAGYEAGIEEGRIAGHAAGFHQGKLEGVAAGKTSINEQLNSLLV 99 + + ++ + +Q GY+AGI EGR GH G+ +G +G+ G Q + Sbjct: 37 EPSLEQQLAQLQMQAHEQGYQAGIAEGRQQGHKQGYQEGLAQGLEQGLAEAKSQQAPIHA 96 Query: 100 PLGALRELLEDGHAKQVREQQNLILDLVRRVSQQVIRCELTLQPQQILKLVEETLSALPD 159 + L + + ++ + ++QVI T+ ++K +++ L P Sbjct: 97 RMQQLVSEFQTTLDALDSVIASRLMQMALEAARQVIGQTPTVDNSALIKQIQQLLQQEPL 156 Query: 160 DQSDMKIHLEPNAVIKLKEL--AEDKIRGWNLIADSNISAGSCRIVSNKSDADASVETRL 217 ++ + P+ + ++ ++ A + GW L D + G C++ +++ D DASV TR Sbjct: 157 FSGKPQLRVHPDDLQRVDDMLGATLSLHGWRLRGDPTLHPGGCKVSADEGDLDASVATRW 216 Query: 218 DTCMKL 223 +L Sbjct: 217 QELCRL 222
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 31.1 bits (70), Expect = 0.001 Identities = 8/39 (20%), Positives = 19/39 (48%) Query: 97 SNVNTIEEMADMMAASRSFETSVEVMNRARSMQQGLLQL 135 S VN EE ++ + + + +V+ A ++ L+ + Sbjct: 507 SGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALINI 545
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 34.2 bits (78), Expect = 8e-04 Identities = 20/57 (35%), Positives = 28/57 (49%), Gaps = 5/57 (8%) Query: 2 SFNIALSGLQATTQDLNTISNNIANASTNGFRGGR----SEFASIYNGGQAG-GVSV 53 N A+SGL A LNT SNNI++ + G+ +++ GG G GV V Sbjct: 3 LINNAMSGLNAAQAALNTASNNISSYNVAGYTRQTTIMAQANSTLGAGGWVGNGVYV 59 Score = 32.6 bits (74), Expect = 0.002 Identities = 14/41 (34%), Positives = 21/41 (51%) Query: 353 LEGSNVDTTAEMVNLMSAQRNYQSNAKVLDVNSTMQQALLN 393 S V+ E NL Q+ Y +NA+VL + + AL+N Sbjct: 504 QSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALIN 544
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 41.9 bits (98), Expect = 1e-06 Identities = 11/47 (23%), Positives = 20/47 (42%) Query: 213 ALRQGALEGANVNVVEEMVEMISTQRAYEMNAKVVSASDDMLKFLNQ 259 L + VN+ EE + Q+ Y NA+V+ ++ + L Sbjct: 498 QLSNQQQSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALIN 544 Score = 37.6 bits (87), Expect = 4e-05 Identities = 9/37 (24%), Positives = 18/37 (48%) Query: 3 SALWVSKTGLTAQDTKMTAIANNLANVNTTGFKRDRV 39 S + + +GL A + +NN+++ N G+ R Sbjct: 2 SLINNAMSGLNAAQAALNTASNNISSYNVAGYTRQTT 38
>FLGLRINGFLGH#Flagellar L-ring protein signature. Length = 232 Score = 150 bits (380), Expect = 2e-47 Identities = 70/224 (31%), Positives = 109/224 (48%), Gaps = 15/224 (6%) Query: 7 LCFALLSGCMSHIPDQETKPGTKEWAPPEIDYSLPDAKDGSLYRPGYMLT-----LFKDK 61 L L+GC + IP + P + + +GS+++ + LF+D+ Sbjct: 14 LLVLSLTGC-AWIP---STPLVQGATSAQPVPGPTPVANGSIFQSAQPINYGYQPLFEDR 69 Query: 62 RAFREGDILTVALDEKTYSSKKADTKTNKEQDIGMGLKG-----NIGEKTADADGKTSFS 116 R GD LT+ L E +SK + +++ G A AD + S Sbjct: 70 RPRNIGDTLTIVLQENVSASKSSSANASRDGKTNFGFDTVPRYLQGLFGNARADVEASGG 129 Query: 117 RGFNGAGSSTQQNQLSGSITVTVSKVLPNGTLLIRGEKWLRLNQGDEYLRLLGIIRTDDI 176 FNG G + N SG++TVTV +VL NG L + GEK + +NQG E++R G++ I Sbjct: 130 NTFNGKGGANASNTFSGTLTVTVDQVLVNGNLHVVGEKQIAINQGTEFIRFSGVVNPRTI 189 Query: 177 GNNNTISSQRIADARIIYGGQGAIADSNAMGWASRYFNSPWFPL 220 +NT+ S ++ADARI Y G G I ++ MGW R+F + P+ Sbjct: 190 SGSNTVPSTQVADARIEYVGNGYINEAQNMGWLQRFFLN-LSPM 232
>FLGPRINGFLGI#Flagellar P-ring protein signature. Length = 373 Score = 330 bits (847), Expect = e-114 Identities = 139/372 (37%), Positives = 210/372 (56%), Gaps = 14/372 (3%) Query: 5 LLLLLLVSGTLQAQEQSQSRYLMDIVDVQGLRDNQLVGYGLVVGLSGTGDR-SQVKFTSQ 63 L+ + Q+ + + DI +Q RDNQL+GYGLVVGL GTGD FT Q Sbjct: 10 ALVFSALPFLSTPPAQADTSRIKDIASLQAGRDNQLIGYGLVVGLQGTGDSLRSSPFTEQ 69 Query: 64 SVVNMLKQFGVQIDDKTDPKLKNVAAVAVHATITSLASPGQSLDVTVSSLGDAKSLQGGT 123 S+ ML+ G+ KN+AAV V A + ASPG +DVTVSSLGDA SL+GG Sbjct: 70 SMRAMLQNLGITTQG-GQSNAKNIAAVMVTANLPPFASPGSRVDVTVSSLGDATSLRGGN 128 Query: 124 LLMTPLRAVDGEIYAVAQGNLVVGGISAAGRNGSSVTVNVPTVGTIPNGALLEAPIKSNF 183 L+MT L DG+IYAVAQG L+V G SA G + +++T V T +PNGA++E + S F Sbjct: 129 LIMTSLSGADGQIYAVAQGALIVNGFSAQG-DAATLTQGVTTSARVPNGAIIERELPSKF 187 Query: 184 SDNEDIILNLKDPNFKTARNIERAVNEL----FGPDVARAQDHAKVLIHAPKSNRERVTF 239 D+ +++L L++P+F TA + VN +G +A +D ++ + P + Sbjct: 188 KDSVNLVLQLRNPDFSTAVRVADVVNAFARARYGDPIAEPRDSQEIAVQKP-RVADLTRL 246 Query: 240 MSMLEELKIDQGRRSPRIVFNSRTGTVVMGGDVVARKAAVSHGNLTVTIVERQNVSQPNG 299 M+ +E L ++ ++V N RTGT+V+G DV + AVS+G LTV + E V QP Sbjct: 247 MAEIENLTVET-DTPAKVVINERTGTIVIGADVRISRVAVSYGTLTVQVTESPQVIQPAP 305 Query: 300 AYLGNAAGETVVTNDSQVLVEQGNKRMFVWPEGTSIEEIVRAVNSLGATPMDLMAILEAL 359 + G+T V + ++ Q ++ + EG + +V +NS+G ++AIL+ + Sbjct: 306 F----SRGQTAVQPQTDIMAMQEGSKVAI-VEGPDLRTLVAGLNSIGLKADGIIAILQGI 360 Query: 360 SEAGSLEADLVV 371 AG+L+A+LV+ Sbjct: 361 KSAGALQAELVL 372
>FLGFLGJ#Flagellar protein FlgJ signature. Length = 313 Score = 46.2 bits (109), Expect = 6e-09 Identities = 29/86 (33%), Positives = 51/86 (59%), Gaps = 7/86 (8%) Query: 16 DELIKANGEQGA--LKMVSQQFEAQFLQTVLKQMRSATDAMADEDNPLTAKSNNGLYQDL 73 +EL GE A ++ V++Q E F+Q +LK MR DA+ + L + + LY + Sbjct: 19 NELKAKAGEDPAANIRPVARQVEGMFVQMMLKSMR---DALPKDG--LFSSEHTRLYTSM 73 Query: 74 HDAELANRLSQVNGMGLAEVMTKQLS 99 +D ++A +++ G+GLAE+M KQ++ Sbjct: 74 YDQQIAQQMTAGKGLGLAEMMVKQMT 99
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 148 bits (375), Expect = 2e-41 Identities = 85/319 (26%), Positives = 149/319 (46%), Gaps = 8/319 (2%) Query: 2 SMLNIGKSGLLASMAALNATSNNVANAMVAGYSRQQVMLSSVGGGAYGS---GAGVFVDG 58 S++N SGL A+ AALN SNN+++ VAGY+RQ +++ G GV+V G Sbjct: 2 SLINNAMSGLNAAQAALNTASNNISSYNVAGYTRQTTIMAQANSTLGAGGWVGNGVYVSG 61 Query: 59 VRRISDQYEVAQLWQTTSAVGFSKVQSSYLRQAEQVFGADGNNISKGLDQLFAALNSSME 118 V+R D + QL + + + + + + ++++ + F +L + + Sbjct: 62 VQREYDAFITNQLRAAQTQSSGLTARYEQMSKIDNMLSTSTSSLATQMQDFFTSLQTLVS 121 Query: 119 QPNLIAYRQSVLNEAKAVAQRVNAINDNIDSQRNQINGQLGTSVKEINSQLAIIANFNRD 178 A RQ+++ +++ + + + + Q Q+N +G SV +IN+ IA+ N Sbjct: 122 NAEDPAARQALIGKSEGLVNQFKTTDQYLRDQDKQVNIAIGASVDQINNYAKQIASLNDQ 181 Query: 179 IQAASVTGTIPPA--LQDGRDAAIDDLAAIIDIRVVEDSQGMLNISLARGEPLLTGNTA- 235 I + G L D RD + +L I+ + V G NI++A G L+ G+TA Sbjct: 182 ISRLTGVGAGASPNNLLDQRDQLVSELNQIVGVEVSVQDGGTYNITMANGYSLVQGSTAR 241 Query: 236 --AKLTSAPDPANPKNNLVSIQFGASQFNVDQTAGGSLGALLNYRDTQLADSQAYIDELA 293 A + S+ DP+ V G + GSLG +L +R L ++ + +LA Sbjct: 242 QLAAVPSSADPSRTTVAYVDGTAGNIEIPEKLLNTGSLGGILTFRSQDLDQTRNTLGQLA 301 Query: 294 VMLATEFNSILASGTDLNG 312 + A FN+ +G D NG Sbjct: 302 LAFAEAFNTQHKAGFDANG 320 Score = 66.5 bits (162), Expect = 6e-14 Identities = 34/110 (30%), Positives = 61/110 (55%), Gaps = 3/110 (2%) Query: 346 QDGTQGDNTNLKALVQLANKELSFTSLGSSTSLAESFSSKVGQLGSASRQAISFAKTSVD 405 +D DN N +AL+ L + + +G + S ++++S V +G+ + + + T + Sbjct: 438 EDAGDSDNRNGQALLDLQSNSKT---VGGAKSFNDAYASLVSDIGNKTATLKTSSATQGN 494 Query: 406 LQKDAQVQWASTSGVNPDEEGINLIIYQQSYMANAKVISTADQLFQTMLS 455 + Q S SGVN DEE NL +QQ Y+ANA+V+ TA+ +F +++ Sbjct: 495 VVTQLSNQQQSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALIN 544
>FLAGELLIN#Flagellin signature. Length = 507 Score = 33.1 bits (75), Expect = 0.001 Identities = 27/139 (19%), Positives = 58/139 (41%) Query: 1 MRVTMQNLYTNNLNSLQNTTYDVARLNQMLSKGVSILAPSDDPIGVVRVMDNQRDLALVQ 60 + +L N+L + ++ + LS G+ I + DD G ++ + Sbjct: 2 QVINTNSLSLLTQNNLNKSQSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGLT 61 Query: 61 QYIKNIDSLSTSMSRSETYLSSMVETQQRMKEISIATNSSNLSVEDRASYASEMEELLKG 120 Q +N + + +E L+ + QR++E+S+ + S D S E+++ L+ Sbjct: 62 QASRNANDGISIAQTTEGALNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLEE 121 Query: 121 LVDNINATDESGNYLFSGN 139 + N T +G + S + Sbjct: 122 IDRVSNQTQFNGVKVLSQD 140
>FLAGELLIN#Flagellin signature. Length = 507 Score = 105 bits (264), Expect = 4e-28 Identities = 79/269 (29%), Positives = 126/269 (46%), Gaps = 13/269 (4%) Query: 4 VHTNYASIVAQGAVNKSNNLLTNAMERLSTGLRINSASDDAAGLQIANRMNANVKGMETA 63 ++TN S++ Q +NKS + L++A+ERLS+GLRINSA DDAAG IANR +N+KG+ A Sbjct: 4 INTNSLSLLTQNNLNKSQSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGLTQA 63 Query: 64 SRNISDATSMLQTADGALEELTTIANRQKELATQAANGVNSADDLTALDAEFKELNKEIS 123 SRN +D S+ QT +GAL E+ R +EL+ QA NG NS DL ++ E ++ +EI Sbjct: 64 SRNANDGISIAQTTEGALNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLEEID 123 Query: 124 RILDNTTYAGNNLFTKLEAGVTFQIGAGTAETLAVTTTAIDDAALAAGDLTT-------- 175 R+ + T + G + ++ + + Q+GA ET+ + ID +L Sbjct: 124 RVSNQTQFNGVKVLSQ-DNQMKIQVGANDGETITIDLQKIDVKSLGLDGFNVNGPKEATV 182 Query: 176 ----GANAAITLVDTFLAAVGTERSTLGANINRLGHTAANLASVTENTKAAAGRIMDADF 231 + +T DT+ R + + TA + A D Sbjct: 183 GDLKSSFKNVTGYDTYAVGANKYRVDVNSGAVVTDTTAPTVPDKVYVNAANGQLTTDDAE 242 Query: 232 AVESANMTRNQLLVQAGTTVLSSANQNTG 260 + ++ + + A G Sbjct: 243 NNTAVDLFKTTKSTAGTAEAKAIAGAIKG 271 Score = 69.7 bits (170), Expect = 1e-15 Identities = 56/276 (20%), Positives = 99/276 (35%), Gaps = 15/276 (5%) Query: 7 NYASIVAQGAVNKSNNLLTNAMERLSTGLRINSASDDAAGLQIANRMNANVKGMETASRN 66 + A N + L + + + + G + + + ++ Sbjct: 232 ANGQLTTDDAENNTAVDLFKTTKSTAGTAEAKAIAGAIKGGKEGDTFDYKGVTFTIDTKT 291 Query: 67 ISDATSMLQTADGALEELTTIANRQKELATQAANGVNSADDLTA---------------L 111 +D + T + T+A+ A A + S+ ++ Sbjct: 292 GNDGNGKVSTTINGEKVTLTVADITAGAANVDAATLQSSKNVYTSVVNGQFTFDDKTKNE 351 Query: 112 DAEFKELNKEISRILDNTTYAGNNLFTKLEAGVTFQIGAGTAETLAVTTTAIDDAALAAG 171 A+ +L + ++ +T AG + T + A Sbjct: 352 SAKLSDLEANNAVKGESKITVNGAEYTANAAGDKVTLAGKTMFIDKTASGVSTLINEDAA 411 Query: 172 DLTTGANAAITLVDTFLAAVGTERSTLGANINRLGHTAANLASVTENTKAAAGRIMDADF 231 + +D+ L+ V RS+LGA NR NL + N +A RI DAD+ Sbjct: 412 AAKKSTANPLASIDSALSKVDAVRSSLGAIQNRFDSAITNLGNTVTNLNSARSRIEDADY 471 Query: 232 AVESANMTRNQLLVQAGTTVLSSANQNTGLVMGLLR 267 A E +NM++ Q+L QAGT+VL+ ANQ V+ LLR Sbjct: 472 ATEVSNMSKAQILQQAGTSVLAQANQVPQNVLSLLR 507
>FLAGELLIN#Flagellin signature. Length = 507 Score = 111 bits (278), Expect = 5e-30 Identities = 88/268 (32%), Positives = 132/268 (49%), Gaps = 9/268 (3%) Query: 4 VHTNYASIVAQGAVNKSNNLLTNAMERLSTGLRINSASDDAAGLQIANRMNANVKGMETA 63 ++TN S++ Q +NKS + L++A+ERLS+GLRINSA DDAAG IANR +N+KG+ A Sbjct: 4 INTNSLSLLTQNNLNKSQSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGLTQA 63 Query: 64 SRNISDATSMLQTADGALEELTTIANRQKELATQAANGVNSAADLTALNDEFTQLNAEIT 123 SRN +D S+ QT +GAL E+ R +EL+ QA NG NS +DL ++ DE Q EI Sbjct: 64 SRNANDGISIAQTTEGALNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLEEID 123 Query: 124 RIVENTTYAGNKLFDTGVLTTGTGVKFQIGAGTAETLDVKLGAI----PKTVAGTLTGGT 179 R+ T + G K+ L+ +K Q+GA ET+ + L I + G Sbjct: 124 RVSNQTQFNGVKV-----LSQDNQMKIQVGANDGETITIDLQKIDVKSLGLDGFNVNGPK 178 Query: 180 ANAAIALVDTFLETVGTERSTLGANINRLGHTAANLASVTENTKAAAGRIMDADFAVESA 239 L +F G + +GAN R+ + + + T ++A + Sbjct: 179 EATVGDLKSSFKNVTGYDTYAVGANKYRVDVNSGAVVTDTTAPTVPDKVYVNAANGQLTT 238 Query: 240 NMTRNQLLVQAGTTVLSSANQNTGLVMG 267 + N V T S+A + Sbjct: 239 DDAENNTAVDLFKTTKSTAGTAEAKAIA 266 Score = 73.2 bits (179), Expect = 8e-17 Identities = 55/266 (20%), Positives = 86/266 (32%), Gaps = 1/266 (0%) Query: 6 TNYASIVAQGAVNKSNNLLTNAMERLSTGLRINSASDDAAGLQIANRMNANVKGMETASR 65 N ++ + + + D G+ G S Sbjct: 242 ENNTAVDLFKTTKSTAGTAEAKAIAGAIKGGKEGDTFDYKGVTFTIDTKTGNDGNGKVST 301 Query: 66 NISDATSMLQTADGALEELTTIANRQKELATQAANGVNSAADLTALNDEFTQLNAEITRI 125 I+ L AD A + + VN + +++ Sbjct: 302 TINGEKVTLTVADITAGAANVDAATLQSSKNVYTSVVNGQFTFDDKTKNESAKLSDLEAN 361 Query: 126 VENTTYAGNKLFDTGVLTTGTGVKFQIGAGTAETLDVKLGAIPKTVAGTLTG-GTANAAI 184 + + G K + T G + + Sbjct: 362 NAVKGESKITVNGAEYTANAAGDKVTLAGKTMFIDKTASGVSTLINEDAAAAKKSTANPL 421 Query: 185 ALVDTFLETVGTERSTLGANINRLGHTAANLASVTENTKAAAGRIMDADFAVESANMTRN 244 A +D+ L V RS+LGA NR NL + N +A RI DAD+A E +NM++ Sbjct: 422 ASIDSALSKVDAVRSSLGAIQNRFDSAITNLGNTVTNLNSARSRIEDADYATEVSNMSKA 481 Query: 245 QLLVQAGTTVLSSANQNTGLVMGLLR 270 Q+L QAGT+VL+ ANQ V+ LLR Sbjct: 482 QILQQAGTSVLAQANQVPQNVLSLLR 507
>FLGHOOKFLIK#Flagellar hook-length control protein signature. Length = 375 Score = 38.7 bits (89), Expect = 3e-05 Identities = 37/139 (26%), Positives = 60/139 (43%), Gaps = 3/139 (2%) Query: 244 TQAASATQWGPVSLTPTASLAQQAQEILTPLREHLRFQVDQHIKKAELRLDPPELGKIDL 303 TQ P P S + E L +H+ Q + AELRL P +LG++ + Sbjct: 214 LITPHQTQPLPTVAAPVLSAPLGSHEWQQSLSQHISLFTRQGQQSAELRLHPQDLGEVQI 273 Query: 304 NIRLEGDRLQVHMHAVNPAIRDALLNGLERLRMDLAMD--HGGQIDVDVGQGGSQQQQQE 361 +++++ ++ Q+ M + + +R AL L LR LA GQ ++ G+ S QQQ Sbjct: 274 SLKVDDNQAQIQMVSPHQHVRAALEAALPVLRTQLAESGIQLGQSNIS-GESFSGQQQAA 332 Query: 362 TALFASSIAPETAMENGAD 380 + S G D Sbjct: 333 SQQQQSQRTANHEPLAGED 351
>MECHCHANNEL#Bacterial mechano-sensitive ion channel signature. Length = 136 Score = 177 bits (450), Expect = 1e-60 Identities = 88/136 (64%), Positives = 110/136 (80%), Gaps = 1/136 (0%) Query: 1 MSLIKEFKAFASRGNVIDMAVGIIIGAAFGKIVSSFVADVIMPPIGIILGGVNFSDLSIV 60 MS+IKEF+ FA RGNV+D+AVG+IIGAAFGKIVSS VAD+IMPP+G+++GG++F ++ Sbjct: 1 MSIIKEFREFAMRGNVVDLAVGVIIGAAFGKIVSSLVADIIMPPLGLLIGGIDFKQFAVT 60 Query: 61 LQAAQGDAPSVVIAYGKFIQTVIDFTIIAFAIFMGLKAINTLKRKEEEAPKAPPTPTKEE 120 L+ AQGD P+VV+ YG FIQ V DF I+AFAIFM +K IN L RK+EE P A P PTKEE Sbjct: 61 LRDAQGDIPAVVMHYGVFIQNVFDFLIVAFAIFMAIKLINKLNRKKEE-PAAAPAPTKEE 119 Query: 121 ELLSEIRDLLKAQQEK 136 LL+EIRDLLK Q + Sbjct: 120 VLLTEIRDLLKEQNNR 135
>SACTRNSFRASE#Streptothricin acetyltransferase signature. Length = 173 Score = 37.6 bits (87), Expect = 5e-06 Identities = 21/72 (29%), Positives = 32/72 (44%), Gaps = 5/72 (6%) Query: 75 ASIGRVVVSPAGRGKGLAMPLMQQAIESALTTWPDAGIQIGAQDY-LKA--FYQKLGFVA 131 A I + V+ R KG+ L+ +AIE A G+ + QD + A FY K F+ Sbjct: 90 ALIEDIAVAKDYRKKGVGTALLHKAIEWAKEN-HFCGLMLETQDINISACHFYAKHHFII 148 Query: 132 CS-EMYLEDGIP 142 + + L P Sbjct: 149 GAVDTMLYSNFP 160
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 49.4 bits (118), Expect = 1e-08 Identities = 40/192 (20%), Positives = 69/192 (35%), Gaps = 29/192 (15%) Query: 115 AELDNTKAKADLDKAKSTLALAKTKLERVEDLL---IKEPFALAKQDVDELRENVNLADA 171 A + K+ L++ +S + AK + + V L I + ++ L LA Sbjct: 264 AVNELRVYKSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDNIGLLTLE--LAKN 321 Query: 172 DFRQKQAIMNDYLIKAPFDG---QLTSFSQSIGSQIGAGTALVTLY-SLHPVEVRYAISQ 227 + RQ+ ++ I+AP QL ++ G + L+ + +EV + Sbjct: 322 EERQQASV-----IRAPVSVKVQQLKVHTE--GGVVTTAETLMVIVPEDDTLEVTALVQN 374 Query: 228 NDFGKAKKGQEVDVTVEAY---GTQIFNGVVNYVAP--AIDESAG---RVEI-----HAT 274 D G GQ + VEA+ G V + D+ G V I + Sbjct: 375 KDIGFINVGQNAIIKVEAFPYTRYGYLVGKVKNINLDAIEDQRLGLVFNVIISIEENCLS 434 Query: 275 IDNAEFKLAPGM 286 N L+ GM Sbjct: 435 TGNKNIPLSSGM 446 Score = 49.1 bits (117), Expect = 2e-08 Identities = 24/108 (22%), Positives = 46/108 (42%), Gaps = 7/108 (6%) Query: 97 ISAIHFSNGDKVTKGQVIAELDNTKAKADLDKAKSTLALAKTKLERVEDLLIKEPFALAK 156 + I G+ V KG V+ +L A+AD K +S+L A+ + R + L ++ Sbjct: 107 VKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILS----RSIEL 162 Query: 157 QDVDELRENVNLADADFRQKQAIMNDYLIKAPFDGQLTSFSQSIGSQI 204 + EL+ + +++ + LIK F T +Q ++ Sbjct: 163 NKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFS---TWQNQKYQKEL 207
>ACRIFLAVINRP#Acriflavin resistance protein family signature. Length = 1034 Score = 655 bits (1692), Expect = 0.0 Identities = 301/1032 (29%), Positives = 515/1032 (49%), Gaps = 44/1032 (4%) Query: 8 IRHPIFASVLSIMAVLLGLIAFHKLDIQYFPEHTTHSASVNASIAGASADFMSSNVADKL 67 IR PIFA VL+I+ ++ G +A +L + +P + SV+A+ GA A + V + Sbjct: 6 IRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDTVTQVI 65 Query: 68 VAAASGLDKVDTM-STDCSEGRCSLTIKFKDDT-TDIEYTNLMNKLRSSVEGINDFPQSM 125 +G+D + M ST S G ++T+ F+ T DI + NKL+ + PQ Sbjct: 66 EQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLAT---PLLPQE- 121 Query: 126 IDKPTVTDDTSATDSASNIITFVNTGGMEKQAMYDYISQQLVPQLKQVQGVGAVWGPYGG 185 + + ++ + S++ + G + + DY++ + L ++ GVG V G Sbjct: 122 VQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDV--QLFG 179 Query: 186 SQKAVRVWLNPEQMKALNIKAADVVGTLGSYNASFTSG------AIKGKSRDFSINPLNQ 239 +Q A+R+WL+ + + + DV+ L N +G A+ G+ + SI + Sbjct: 180 AQYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTR 239 Query: 240 VETLEDVKDLVIKVS-DGKIIRVSDVAEVVMGEESLSPSLLSIGGHSAMSLQILPLSNAN 298 + E+ + ++V+ DG ++R+ DVA V +G E+ + + I G A L I + AN Sbjct: 240 FKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYN-VIARINGKPAAGLGIKLATGAN 298 Query: 299 PVTVASNIKAEIARMQKHLPQGLEMNLAYNQADFIEAAIDEGFAALIEAVILVSLIVVLF 358 + A IKA++A +Q PQG+++ Y+ F++ +I E L EA++LV L++ LF Sbjct: 299 ALDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVMYLF 358 Query: 359 LGSLRAASIPIITIPVCVIGVFAVMSALGFSINVLTILAIILAIGLVVDDAIVVVENCYR 418 L ++RA IP I +PV ++G FA+++A G+SIN LT+ ++LAIGL+VDDAIVVVEN R Sbjct: 359 LQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVER 418 Query: 419 HI-ENGETPFNAAINGCQEIIFPIIAMTLTLAAVYLPIGLMSGLTADLFRQFSFTLAAAV 477 + E+ P A +I ++ + + L+AV++P+ G T ++RQFS T+ +A+ Sbjct: 419 VMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAM 478 Query: 478 IISGMVALTLSPMMSAYLINTTEQQPK-----WFSRVEGALQQLNHLYINELSKWFTRKR 532 +S +VAL L+P + A L+ + +F + Y N + K Sbjct: 479 ALSVLVALILTPALCATLLKPVSAEHHENKGGFFGWFNTTFDHSVNHYTNSVGKILGSTG 538 Query: 533 QMLGMALVLMGLAGIAYWQLPKILLPVEDSGFIDVAANGPTGVGRQYHLDHNSELNGVID 592 + L + +++ + + +LP LP ED G P G ++ ++ Sbjct: 539 RYLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQVTDYYL 598 Query: 593 GHPAVGANLSY------IEGEPVN----HVLLKPWGER---REGIDEVIADLIAKSKESV 639 + + G+ N V LKPW ER + VI + + Sbjct: 599 KNEKANVESVFTVNGFSFSGQAQNAGMAFVSLKPWEERNGDENSAEAVIHRAKMELGKIR 658 Query: 640 SAYNMSFSIRSADNLNIATNVRLELTTLDRNK---DKLSETAAKVQKLMEDYPG-LTNVG 695 + + F++ + L AT EL +D+ D L++ ++ + +P L +V Sbjct: 659 DGFVIPFNMPAIVELGTATGFDFEL--IDQAGLGHDALTQARNQLLGMAAQHPASLVSVR 716 Query: 696 NSVLRDQLRYDLSIDRNAIILSGVSYGDVTNALSTFLGSVKAADLHATDGFTYPIQVQVN 755 + L D ++ L +D+ GVS D+ +ST LG D G + VQ + Sbjct: 717 PNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDF-IDRGRVKKLYVQAD 775 Query: 756 LDKLSDFRVMDKLYVTSESGQALPLSQFVSINQTTAESNIKTFMGLDSAELTADIMPGYS 815 +DKLYV S +G+ +P S F + + ++ + GL S E+ + PG S Sbjct: 776 AKFRMLPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEIQGEAAPGTS 835 Query: 816 TDEIKAYLDEQLPTLLTDAQGFKYNGVIKELMDSQAGTQSLFLLALVFIYLILAAQFESF 875 + + A + E L + L G+ + G+ + S +L ++ V ++L LAA +ES+ Sbjct: 836 SGDAMALM-ENLASKLPAGIGYDWTGMSYQERLSGNQAPALVAISFVVVFLCLAALYESW 894 Query: 876 VDPLIILLTVPLCIVGALLTLTLFGQSLNIYSQIGLLTLVGLVTKHGILLVEFANK-QQL 934 P+ ++L VPL IVG LL TLF Q ++Y +GLLT +GL K+ IL+VEFA + Sbjct: 895 SIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILIVEFAKDLMEK 954 Query: 935 QGFSAIESALSSAKSRLRPILMTSLTMILSAIPLALASGPGSLGLANIGLVLVGGLLAGT 994 +G +E+ L + + RLRPILMTSL IL +PLA+++G GS +G+ ++GG+++ T Sbjct: 955 EGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIGVMGGMVSAT 1014 Query: 995 FFSLFVVPVAYV 1006 ++F VPV +V Sbjct: 1015 LLAIFFVPVFFV 1026 Score = 83.3 bits (206), Expect = 3e-18 Identities = 60/365 (16%), Positives = 121/365 (33%), Gaps = 28/365 (7%) Query: 662 LELTTLDRNKDKLSETAAK-VQKLMEDYPGLTNVGNSVLRDQLRYDLSIDRNAIILSGVS 720 +D +S+ A V+ + G+ +V + +R + +D + + ++ Sbjct: 142 FVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFGAQYAMR--IWLDADLLNKYKLT 199 Query: 721 YGDVTNALS-----TFLGSVKAADLHATDGFTYPIQVQVNLDKLSDFRVMDKLYVTSESG 775 DV N L G + I Q +F + G Sbjct: 200 PVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTRFKNPEEFG--KVTLRVNSDG 257 Query: 776 QALPLSQFVSINQTTAESNIK-TFMGLDSAELTADIMPGYST----DEIKAYLDEQLPTL 830 + L + N+ G +A L + G + IKA L E P Sbjct: 258 SVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGANALDTAKAIKAKLAELQPFF 317 Query: 831 LTDAQGFKYN------GVIKELMDSQAGTQSLFLLALVFIYLILAAQFESFVDPLIILLT 884 QG K ++ S A++ ++L++ ++ LI + Sbjct: 318 ---PQGMKVLYPYDTTPFVQL---SIHEVVKTLFEAIMLVFLVMYLFLQNMRATLIPTIA 371 Query: 885 VPLCIVGALLTLTLFGQSLNIYSQIGLLTLVGLVTKHGILLVEFANKQQL-QGFSAIESA 943 VP+ ++G L FG S+N + G++ +GL+ I++VE + + E+ Sbjct: 372 VPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERVMMEDKLPPKEAT 431 Query: 944 LSSAKSRLRPILMTSLTMILSAIPLALASGPGSLGLANIGLVLVGGLLAGTFFSLFVVPV 1003 S ++ ++ + IP+A G + +V + +L + P Sbjct: 432 EKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMALSVLVALILTPA 491 Query: 1004 AYVAM 1008 + Sbjct: 492 LCATL 496
>RTXTOXINA#Gram-negative bacterial RTX toxin determinant A family signature. Length = 1024 Score = 28.8 bits (64), Expect = 0.040 Identities = 11/41 (26%), Positives = 21/41 (51%), Gaps = 4/41 (9%) Query: 124 LAAGLSSSGALVVAFGTAISDSSQLHLSPMAVAQLAQRGEH 164 A GLS+S A +A++ L +SP++ +A + + Sbjct: 296 AAQGLSTSAAAAGLIASAVT----LAISPLSFLSIADKFKR 332
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 34.2 bits (78), Expect = 0.001 Identities = 20/120 (16%), Positives = 44/120 (36%), Gaps = 16/120 (13%) Query: 402 AYDELRNKFEGEILGIE---HKQELVDLHRANGRNVVKGDASDTDFWEKLDHAPNLELVL 458 D+L ++ +I+G+E ++ ANG ++V+G S + + + Sbjct: 200 QRDQLVSEL-NQIVGVEVSVQDGGTYNITMANGYSLVQG--STARQLAAVPSSADPSRTT 256 Query: 459 LAMPHHAGNMFAVEQLKKLDYQGKISAIV--------QYSDDADALRASGVHSVYNLYEA 510 +A +E +KL G + I+ Q + L + + ++A Sbjct: 257 VAYVDGTAG--NIEIPEKLLNTGSLGGILTFRSQDLDQTRNTLGQLALAFAEAFNTQHKA 314
>NUCEPIMERASE#Nucleotide sugar epimerase signature. Length = 334 Score = 36.7 bits (85), Expect = 4e-05 Identities = 27/124 (21%), Positives = 43/124 (34%), Gaps = 25/124 (20%) Query: 1 MKIAILGATGWIGGAILKEALSRGHEVTAL-----VRDPS-------KLPTTNAAVRTVD 48 MK + GA G+IG + K L GH+V + D S L +D Sbjct: 1 MKYLVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLKQARLELLAQPGFQFHKID 60 Query: 49 L-NQPLVADSFTNQ--DVVI---AAIGGR------AAQNHEIVAGTATHLLAILPKAKVP 96 L ++ + D F + + V + R A + G +L K+ Sbjct: 61 LADREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFLN-ILEGCRHNKIQ 119 Query: 97 RLLW 100 LL+ Sbjct: 120 HLLY 123
>ARGREPRESSOR#Bacterial arginine repressor signature. Length = 149 Score = 146 bits (371), Expect = 3e-48 Identities = 43/150 (28%), Positives = 71/150 (47%), Gaps = 5/150 (3%) Query: 6 NQDDLVRIFKSILKEERFGSQSEIVAALQAEGFGNINQSKVSRMLSKFGAVRTRNAKQEM 65 N+ + I+ +Q E+V L+ +G+ N+ Q+ VSR + + V+ Sbjct: 2 NKGQRHIKIREIITANEIETQDELVDILKKDGY-NVTQATVSRDIKELHLVKVPTNNGSY 60 Query: 66 VYCLPAELGVPTAGSPLKNLV---LDVDHNQAMIVVRTSPGAAQLIARLLDSIGKPEGIL 122 Y LPA+ ++L+ + +D +IV++T PG AQ I L+D++ E I+ Sbjct: 61 KYSLPADQRFNPLSKLKRSLMDAFVKIDSASHLIVLKTMPGNAQAIGALMDNLDWEE-IM 119 Query: 123 GTIAGDDTIFICPSSIQDIADTLETIKSLF 152 GTI GDDTI I + D + I L Sbjct: 120 GTICGDDTILIICRTHDDTKVVQKKILELL 149
>LPSBIOSNTHSS#Lipopolysaccharide core biosynthesis protein signature. Length = 166 Score = 30.9 bits (70), Expect = 0.006 Identities = 10/28 (35%), Positives = 17/28 (60%) Query: 348 GCFDILHAGHVSYLKQAKALGDRLIVAV 375 G FD + GH+ +++ L D++ VAV Sbjct: 7 GSFDPITFGHLDIIERGCRLFDQVYVAV 34
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 48.5 bits (115), Expect = 1e-09 Identities = 24/146 (16%), Positives = 50/146 (34%), Gaps = 13/146 (8%) Query: 1 MAKRSRVQTEQTINQIMDEALKQILTIGFETMSYTTLSEATGISRTGISHHFPRKSDFLV 60 MA++++ + ++T I+D AL+ G + S +++A G++R I HF KSD Sbjct: 1 MARKTKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFS 60 Query: 61 RLDSRIGNLFVAALDFSSQEALETSWMQAMQEEHYRAVLRLFFSLCGGANNEITLFRAVS 120 + ++ + E + R +L L + Sbjct: 61 EI------WELSESNIGELELEYQAKFPGDPLSVLREILIHVLEST-VTEERRRLLMEII 113 Query: 121 SARQQAISELGLAGDRTINHLLGRTA 146 + + G+ + R Sbjct: 114 FHKCEF------VGEMAVVQQAQRNL 133
>PYOCINKILLER#Pyocin S killer protein signature. Length = 617 Score = 30.1 bits (67), Expect = 0.026 Identities = 15/37 (40%), Positives = 18/37 (48%), Gaps = 5/37 (13%) Query: 364 EVTFP-----PPPISVSAAPAKPVAKIEPKSTTPKAP 395 EVT P PP+ ++ PA P P STTP P Sbjct: 399 EVTVPSTTAEAPPLILTWTPASPPGNQNPSSTTPVVP 435
>TACYTOLYSIN#Bacterial thiol-activated pore-forming cytolysin signature. Length = 574 Score = 30.7 bits (69), Expect = 0.020 Identities = 20/108 (18%), Positives = 36/108 (33%), Gaps = 8/108 (7%) Query: 229 KQNPYSAEVLVSQKITGRGSDRDVRHVEIDLGDSGLTYQAGDALGVWFSNNEALVEEILT 288 K+ P + +K + EI+ L Y + L V N E + + Sbjct: 84 KEMPLESAEKEEKKSEDNKKSEEDHTEEINDKIYSLNY---NELEVLAKNGETIENFVPK 140 Query: 289 ALSLSGDEEVVVEKESLTLKQVLVDRKEL----TQLYPG-LVKAWAEL 331 D+ +V+E++ + VD + + YP L A Sbjct: 141 EGVKKADKFIVIERKKKNINTTPVDISIIDSVTDRTYPAALQLANKGF 188
>HELNAPAPROT#Helicobacter neutrophil-activating protein A family signature. Length = 153 Score = 143 bits (362), Expect = 7e-47 Identities = 53/147 (36%), Positives = 77/147 (52%) Query: 8 QTNREEIAAGLNQLLADSYSLYLKTHSFHWNVTGPMFTSLHLLFEQQYTELALAVDLIAE 67 +TN+ + LN L++ + LY K H FHW V GP F +LH FE+ Y A VD IAE Sbjct: 7 KTNQTLVENSLNTQLSNWFLLYSKLHRFHWYVKGPHFFTLHEKFEELYDHAAETVDTIAE 66 Query: 68 RVRALGARALGSYSAYASLTEIKEDQGVTKAETMIRELLNDQEIVIRNARALYPLVSKAN 127 R+ A+G + + + Y I + T A M++ L+ND + + ++ + L + Sbjct: 67 RLLAIGGQPVATVKEYTEHASITDGGNETSASEMVQALVNDYKQISSESKFVIGLAEENQ 126 Query: 128 DEATADLLTQRIQLHEKNAWMLRSLLA 154 D ATADL I+ EK WML S L Sbjct: 127 DNATADLFVGLIEEVEKQVWMLSSYLG 153
>BCTERIALGSPF#Bacterial general secretion pathway protein F signature. Length = 408 Score = 28.6 bits (64), Expect = 0.006 Identities = 25/103 (24%), Positives = 43/103 (41%), Gaps = 7/103 (6%) Query: 10 MAITSWRIRDTKVKPYQVIWDADGALPQAQTLIEQVLELIGVTPDECDFDCQIHKGKQII 69 MA ++ D + K + +AD A Q L E+ L + V + D Q G + Sbjct: 1 MAQYHYQALDAQGKKCRGTQEADSARQARQLLRERGLVPLSVDENRGD---QQKSGSTGL 57 Query: 70 WDLRRHKVRPRTAWLVSEPLASLLVGS----EAKRALWSQICQ 108 R+ ++ L++ LA+L+ S EA A+ Q + Sbjct: 58 SLRRKIRLSTSDLALLTRQLATLVAASMPLEEALDAVAKQSEK 100
>SACTRNSFRASE#Streptothricin acetyltransferase signature. Length = 173 Score = 51.1 bits (122), Expect = 1e-10 Identities = 19/57 (33%), Positives = 30/57 (52%) Query: 84 DICLAPEHQGYGYGKLLLSEVIEAAKTSGAVVVMLEVRESNLAARALYQKIGFTESG 140 DI +A +++ G G LL + IE AK + +MLE ++ N++A Y K F Sbjct: 94 DIAVAKDYRKKGVGTALLHKAIEWAKENHFCGLMLETQDINISACHFYAKHHFIIGA 150
>BLACTAMASEA#Beta-lactamase class A signature. Length = 286 Score = 29.0 bits (65), Expect = 0.026 Identities = 21/109 (19%), Positives = 39/109 (35%), Gaps = 3/109 (2%) Query: 37 AAKAYVLMDYYSGQIIAESNAYESLNPASLTKMMTSYVIGQEIKAGNVSPEDDVTISKNA 96 + MD SG+ + A E S K++ + + AG+ E + + Sbjct: 38 GRVGMIEMDLASGRTLTAWRADERFPMMSTFKVVLCGAVLARVDAGDEQLERKIHYRQQD 97 Query: 97 WSKNFSDSSKMFIEVGKTVKVADLNRGIIIQSGNDACVAMAEHIAGTEG 145 ++S S+ + + V +L I S N A + + G G Sbjct: 98 L-VDYSPVSEKH--LADGMTVGELCAAAITMSDNSAANLLLATVGGPAG 143
>adhesinb#Adhesin B signature. Length = 310 Score = 27.9 bits (62), Expect = 0.047 Identities = 25/72 (34%), Positives = 32/72 (44%), Gaps = 10/72 (13%) Query: 7 CPLLLALLICFT-LAACSSTPDKASTNVSKKNMD-PNKGRYSL-KN---DKMPLN---PP 57 C L+ LL+ F LAACSS T SK N+ N + KN DK+ L+ P Sbjct: 4 CRFLVLLLLAFVGLAACSSQKSSTETGSSKLNVVATNSIIADITKNIAGDKINLHSIVPV 63 Query: 58 NVD-HVPNATPK 68 D H P+ Sbjct: 64 GQDPHEYEPLPE 75
>SECFTRNLCASE#Bacterial translocase SecF protein signature. Length = 333 Score = 78.3 bits (193), Expect = 8e-18 Identities = 30/172 (17%), Positives = 82/172 (47%), Gaps = 4/172 (2%) Query: 422 VTIVEERTIGPTLGAENIENGFAALGLGMGITLLFMALWYR-RLGWVANIALISNMVILF 480 + I ++GP + E + +L + + ++ + + + A +AL+ ++++ Sbjct: 135 LKITSFESVGPKVSGELVWTAVWSLLAATVVIMFYIWVRFEWQFALGAVVALVHDVLLTV 194 Query: 481 GLLALIPGAVLTLPGIAGLVLTVGMAVDTNVLIFERIKDKLKEGRSFALA--IDTGFDSA 538 GL A++ L +A L+ G +++ V++F+R+++ L + ++ L ++ + Sbjct: 195 GLFAVL-QLKFDLTTVAALLTITGYSINDTVVVFDRLRENLIKYKTMPLRDVMNLSVNET 253 Query: 539 FSTIFDANFTTMITAVVLYSIGNGPIQGFALTLGLGLLTSMFTGIFASRALI 590 S TT++ V + G I+GF + G+ T ++ ++ ++ ++ Sbjct: 254 LSRTVMTGMTTLLALVPMLIWGGDVIRGFVFAMVWGVFTGTYSSVYVAKNIV 305
>SECFTRNLCASE#Bacterial translocase SecF protein signature. Length = 333 Score = 235 bits (600), Expect = 4e-78 Identities = 91/298 (30%), Positives = 150/298 (50%), Gaps = 20/298 (6%) Query: 13 WRYISSAISIFLMLASLTIIGVKGFNWGLDFTGGVVTEVQIDRKITSSELQPLLNAAYQQ 72 W++ + +I +M+AS+ + V G N+G+DF GG + I + L Sbjct: 19 WQWATFGAAIVMMIASVILPLVIGLNFGIDFKGGTTIRTESTTAIDVGVYRAALEPLELG 78 Query: 73 EVSVVSASEP--------------------GRWVLRYADTAQSNVDIAQTLAPLGEIQVL 112 +V + +P G N A +++ Sbjct: 79 DVIISEVRDPSFREDQHVAMIRIQMQEDGQGAEGQGAQGQELVNKVETALTAVDPALKIT 138 Query: 113 NTSIVGPQVGKELAEQGGLALLVAMLCILGYLSYRFEWRLASGALFALVHDVIFVLAFFA 172 + VGP+V EL +LL A + I+ Y+ RFEW+ A GA+ ALVHDV+ + FA Sbjct: 139 SFESVGPKVSGELVWTAVWSLLAATVVIMFYIWVRFEWQFALGAVVALVHDVLLTVGLFA 198 Query: 173 LTQMEFNLTVLAAVLAILGYSLNDSIIIADRIRELLIAKPKLAIQEINNQAIVATFSRTM 232 + Q++F+LT +AA+L I GYS+ND++++ DR+RE LI + ++++ N ++ T SRT+ Sbjct: 199 VLQLKFDLTTVAALLTITGYSINDTVVVFDRLRENLIKYKTMPLRDVMNLSVNETLSRTV 258 Query: 233 VTSGTTLMTVGALWIMGGGPLEGFSIAMFIGILTGTFSSISVGTSLPELLGLSPEHYK 290 +T TTL+ + + I GG + GF AM G+ TGT+SS+ V ++ +GL K Sbjct: 259 MTGMTTLLALVPMLIWGGDVIRGFVFAMVWGVFTGTYSSVYVAKNIVLFIGLDRNKEK 316
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 34.0 bits (78), Expect = 0.002 Identities = 23/82 (28%), Positives = 32/82 (39%), Gaps = 18/82 (21%) Query: 198 VLMVGPPGTGKTLLAKAIAGESK---VPFFT-----ISGSDFVEMFVGV------GASRV 243 +++ G GTGK L+A+A+ K PF I G GA Sbjct: 163 LMITGESGTGKELVARALHDYGKRRNGPFVAINMAAIPRDLIESELFGHEKGAFTGAQTR 222 Query: 244 RD-MFEQAKKSAPCIIFIDEID 264 FEQA+ +F+DEI Sbjct: 223 STGRFEQAEGGT---LFLDEIG 241
>adhesinb#Adhesin B signature. Length = 310 Score = 31.4 bits (71), Expect = 0.003 Identities = 18/95 (18%), Positives = 34/95 (35%), Gaps = 16/95 (16%) Query: 142 REARRTFEVIAEELDIVIQKNGTMAFDNAIIAY----EPLWAVGTGKSATPEQAQEVHAF 197 +EA+ F I E +++ G F AY +W + T + TP+Q + + Sbjct: 186 KEAKEKFNNIPGEKKMIVTSEG--CFKYFSKAYNVPSAYIWEINTEEEGTPDQIKTLVEK 243 Query: 198 IRKRLSEVSPFIGENIRILYGGSVTPSNAADLFAQ 232 +RK + L+ S ++ Sbjct: 244 LRKT----------KVPSLFVESSVDDRPMKTVSK 268
>SECGEXPORT#Protein-export SecG membrane protein signature. Length = 110 Score = 120 bits (301), Expect = 7e-39 Identities = 62/111 (55%), Positives = 82/111 (73%), Gaps = 1/111 (0%) Query: 1 MYEVLLVIYLLVALGLIGLVLIQQGKGADMGASFGAGASGTLFGSSGSGNFLTRTTAILA 60 MYE LLV++L+VA+GL+GL+++QQGKGADMGASFGAGAS TLFGSSGSGNF+TR TA+LA Sbjct: 1 MYEALLVVFLIVAIGLVGLIMLQQGKGADMGASFGAGASATLFGSSGSGNFMTRMTALLA 60 Query: 61 IAFFTLSLIIGNLSANHAKNEDSWKNLGSDTEQVTQPVQDGTEKSETKIPD 111 FF +SL++GN+++N W+NL S + Q K + IP+ Sbjct: 61 TLFFIISLVLGNINSNKTNKGSEWENL-SAPAKTEQTQPAAPAKPTSDIPN 110
>TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family signature. Length = 639 Score = 72.6 bits (178), Expect = 4e-15 Identities = 52/202 (25%), Positives = 78/202 (38%), Gaps = 30/202 (14%) Query: 387 IMGHVDHGKTSLLDYIRRAKVAAGEAG------------------GITQHIGAYHVETEN 428 ++ HVD GKT+L + + A E G GIT G + EN Sbjct: 8 VLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQWEN 67 Query: 429 GMITFLDTPGHAAFTAMRARGAKATDIVVLVVAADDGVMPQTIEAIQHAKAGNVPLIVAV 488 + +DTPGH F A R D +L+++A DGV QT + +P I + Sbjct: 68 TKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALRKMGIPTIFFI 127 Query: 489 NKMDKPEADIDRV----KSELSQHGVMS-------EDWGGDNMFAFVSAKTGEGVDDLLE 537 NK+D+ D+ V K +LS V+ + + EG DDLLE Sbjct: 128 NKIDQNGIDLSTVYQDIKEKLSAEIVIKQKVELYPNMCVTNFTESEQWDTVIEGNDDLLE 187 Query: 538 GILLQAEVLELKAVRDGMAAGV 559 + + LE + + Sbjct: 188 K-YMSGKSLEALELEQEESIRF 208
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 26.3 bits (58), Expect = 0.019 Identities = 12/79 (15%), Positives = 25/79 (31%), Gaps = 4/79 (5%) Query: 12 AEFKAEALKLAERVGVAEAARQLKIYESQLYNWRS-AIEKKSTTSQREAELA---AEVAK 67 E K + V E R + + Q W++ +K+ ++ AE A + + Sbjct: 166 PELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINR 225 Query: 68 LKRQLADQAEDLAILKKAA 86 + + L Sbjct: 226 YENLSRVEKSRLDDFSSLL 244
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 49.4 bits (118), Expect = 1e-08 Identities = 19/115 (16%), Positives = 40/115 (34%), Gaps = 7/115 (6%) Query: 70 KVVELRSRVGGAVDAVSVPEGSLVRKGQLLFQIDPRPFQVALDTATAQLRQAEVLSSQAQ 129 + E++ V + V EG VRKG +L ++ + + L QA + ++ Q Sbjct: 95 RSKEIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQ 154 Query: 130 ADFDRAER-------LVATGALSRKTYDDAVSARNARQAQVQAAKATVAAAQLDL 177 E L + ++ + + + Q + +L+L Sbjct: 155 ILSRSIELNKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNL 209 Score = 31.3 bits (71), Expect = 0.008 Identities = 14/98 (14%), Positives = 39/98 (39%), Gaps = 3/98 (3%) Query: 108 QVALDTATAQLRQAEVLSSQAQADFDRAERLVATGALSRKTYDDAVSARNARQAQVQAAK 167 + A +LR + Q +++ A+ +++ ++ + + Sbjct: 258 ENKYVEAVNELRVYKSQLEQIESEILSAKEEYQL--VTQLFKNEILDKLRQTTDNIGLLT 315 Query: 168 ATVAAAQLDLSYARVSAPIAGRVDRVLV-TEGNLVSGG 204 +A + + + AP++ +V ++ V TEG +V+ Sbjct: 316 LELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTA 353
>ACRIFLAVINRP#Acriflavin resistance protein family signature. Length = 1034 Score = 1062 bits (2747), Expect = 0.0 Identities = 437/1042 (41%), Positives = 651/1042 (62%), Gaps = 19/1042 (1%) Query: 5 RFFINRPIFAIVLSVLMLIAGAISYFQLPLSEYPQVTPPTVQVTASYPGANPQVIADTVA 64 FFI RPIFA VL++++++AGA++ QLP+++YP + PP V V+A+YPGA+ Q + DTV Sbjct: 3 NFFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDTVT 62 Query: 65 SPLEQAINGVEGMMYMQSQMSTDGKMVLTISFEQHINADIAQIQVQNRVSRALPRLPPEV 124 +EQ +NG++ +MYM S + G + +T++F+ + DIAQ+QVQN++ A P LP EV Sbjct: 63 QVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQEV 122 Query: 125 QRIGVVTEKTAPDILMVVNMLSPGDRYDPLYVSNYAMLNVRDELARLPGIANVLLGGEGE 184 Q+ G+ EK++ LMV +S +S+Y NV+D L+RL G+ +V L G + Sbjct: 123 QQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFG-AQ 181 Query: 185 YAMRVWLDPEKVASRGMTASDVVAAIREQNVQVAAGSIGQQPNASS-AFQVTVNALGRLT 243 YAMR+WLD + + +T DV+ ++ QN Q+AAG +G P ++ A R Sbjct: 182 YAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTRFK 241 Query: 244 TEEQFGDIVIKAGTHGQVTRLRDVARVELGAENYTMRAQLDGGNTVGIQILMTPGSNALD 303 E+FG + ++ + G V RL+DVARVELG ENY + A+++G G+ I + G+NALD Sbjct: 242 NPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGANALD 301 Query: 304 VSSAVRATMDRLQASFPEGIEYKIAYDPTVFVRASLQSVAVTLLEAILLVVIVVVLFLQS 363 + A++A + LQ FP+G++ YD T FV+ S+ V TL EAI+LV +V+ LFLQ+ Sbjct: 302 TAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVMYLFLQN 361 Query: 364 WRASIIPLIAVPVSLVGTFAVMHMFGFSLNTLSLFGLVLSIGIVVDDAIVVVENVERHMA 423 RA++IP IAVPV L+GTFA++ FG+S+NTL++FG+VL+IG++VDDAIVVVENVER M Sbjct: 362 MRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERVMM 421 Query: 424 -LGESPKDAALKAMDEVTGPILAITSVLAAVFIPSAFLSGLQGEFYRQFALTIAFSTILS 482 PK+A K+M ++ G ++ I VL+AVFIP AF G G YRQF++TI + LS Sbjct: 422 EDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMALS 481 Query: 483 AINSLTLSPALAAILLKPHHGAAQPDRVTRLIDGLFGGFFRRFNRFFDSASNAYVGGVRR 542 + +L L+PAL A LLKP ++ GGFF FN FD + N Y V + Sbjct: 482 VLVALILTPALCATLLKPVSAEHHENK---------GGFFGWFNTTFDHSVNHYTNSVGK 532 Query: 543 AVRGSAVVLLLYVGFLGLTWLGFHKVPAGFVPAQDKYYLVGIAQLPTGASLDRTDAVVKE 602 + + LL+Y + + F ++P+ F+P +D+ + + QLP GA+ +RT V+ + Sbjct: 533 ILGSTGRYLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQ 592 Query: 603 MSKIALA--EPGVESVMAFPGFSFNGPVNQPNTALVFAMLKPFNERKDPSLSAFAIQGRL 660 ++ L + VESV GFSF+G N + F LKP+ ER SA A+ R Sbjct: 593 VTDYYLKNEKANVESVFTVNGFSFSG--QAQNAGMAFVSLKPWEERNGDENSAEAVIHRA 650 Query: 661 MGKFSQIPDGFVGIFPPPPVPGLGSMGGFKLQIEDRAGLGPDALAQAQGQIMGKAMQAP- 719 + +I DGFV F P + LG+ GF ++ D+AGLG DAL QA+ Q++G A Q P Sbjct: 651 KMELGKIRDGFVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQHPA 710 Query: 720 ELANMLASFQANAPQLQVDIDRVKAKSQGVSLTEVFDTLQINLGSLYVNDFNRFGRTYRV 779 L ++ + + Q ++++D+ KA++ GVSL+++ T+ LG YVNDF GR ++ Sbjct: 711 SLVSVRPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRVKKL 770 Query: 780 MTQADAKFRMQAEDIGMLKVRNASGDMIPLSAIATISRSSGPDRVMHYNGFPSADISGGP 839 QADAKFRM ED+ L VR+A+G+M+P SA T G R+ YNG PS +I G Sbjct: 771 YVQADAKFRMLPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEIQGEA 830 Query: 840 APGYSSGQATAAIEKIVSESLPDGMTYEWTDLTFQEKRVGNTSIYIFALAVLLAFLFLAA 899 APG SSG A A +E + S+ LP G+ Y+WT +++QE+ GN + + A++ ++ FL LAA Sbjct: 831 APGTSSGDAMALMENLASK-LPAGIGYDWTGMSYQERLSGNQAPALVAISFVVVFLCLAA 889 Query: 900 QYNSWSLPFAVLLIAPMALLSAIAGVWLTGGDNNIFTQIGFVVLVGLAAKNAILIVEFAR 959 Y SWS+P +V+L+ P+ ++ + L N+++ +G + +GL+AKNAILIVEFA+ Sbjct: 890 LYESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILIVEFAK 949 Query: 960 -AKESEGVDPLAAVLEAARLRLRPILMTSLAFIAGVIPLVLASGAGAEMRHAMGIAVFAG 1018 E EG + A L A R+RLRPILMTSLAFI GV+PL +++GAG+ ++A+GI V G Sbjct: 950 DLMEKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIGVMGG 1009 Query: 1019 MLGVTAFGLVLTPVFYVVVRKL 1040 M+ T + PVF+VV+R+ Sbjct: 1010 MVSATLLAIFFVPVFFVVIRRC 1031 Score = 94.1 bits (234), Expect = 1e-21 Identities = 80/422 (18%), Positives = 147/422 (34%), Gaps = 30/422 (7%) Query: 643 FNERKDPSLSAFAIQGRLMGKFSQIPDGFVGIFPPPPVPGLGSMGGFKLQIEDRAGLGPD 702 F DP ++ +Q +L +P + S + + G D Sbjct: 94 FQSGTDPDIAQVQVQNKLQLATPLLPQEV----QQQGISVEKSSSSYLMVA----GFVSD 145 Query: 703 ALAQAQGQI--MGKAMQAPELANM--LASFQANAPQLQVDI--DRVKAKSQGVSLTEVFD 756 Q I + L+ + + Q Q + I D ++ +V + Sbjct: 146 NPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFGAQYAMRIWLDADLLNKYKLTPVDVIN 205 Query: 757 TL-----QINLGSLYVNDFNRFGRTYRVMTQADAKFRMQAEDIGMLKVR-NASGDMIPLS 810 L QI G L G+ A +F+ E+ G + +R N+ G ++ L Sbjct: 206 QLKVQNDQIAAGQL-GGTPALPGQQLNASIIAQTRFK-NPEEFGKVTLRVNSDGSVVRLK 263 Query: 811 AIATISRSSGPDRVM-HYNGFPSADISGGPAPGYSSGQATAAIEKIVSE---SLPDGMTY 866 +A + V+ NG P+A + A G ++ AI+ ++E P GM Sbjct: 264 DVARVELGGENYNVIARINGKPAAGLGIKLATGANALDTAKAIKAKLAELQPFFPQGMKV 323 Query: 867 EWT--DLTFQEKRVGNTSIYIFALAVLLAFLFLAAQYNSWSLPFAVLLIAPMALLSAIAG 924 + F + + +F A++L FL + + + P+ LL A Sbjct: 324 LYPYDTTPFVQLSIHEVVKTLF-EAIMLVFLVMYLFLQNMRATLIPTIAVPVVLLGTFAI 382 Query: 925 VWLTGGDNNIFTQIGFVVLVGLAAKNAILIVE-FARAKESEGVDPLAAVLEAARLRLRPI 983 + G N T G V+ +GL +AI++VE R + + P A ++ + Sbjct: 383 LAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERVMMEDKLPPKEATEKSMSQIQGAL 442 Query: 984 LMTSLAFIAGVIPLVLASGAGAEMRHAMGIAVFAGMLGVTAFGLVLTPVFYVVVRKLALR 1043 + ++ A IP+ G+ + I + + M L+LTP + K Sbjct: 443 VGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMALSVLVALILTPALCATLLKPVSA 502 Query: 1044 RE 1045 Sbjct: 503 EH 504
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 34.4 bits (79), Expect = 0.001 Identities = 31/236 (13%), Positives = 70/236 (29%), Gaps = 29/236 (12%) Query: 262 ALVLLLGQPLTLELSQQLDKAIVLPDGIVPTE-------LPSGLPSELLVRRPDVRAAEQ 314 ++ L L + Q++ + + + + + E++V+ + Sbjct: 63 FIMGFLVIAFILSVLGQVEIVATANGKLTHSGRSKEIKPIENSIVKEIIVKEGESVRKGD 122 Query: 315 VLL-----GANASIGAARAAFFPTISLTGSAGTASASLDGLFESGSRAWSFLPQITVPIF 369 VLL GA A +++ + + LP++ +P Sbjct: 123 VLLKLTALGAEADTLKTQSSLL---QARLEQTRYQILSRSIELNK------LPELKLPDE 173 Query: 370 RGGALRANLDVAHVKKRIEIANYEKSIQVAFSEVADGLAGKR----TLDEQIRSEQFLVA 425 + +V + I+ Q E+ L KR T+ +I + L Sbjct: 174 PYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELN--LDKKRAERLTVLARINRYENLSR 231 Query: 426 ASQGMYDLAEQRFREGVDDNLTLLDAQRTLYSAQQTLVRT--RLARLSNLIALYKA 479 + D + +L+ + A L +L ++ + I K Sbjct: 232 VEKSRLDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKE 287
>ACRIFLAVINRP#Acriflavin resistance protein family signature. Length = 1034 Score = 76.4 bits (188), Expect = 2e-20 Identities = 28/61 (45%), Positives = 42/61 (68%) Query: 1 MRPILMTSLVFIAGVISLVLASGAGAEMRHAMGIAVFAGMLGVTFFGLLLTPVFYVIVRN 60 +RPILMTSL FI GV+ L +++GAG+ ++A+GI V GM+ T + PVF+V++R Sbjct: 971 LRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIGVMGGMVSATLLAIFFVPVFFVVIRR 1030 Query: 61 L 61 Sbjct: 1031 C 1031
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 72.2 bits (177), Expect = 3e-16 Identities = 31/116 (26%), Positives = 52/116 (44%), Gaps = 15/116 (12%) Query: 195 TILIVDDSAFIRKMIENTLRSAGYNIITAKDGGDALEMLMEFETLADQDNASISDFVSAI 254 TIL+ DD A IR ++ L AGY++ + + + + Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIA-------------AGDGDLV 51 Query: 255 ITDVEMPRMDGMHLVKRLRESKAYRQMPIVMFSSLMSEDNRIKAISLGANDTITKP 310 +TDV MP + L+ R++ KA +P+++ S+ + IKA GA D + KP Sbjct: 52 VTDVVMPDENAFDLLPRIK--KARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKP 105
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 62.3 bits (151), Expect = 3e-14 Identities = 40/207 (19%), Positives = 73/207 (35%), Gaps = 10/207 (4%) Query: 12 GRPRAFDTEDA-LAKALEVFWRKGFEGTSLTDLTQAMGINKPSLYAAFGNKEQLFLKAIE 70 + A +T L AL +F ++G TSL ++ +A G+ + ++Y F +K LF + E Sbjct: 5 TKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWE 64 Query: 71 LYEQRPCAFFYPALEK--ETAYQVVESMLLGAADSLVDKSHPQGCLIVQGALTCSEAGQA 128 L E K V+ +L+ +S V + + + + C G+ Sbjct: 65 LSESNIGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHK-CEFVGEM 123 Query: 129 IKDTLINRRRDGEI--ALCERLQRAKDEGDLPADADPLLLARYIGTVLQGMAVQA----T 182 R E + + L+ + LPAD A + + G+ Sbjct: 124 AVVQQAQRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYISGLMENWLFAPQ 183 Query: 183 NGICPNELRQVAELTLANFPRNHINHN 209 + E R + L + N Sbjct: 184 SFDLKKEARDYVAILLEMYLLCPTLRN 210
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 44.0 bits (104), Expect = 8e-07 Identities = 19/123 (15%), Positives = 46/123 (37%), Gaps = 5/123 (4%) Query: 64 SVTLIPRVSGYIESVNFKEGALVKKGDVLFRIDPSVFEVEVARLKADLASAISAE---QL 120 S + P + ++ + KEG V+KGDVL ++ E + + ++ L A + Q+ Sbjct: 96 SKEIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQI 155 Query: 121 ATNDLERARKLFDQKAVSAELLDTRESNKRQTAAAVASVKAALMR--AELDLAYTQVQAP 178 + +E + + + E + + + + + +L + +A Sbjct: 156 LSRSIELNKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAE 215 Query: 179 IDG 181 Sbjct: 216 RLT 218 Score = 41.7 bits (98), Expect = 4e-06 Identities = 21/100 (21%), Positives = 41/100 (41%), Gaps = 10/100 (10%) Query: 103 EVARLKADLASAISAEQLATNDLERARKLFDQKAVSAELLDTRESNKRQTAAAVASVKAA 162 E+ K+ L S A + + +LF + + +L RQT + + Sbjct: 267 ELRVYKSQLEQIESEILSAKEEYQLVTQLF-KNEILDKL--------RQTTDNIGLLTLE 317 Query: 163 LMRAELDLAYTQVQAPIDGRVSYANVTT-GNYVTAGQSVL 201 L + E + ++AP+ +V V T G VT ++++ Sbjct: 318 LAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAETLM 357
>ACRIFLAVINRP#Acriflavin resistance protein family signature. Length = 1034 Score = 1038 bits (2685), Expect = 0.0 Identities = 415/1043 (39%), Positives = 637/1043 (61%), Gaps = 18/1043 (1%) Query: 2 LSQFFIKRPIFAAVLSLLFLITGAIAVWQLPITEYPEVVPPTVVVTANYPGANPKVIAET 61 ++ FFI+RPIFA VL+++ ++ GA+A+ QLP+ +YP + PP V V+ANYPGA+ + + +T Sbjct: 1 MANFFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDT 60 Query: 62 VASPLEQEINGVEDMLYMSSQATSDGRMTLTITFAIGTDVDRAQTQVQSRVDRAMPRLPQ 121 V +EQ +NG+++++YMSS + S G +T+T+TF GTD D AQ QVQ+++ A P LPQ Sbjct: 61 VTQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQ 120 Query: 122 EVQRLGIVTEKSSPDLTMVVHLLSPDNRYDMLYLSNYAALNVKDELARIKGVGAVRLFGA 181 EVQ+ GI EKSS MV +S + +S+Y A NVKD L+R+ GVG V+LFG Sbjct: 121 EVQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFG- 179 Query: 182 GEYSLRIWLDPNKVSALGLSPADIIAAVREQNQQAAAGSLGAQPSGSA-DFQLLINVKGR 240 +Y++RIWLD + ++ L+P D+I ++ QN Q AAG LG P+ I + R Sbjct: 180 AQYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTR 239 Query: 241 LTELSEFEDIIIKVGQNAEVIRLKDVARVELGATSYALRSLLDNKDAVAIPVFQASGSNA 300 EF + ++V + V+RLKDVARVELG +Y + + ++ K A + + A+G+NA Sbjct: 240 FKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGANA 299 Query: 301 IQISDDVRAEMARLAKSFPEGLQYEIVYDPTVFVRGSIEAVVKTLLEAVLLVVLVVVLFL 360 + + ++A++A L FP+G++ YD T FV+ SI VVKTL EA++LV LV+ LFL Sbjct: 300 LDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVMYLFL 359 Query: 361 QTWRASIIPLVAVPVSLVGTFAFMHLLGFSLNALSLFGLVLAIGIVVDDAIVVVENVERN 420 Q RA++IP +AVPV L+GTFA + G+S+N L++FG+VLAIG++VDDAIVVVENVER Sbjct: 360 QNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERV 419 Query: 421 IA-AGLSPMAATQKAMKEVTGPIVATTLVLAAVFIPTAFMSGLTGQFYKQFALTITISTF 479 + L P AT+K+M ++ G +V +VL+AVFIP AF G TG Y+QF++TI + Sbjct: 420 MMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMA 479 Query: 480 ISAINSLTLSPALSALLLKSHDAPKDGLTRLMDKLFGAWLFVPFNRLFNRASDGYGYLVR 539 +S + +L L+PAL A LLK A F FN F+ + + Y V Sbjct: 480 LSVLVALILTPALCATLLKPVSAEHHENKG--------GFFGWFNTTFDHSVNHYTNSVG 531 Query: 540 KVIRFGGIIGLVYLGMVALTGVQFANTPTGYVPGQDKQYLVAFAQLPDAASLERTDSVIK 599 K++ G L+Y +VA V F P+ ++P +D+ + QLP A+ ERT V+ Sbjct: 532 KILGSTGRYLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLD 591 Query: 600 KMSEIALNH--PGVAHSIAFPGLSINGFTNSPNSGVVFVALDDFELRKSPELSANAIAGQ 657 ++++ L + V G S +G + N+G+ FV+L +E R E SA A+ + Sbjct: 592 QVTDYYLKNEKANVESVFTVNGFSFSG--QAQNAGMAFVSLKPWEERNGDENSAEAVIHR 649 Query: 658 LNQQFAGIQDAFIAIFPPPPVQGLGTIGGFRLQIQDRANLGYEALYQVTQQVMYKAWADP 717 + I+D F+ F P + LGT GF ++ D+A LG++AL Q Q++ A P Sbjct: 650 AKMELGKIRDGFVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQHP 709 Query: 718 -QLAGIFSSYQVNVPQLELDIDRTKAKQQAVSLDQIFQTLQTYMGSTYVNDFNRFGRTYQ 776 L + + + Q +L++D+ KA+ VSL I QT+ T +G TYVNDF GR + Sbjct: 710 ASLVSVRPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRVKK 769 Query: 777 VNMQADEAFRQSPQQISQLKVPNVNGDMIPLGSFINVSQSAGPDRVMHYNGFTTAEINGG 836 + +QAD FR P+ + +L V + NG+M+P +F G R+ YNG + EI G Sbjct: 770 LYVQADAKFRMLPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEIQGE 829 Query: 837 PAPGVSTGQAQAAIEKILAETLPIGMTYEWTELTYQQILAGNTGLLVFPLVILLVFMVLA 896 APG S+G A A +E + ++ LP G+ Y+WT ++YQ+ L+GN + + ++VF+ LA Sbjct: 830 AAPGTSSGDAMALMENLASK-LPAGIGYDWTGMSYQERLSGNQAPALVAISFVVVFLCLA 888 Query: 897 AQYESLSLPLAIILIIPMTLLSALSGVLIYGGDNNIFTQIGLIVLVGLATKNAILIVEFA 956 A YES S+P++++L++P+ ++ L ++ N+++ +GL+ +GL+ KNAILIVEFA Sbjct: 889 ALYESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILIVEFA 948 Query: 957 KEKQDH-GMAPMEAILEAARLRLRPILMTSIAFIMGVVPMVFSTGAGAEMRQAMGVAVFA 1015 K+ + G +EA L A R+RLRPILMTS+AFI+GV+P+ S GAG+ + A+G+ V Sbjct: 949 KDLMEKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIGVMG 1008 Query: 1016 GMIGVTVFGLILTPLFYYALAKR 1038 GM+ T+ + P+F+ + + Sbjct: 1009 GMVSATLLAIFFVPVFFVVIRRC 1031 Score = 96.4 bits (240), Expect = 3e-22 Identities = 80/511 (15%), Positives = 176/511 (34%), Gaps = 47/511 (9%) Query: 553 LGMVALTGVQFANTPTGYVPGQDKQYLVAFAQLPDAASLERTDSVIKKMSEIALNHPGVA 612 + ++ + P P + A P A + D+V + + + + Sbjct: 17 IILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDTVTQVIEQNMNGIDNL- 75 Query: 613 HSIAFPGLSINGFTNSPNSGVVFVALDDFELRKSPELSANAIAGQLNQQFAGIQDAFIAI 672 + ++ ++S S + + F+ P+++ + +L Sbjct: 76 -------MYMSSTSDSAGSVTITL---TFQSGTDPDIAQVQVQNKLQL----ATPLLPQE 121 Query: 673 FPPPPVQGLGTIGGFRLQIQDRANLGYEALYQVTQQVMYKAWAD----PQLAGIFSSYQV 728 + + + + G+ + T Q + L+ + V Sbjct: 122 VQQQGISVEKSSSSYLMVA------GFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDV 175 Query: 729 NV----PQLELDIDRTKAKQQAVSLDQIFQTLQT----YMGSTYVNDFNRFGRTYQVNMQ 780 + + + +D + ++ + L+ G+ ++ Sbjct: 176 QLFGAQYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASII 235 Query: 781 ADEAFRQSPQQISQLKVP-NVNGDMIPLGSFINVSQSAGPDRVM-HYNGFTTAEINGGPA 838 A F ++P++ ++ + N +G ++ L V V+ NG A + A Sbjct: 236 AQTRF-KNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLA 294 Query: 839 PGVSTGQAQAAIEKILAE---TLPIGM----TYEWTELTYQQILAGNTGLLVFPLVILLV 891 G + AI+ LAE P GM Y+ T I L I+LV Sbjct: 295 TGANALDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLF---EAIMLV 351 Query: 892 FMVLAAQYESLSLPLAIILIIPMTLLSALSGVLIYGGDNNIFTQIGLIVLVGLATKNAIL 951 F+V+ +++ L + +P+ LL + + +G N T G+++ +GL +AI+ Sbjct: 352 FLVMYLFLQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIV 411 Query: 952 IVE-FAKEKQDHGMAPMEAILEAARLRLRPILMTSIAFIMGVVPMVFSTGAGAEMRQAMG 1010 +VE + + + P EA ++ ++ ++ +PM F G+ + + Sbjct: 412 VVENVERVMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFS 471 Query: 1011 VAVFAGMIGVTVFGLILTPLFYYALAKRGSK 1041 + + + M + LILTP L K S Sbjct: 472 ITIVSAMALSVLVALILTPALCATLLKPVSA 502
>TCRTETB#Tetracycline resistance protein TetB signature. Length = 458 Score = 57.6 bits (139), Expect = 3e-11 Identities = 43/178 (24%), Positives = 87/178 (48%), Gaps = 10/178 (5%) Query: 12 LLMIFPQAMETIYSPALPNIAENFAVSVAGASQTLSVYFIAFAIGVFCWGRLADIIGRRK 71 +L F E + + +LP+IA +F A + + + + F+IG +G+L+D +G ++ Sbjct: 21 ILSFFSVLNEMVLNVSLPDIANDFNKPPASTNWVNTAFMLTFSIGTAVYGKLSDQLGIKR 80 Query: 72 AMLAGLVCYAIGSALALMV-SDFSLLLLARVLSAFGAA----VGSVITQTMMRDSYSGEE 126 +L G++ GS + + S FSLL++AR + GAA + V+ + G+ Sbjct: 81 LLLFGIIINCFGSVIGFVGHSFFSLLIMARFIQGAGAAAFPALVMVVVARYIPKENRGKA 140 Query: 127 LAKVFSVMGMSLGISPVIGLLLGSVLSAYWGYQGVFVALMVSAIVLLFLSVKSLPETK 184 + S++ M G+ P IG ++ + +W Y + + + I+ + +K L + Sbjct: 141 FGLIGSIVAMGEGVGPAIGGMIAHYI--HWSY---LLLIPMITIITVPFLMKLLKKEV 193
>ACRIFLAVINRP#Acriflavin resistance protein family signature. Length = 1034 Score = 777 bits (2008), Expect = 0.0 Identities = 310/1032 (30%), Positives = 520/1032 (50%), Gaps = 28/1032 (2%) Query: 3 LSDVSVKRPVVAIVLSLLLCVFGFVSFTKLSVREMPDVESPVVTISTSYSGASAAIMESQ 62 +++ ++RP+ A VL+++L + G ++ +L V + P + P V++S +Y GA A ++ Sbjct: 1 MANFFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDT 60 Query: 63 ITKTLEDELTGISGIDEITSTT-RNGSSRITVKFLLGWNLTEGVSDVRDAVARAQRRLPE 121 +T+ +E + GI + ++ST+ GS IT+ F G + V++ + A LP+ Sbjct: 61 VTQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQ 120 Query: 122 DAKDPVVSKDNGSGEPSVYVNLSSSIMDRTQ--LTDYAQRVLEDRFSLISGVSSISISGG 179 + + +S + S + S TQ ++DY ++D S ++GV + + G Sbjct: 121 EVQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFGA 180 Query: 180 LYKVMYVKLRPEQMAGRNVTVTDITNALRKENVETPGGQVRNDTTV------MSVRTKRL 233 Y + + L + + +T D+ N L+ +N + GQ+ + S+ + Sbjct: 181 QYAMR-IWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTR 239 Query: 234 YYTPKDFDYLVVRTASDGTPIYLKDVADVAVGAQNENSTFKSDGIVNLSLGIITQSDANP 293 + P++F + +R SDG+ + LKDVA V +G +N N + +G LGI + AN Sbjct: 240 FKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGANA 299 Query: 294 LVVAQEVHKEVDRVQNFLPEGTSLVVDFDSTVFIDRSINEVYNTLFVTGALVVLVLYIFI 353 L A+ + ++ +Q F P+G ++ +D+T F+ SI+EV TLF LV LV+Y+F+ Sbjct: 300 LDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVMYLFL 359 Query: 354 GQARATLIPAVTVPVSLISAFIAANMFGYSINLLTLMALILAIGLVVDDAIVVVENIFHH 413 RATLIP + VPV L+ F FGYSIN LT+ ++LAIGL+VDDAIVVVEN+ Sbjct: 360 QNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERV 419 Query: 414 I-EKGEEPLLAAYKGTREVGFAVVATTAVLVMVFLPISFMEGMVGLLFTEFSVMLAVSVM 472 + E P A K ++ A+V VL VF+P++F G G ++ +FS+ + ++ Sbjct: 420 MMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMA 479 Query: 473 FSSLIALTLTPVLSSKLLKANVK-----PNRFNRWVDSGFARMEKVYRAAVSRAIQFRLI 527 S L+AL LTP L + LLK F W ++ F Y +V + + Sbjct: 480 LSVLVALILTPALCATLLKPVSAEHHENKGGFFGWFNTTFDHSVNHYTNSVGKILGSTGR 539 Query: 528 APLVILACIGGSAWLMQQVPSQLAPQEDRGVLYAFVKGAEGTSYNRMTANMDIVEDRLMP 587 L+ + G L ++PS P+ED+GV ++ G + R +D V D + Sbjct: 540 YLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQVTDYYLK 599 Query: 588 LLGQGVLRSFSVQAPAFGGRAGDQTGFVIMQLEDWEHRDVTAQQALGIISSA---LKDIP 644 V F+V +F G+ G + L+ WE R+ A +I A L I Sbjct: 600 NEKANVESVFTVNGFSFSGQ-AQNAGMAFVSLKPWEERNGDENSAEAVIHRAKMELGKIR 658 Query: 645 DVMVRPM-MPGFRGQ-SSEPVQFVL---GGSDYTELFKWAQILKEEANASP-MMEGADLD 698 D V P MP ++ F L G + L + L A P + + Sbjct: 659 DGFVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQHPASLVSVRPN 718 Query: 699 YAETTPELIVTVDKERAAELGISVDEVSQTLEVMLGGRTETTYVDRGEEYDVYLRGDENS 758 E T + + VD+E+A LG+S+ +++QT+ LGG ++DRG +Y++ D Sbjct: 719 GLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRVKKLYVQADAKF 778 Query: 759 FNNVGDLSQIYMRSAKGELVTLDTVTHIEEVASAQKLSHTNKQKSITLKANISEGYTLGE 818 D+ ++Y+RSA GE+V T V + +L N S+ ++ + G + G+ Sbjct: 779 RMLPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEIQGEAAPGTSSGD 838 Query: 819 SLAFLENKAVELLPKDISVGYTGESKEFKENQSSILIVFGLALLVAYLVLAAQFESFINP 878 ++A +EN A + LP I +TG S + + + + + ++ +V +L LAA +ES+ P Sbjct: 839 AMALMENLASK-LPAGIGYDWTGMSYQERLSGNQAPALVAISFVVVFLCLAALYESWSIP 897 Query: 879 LVVMFTVPMGVFGGFLGLLITSQGINIYSQIGMIMLIGMVTKNGILIVEFANQLRDR-GF 937 + VM VP+G+ G L + +Q ++Y +G++ IG+ KN ILIVEFA L ++ G Sbjct: 898 VSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILIVEFAKDLMEKEGK 957 Query: 938 ELDKAIIDASTRRLRPILMTAFTTLVGAIPLIFSTGAGSESRIAVGTVVFFGMAFATFVT 997 + +A + A RLRPILMT+ ++G +PL S GAGS ++ AVG V GM AT + Sbjct: 958 GVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIGVMGGMVSATLLA 1017 Query: 998 LFVIPAMYRLIS 1009 +F +P + +I Sbjct: 1018 IFFVPVFFVVIR 1029
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 49.4 bits (118), Expect = 1e-08 Identities = 21/108 (19%), Positives = 47/108 (43%), Gaps = 3/108 (2%) Query: 50 PLTQSISLIGKLA-AERAVVIAPQVTGKIKQIAVTSNQAVKKGQLLIELDDMKAQAAVAE 108 + + GKL + R+ I P +K+I V ++V+KG +L++L + A+A + Sbjct: 79 QVEIVATANGKLTHSGRSKEIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLK 138 Query: 109 ANAYLNDEKRKLKEFEKLISRNAITQTEIDAQKASVDIAQARLTSAQA 156 + L +L++ I +I ++ K + ++ + Sbjct: 139 TQSSLLQA--RLEQTRYQILSRSIELNKLPELKLPDEPYFQNVSEEEV 184 Score = 48.7 bits (116), Expect = 2e-08 Identities = 41/246 (16%), Positives = 84/246 (34%), Gaps = 33/246 (13%) Query: 51 LTQSISLIGKLAAERAVVIAPQVTGKIKQIAV-----TSNQAVKKGQLLIELDDMKAQAA 105 Q + K AER V+A ++ V ++ Q + + ++ + Sbjct: 202 KYQKELNLDKKRAERLTVLA-RINRYENLSRVEKSRLDDFSSLLHKQAIAKHAVLEQENK 260 Query: 106 VAEANAYLNDEKRKLKEFEKLISRNAITQTEIDAQ----------KASVDIAQ--ARLTS 153 EA L K +L++ E I + + + +I L Sbjct: 261 YVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDNIGLLTLELAK 320 Query: 154 AQADLHYHSLIAPFAGKT-GLINFSEGKMVSVGTELMTL-DDLSSMRLDLQVPEHYLAQL 211 + + AP + K L +EG +V+ LM + + ++ + V + + Sbjct: 321 NEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAETLMVIVPEDDTLEVTALVQNKDIGFI 380 Query: 212 SIGMPVSATSRAWPGETF---MGKVVAIDP-RVNEETLNL--KIRVQFD-------NPKD 258 ++G A+P + +GKV I+ + ++ L L + + + N Sbjct: 381 NVGQNAIIKVEAFPYTRYGYLVGKVKNINLDAIEDQRLGLVFNVIISIEENCLSTGNKNI 440 Query: 259 RLKPGM 264 L GM Sbjct: 441 PLSSGM 446
>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature. Length = 1541 Score = 30.4 bits (68), Expect = 0.028 Identities = 36/243 (14%), Positives = 86/243 (35%), Gaps = 25/243 (10%) Query: 393 QDSVESLEQQASKAQSIAKQNGEEAQALM---LQTDQIATAIEEMSTSIRDVANHAQDGA 449 +VE EQ A++ + ++ +EA++ + QT+++A + E + Sbjct: 1048 SKTVEKNEQDATETTAQNREVAKEAKSNVKANTQTNEVAQSGSETKETQTTETKETATVE 1107 Query: 450 EQSLQVDSAAKEGYNQQTKVVQDLLKLSQQLSNSHQSIEKVSQESEAISKVTEVINSIAE 509 ++ AK + +V + ++S + S + E + T I Sbjct: 1108 KE-----EKAKVETEKTQEVPKVTSQVSPKQEQSET--VQPQAEPARENDPTVNIKEPQS 1160 Query: 510 QTNLLA--LNAAIEAARAGEQGRGFAVVADEVRTLAQRTQSSILEISQTIEKLQTQ---- 563 QTN A A E + EQ + + ++ + +++ +Q ++ Sbjct: 1161 QTNTTADTEQPAKETSSNVEQPVTESTTVNTGNSVVENPENTTPATTQPTVNSESSNKPK 1220 Query: 564 VKNATEQMAQSHQLGTTSATQGEITGEQLKEITRRIGELAISSRNIASATEQQSSVAQEI 623 ++ + H + + + + + L ++T S N + + AQ + Sbjct: 1221 NRHRRSVRSVPHNVEPATTSSNDRSTVALCDLT---------STNTNAVLSDARAKAQFV 1271 Query: 624 THN 626 N Sbjct: 1272 ALN 1274
>ACRIFLAVINRP#Acriflavin resistance protein family signature. Length = 1034 Score = 378 bits (971), Expect = e-116 Identities = 210/1044 (20%), Positives = 435/1044 (41%), Gaps = 52/1044 (4%) Query: 1 MIKAFVENGRLVSLVIALLIVAGLGAISSLPRTEDPHITNRFASVITSYPGASAERVEAL 60 M F+ ++ +L++AG AI LP + P I SV +YPGA A+ V+ Sbjct: 1 MANFFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDT 60 Query: 61 VTEVIENQLRRLEEIKLIQSTS-RPGVSVIQLELKDTVMETAPVWSR--ARDLLADAKAN 117 VT+VIE + ++ + + STS G I L + T P ++ ++ L A Sbjct: 61 VTQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQS---GTDPDIAQVQVQNKLQLATPL 117 Query: 118 LPNGIQTPTLDDQIGYAYTAILSLVWNADTPIRADILNRYAKE-LQSRLRLLPGTDFVKL 176 LP +Q + + + +++ + + D ++ Y ++ L L G V+L Sbjct: 118 LPQEVQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQL 177 Query: 177 YGAPTEEILVQLNGSQMSQLQLTPSTVAQILTNADSKISAGEINNT------TFRALVEV 230 +GA + + L+ +++ +LTP V L + +I+AG++ T A + Sbjct: 178 FGAQ-YAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIA 236 Query: 231 SGELDSQTRIRQVPLKIDTQGQIIRLGDIATVTRQSQTPADSIALVDGKQSVLVAVRMLD 290 + +V L++++ G ++RL D+A V + + IA ++GK + + +++ Sbjct: 237 QTRFKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENY-NVIARINGKPAAGLGIKLAT 295 Query: 291 NTRVDLWQAQVNKVVDELSRDVPANITIQWLFEQNSYTSVRLGDLVINLLQGFIIILLVL 350 + + EL P + + + ++ + + + ++V L + +++ LV+ Sbjct: 296 GANALDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVM 355 Query: 351 LLTLG-VRNAIIVAISLPLTALFTLACMKYINLPIHQMSVTGLVVALGIMVDNAIVIVDA 409 L L +R +I I++P+ L T A + I+ +++ G+V+A+G++VD+AIV+V+ Sbjct: 356 YLFLQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVEN 415 Query: 410 IAQRRQ-QGMSRLAAVSKTLHHLWLPLAGSTITTILAFAPIVLMPGAAGEFVGGIAMSVI 468 + + + A K++ + L G + F P+ G+ G +++++ Sbjct: 416 VERVMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIV 475 Query: 469 FALLGSYLISHTLIAGLAGRF---------SIDGKHDAWYQHGIRMPLLSHYFQASLRFA 519 A+ S L++ L L G W+ +++ S+ Sbjct: 476 SAMALSVLVALILTPALCATLLKPVSAEHHENKGGFFGWFNTTFDH--SVNHYTNSVGKI 533 Query: 520 LNRPIISAIAIGVIPALGFYASGKMTEQFFPPSDRDMFQIEIYLAPHVSLENTLNQV-QL 578 L + +I A ++ F P D+ +F I L + E T + Q+ Sbjct: 534 LGSTGRYLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQV 593 Query: 579 IDNTLRSINGITQVDWVVGGNSPSFYYNLTQRQQGAANYAQAMVK-----VTDFKRANAL 633 D L++ + + V G ++ + + Q A A +K D A A+ Sbjct: 594 TDYYLKNEKANVESVFTVNG------FSFSGQAQNAG-MAFVSLKPWEERNGDENSAEAV 646 Query: 634 IPELQQQLDS---AFPEVQVLVRKLEQGPPFNAPVELM-IFGSNLDTLRAIGDEIRLILS 689 I + +L F + +E G EL+ G D L +++ + + Sbjct: 647 IHRAKMELGKIRDGFVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAA 706 Query: 690 KTP-DVLHTRATLSAGAPKVWLEVNEDASLMSGLSLTEIAKQIQMSTTGVIGGSILEQTE 748 + P ++ R + LEV+++ + G+SL++I + I + G +++ Sbjct: 707 QHPASLVSVRPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGR 766 Query: 749 SLPIRVRLSDENREQVNRLSEIQLVSPSGETVSLSALSHSEIHVSRGAIPRRNGQRVNTI 808 + V+ + R + ++ + S +GE V SA + S + R NG I Sbjct: 767 VKKLYVQADAKFRMLPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEI 826 Query: 809 ETYIVSGVLPAQVLNDVKDKIAQLTLPSGYRIEIGGESAKRNEAVGNLLSSVMLVVTLLL 868 + G + +++ ++ LP+G + G S + + + V + ++ Sbjct: 827 QGEAAPGTSSGDAMALMENLASK--LPAGIGYDWTGMSYQERLSGNQAPALVAISFVVVF 884 Query: 869 ATVVLSFNSFRLTAIILLSAMQSAGLGLLAVFVFGYPFGFPVIIGLLGLMGLAINAAIVI 928 + + S+ + ++L LLA +F ++GLL +GL+ AI+I Sbjct: 885 LCLAALYESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILI 944 Query: 929 LAELEEIPAAR-LGDKDVIITTVSSCGRHIGSTTVTTVGGFIPLII---AGGGFWPPFAI 984 + +++ G + + V R I T++ + G +PL I AG G I Sbjct: 945 VEFAKDLMEKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGI 1004 Query: 985 AIAGGTLLTTLLSLVWVPTMYLLL 1008 + GG + TLL++ +VP ++++ Sbjct: 1005 GVMGGMVSATLLAIFFVPVFFVVI 1028
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 61.4 bits (149), Expect = 1e-12 Identities = 23/128 (17%), Positives = 52/128 (40%), Gaps = 12/128 (9%) Query: 180 HIMVIDDSAVARKQIIRSLESLNLQIDTAKDGREALDKLKAIASEMDNVADEIPLIISDI 239 I+V DD A R + ++L + + + A + L+++D+ Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAA---------GDGDLVVTDV 55 Query: 240 EMPEMDGYTLTAEIRDDPKLKHIKVVLHTSLSGVFNQAMVQKVGANDFIAK-FNPDELAA 298 MP+ + + L I+ + V++ ++ + + GA D++ K F+ EL Sbjct: 56 VMPDENAFDLLPRIKK--ARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIG 113 Query: 299 AVNKHLSL 306 + + L+ Sbjct: 114 IIGRALAE 121
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 33.0 bits (75), Expect = 3e-04 Identities = 9/38 (23%), Positives = 18/38 (47%) Query: 99 NVNVMEEMADMISASRSYQMNVQVAEAAKSMLQQTLGM 136 VN+ EE ++ + Y N QV + A ++ + + Sbjct: 508 GVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALINI 545 Score = 29.9 bits (67), Expect = 0.003 Identities = 16/67 (23%), Positives = 29/67 (43%), Gaps = 6/67 (8%) Query: 5 SIFDVAGSGMSAQSVRLNTTASNIANADSVSSSIDKTYRSRHPIFEAEMAKAQSQQQTSQ 64 S+ + A SG++A LNT ++NI++ + Y + I + + Sbjct: 2 SLINNAMSGLNAAQAALNTASNNISSYN------VAGYTRQTTIMAQANSTLGAGGWVGN 55 Query: 65 GVTVRGI 71 GV V G+ Sbjct: 56 GVYVSGV 62
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 40.7 bits (95), Expect = 9e-06 Identities = 15/35 (42%), Positives = 22/35 (62%) Query: 2 SFNIALSGISAAQKDLNTTANNIANANTVGFKESR 36 N A+SG++AAQ LNT +NNI++ N G+ Sbjct: 3 LINNAMSGLNAAQAALNTASNNISSYNVAGYTRQT 37 Score = 38.0 bits (88), Expect = 7e-05 Identities = 12/49 (24%), Positives = 25/49 (51%) Query: 405 SISSSALEQSNIDLTTELVDLISAQRNFQANSRTLEVNNTLQQTVLQIR 453 +S+ S ++L E +L Q+ + AN++ L+ N + ++ IR Sbjct: 498 QLSNQQQSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALINIR 546
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 28.8 bits (64), Expect = 0.025 Identities = 9/32 (28%), Positives = 17/32 (53%) Query: 205 SNVNPVDEMVSLIELQRQFEMQVKMMKTAEEI 236 S VN +E +L Q+ + ++++TA I Sbjct: 507 SGVNLDEEYGNLQRFQQYYLANAQVLQTANAI 538
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 42.6 bits (100), Expect = 1e-06 Identities = 19/119 (15%), Positives = 41/119 (34%), Gaps = 4/119 (3%) Query: 145 EDATSITVSAEGEVSVKTAGAAENQVVGQLSMTDFINPSGLDPMGQNLYTETG---ASGT 201 D I +++E + + + Q + + +L ++ G A+ Sbjct: 427 TDEAKIAMASEEDAGDSDNRNGQALLDLQSNSKTVGGAKSFNDAYASLVSDIGNKTATLK 486 Query: 202 PIQGTASLDGMGAIRQGALETSNVNVTEELVNLIESQRIYEMNSKVISAVDQMLAYVNQ 260 T + + S VN+ EE NL Q+ Y N++V+ + + + Sbjct: 487 TSSATQGNV-VTQLSNQQQSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALIN 544 Score = 35.7 bits (82), Expect = 2e-04 Identities = 9/36 (25%), Positives = 20/36 (55%) Query: 5 LWISKTGLDAQQTDIAVISNNVANASTVGYKKSRAV 40 + + +GL+A Q + SNN+++ + GY + + Sbjct: 4 INNAMSGLNAAQAALNTASNNISSYNVAGYTRQTTI 39
>FLGLRINGFLGH#Flagellar L-ring protein signature. Length = 232 Score = 143 bits (362), Expect = 7e-45 Identities = 71/215 (33%), Positives = 106/215 (49%), Gaps = 9/215 (4%) Query: 11 LLLSACSSTQKKPIADDPFYAPVYPEAPPTKIAATGSIYQDSQAA-----SLYSDIRAHK 65 L L+ C+ P+ A P P A GSI+Q +Q L+ D R Sbjct: 17 LSLTGCAWIPSTPLVQGATSAQPVPGPTP---VANGSIFQSAQPINYGYQPLFEDRRPRN 73 Query: 66 VGDIITIVLKEATQAKKSAGNQIKKGSDMSLDPIYAAGSNISV-AGVPLDLRYKDSMNTK 124 +GD +TIVL+E A KS+ + + + D+ Sbjct: 74 IGDTLTIVLQENVSASKSSSANASRDGKTNFGFDTVPRYLQGLFGNARADVEASGGNTFN 133 Query: 125 RESDADQSNSLDGSISANIMQVLNNGNLVVRGEKWISINNGDEFIRVTGIVRSQDIKPDN 184 + A+ SN+ G+++ + QVL NGNL V GEK I+IN G EFIR +G+V + I N Sbjct: 134 GKGGANASNTFSGTLTVTVDQVLVNGNLHVVGEKQIAINQGTEFIRFSGVVNPRTISGSN 193 Query: 185 TIDSTRMANARIQYSGTGTFADAQKVGWLSQFFMS 219 T+ ST++A+ARI+Y G G +AQ +GWL +FF++ Sbjct: 194 TVPSTQVADARIEYVGNGYINEAQNMGWLQRFFLN 228
>FLGPRINGFLGI#Flagellar P-ring protein signature. Length = 373 Score = 374 bits (962), Expect = e-131 Identities = 161/377 (42%), Positives = 225/377 (59%), Gaps = 20/377 (5%) Query: 1 MRFKRIIALAILIFSLP--------SQAERIKDIANVQGVRSNQLIGYGLVVGLPGTGEK 52 MR RIIA A++ +LP + RIKDIA++Q R NQLIGYGLVVGL GTG+ Sbjct: 1 MRVLRIIAAALVFSALPFLSTPPAQADTSRIKDIASLQAGRDNQLIGYGLVVGLQGTGDS 60 Query: 53 ---TNYTEQTFTTMLKNFGINLPDNFRPKIKNVAVVAVHADMPAFIKPGQELDVTVSSLG 109 + +TEQ+ ML+N GI + KN+A V V A++P F PG +DVTVSSLG Sbjct: 61 LRSSPFTEQSMRAMLQNLGITTQGG-QSNAKNIAAVMVTANLPPFASPGSRVDVTVSSLG 119 Query: 110 EAKSLRGGTLLQTFLKGVDGNVYAIAQGSLVVSGFSAEGLDGSKVIQNTPTVGRIPNGAI 169 +A SLRGG L+ T L G DG +YA+AQG+L+V+GFSA+G D + + Q T R+PNGAI Sbjct: 120 DATSLRGGNLIMTSLSGADGQIYAVAQGALIVNGFSAQG-DAATLTQGVTTSARVPNGAI 178 Query: 170 VERSVATPFSSGDYLTFNLRRADFSTAQRMADAINDL----LGPDMARPLDATSVQVSAP 225 +ER + + F L LR DFSTA R+AD +N G +A P D+ + V P Sbjct: 179 IERELPSKFKDSVNLVLQLRNPDFSTAVRVADVVNAFARARYGDPIAEPRDSQEIAVQKP 238 Query: 226 RDVSQRVSFLATLENLDVIPAEESAKVIVNSRTGTIVVGQNVKLLPAAITHGGLTVTIAE 285 R V+ +A +ENL + + AKV++N RTGTIV+G +V++ A+++G LTV + E Sbjct: 239 R-VADLTRLMAEIENL-TVETDTPAKVVINERTGTIVIGADVRISRVAVSYGTLTVQVTE 296 Query: 286 ATQVSQPNALANGETVVTADTTIGVSESDRRMFMFSPGTTLDELVRAVNLVGAAPSDVLA 345 + QV QP + G+T V T I + ++ G L LV +N +G ++A Sbjct: 297 SPQVIQPAPFSRGQTAVQPQTDIMAMQEGSKVA-IVEGPDLRTLVAGLNSIGLKADGIIA 355 Query: 346 ILEALKVAGALHGELII 362 IL+ +K AGAL EL++ Sbjct: 356 ILQGIKSAGALQAELVL 372
>FLGFLGJ#Flagellar protein FlgJ signature. Length = 313 Score = 204 bits (520), Expect = 3e-65 Identities = 111/363 (30%), Positives = 169/363 (46%), Gaps = 80/363 (22%) Query: 12 DLGGLDSLRAQAQKDEKGTLKQVAQQFEGIFVQMLMKSMRDANAVFESDSPLNSQYTKFY 71 D L+ L+A+A +D ++ VA+Q EG+FVQM++KSMRDA D +S++T+ Y Sbjct: 14 DAQSLNELKAKAGEDPAANIRPVARQVEGMFVQMMLKSMRDALP---KDGLFSSEHTRLY 70 Query: 72 EQMRDQQLSVDLSDKGVLGLADMMVQQLSPESSQLTPASVLRNDGGEKLQRGDKAFTAPA 131 M DQQ++ ++ LGLA+MMV+ Q+TP P Sbjct: 71 TSMYDQQIAQQMTAGKGLGLAEMMVK-------QMTPEQ-----------------PLPE 106 Query: 132 QNTSTQDVLDASTPPVSSSTQIPTYIARPTFESDRPEAVTSSLDIDTPIPSLAINTPKPA 191 ++T P T + +A++ + Sbjct: 107 ESTP----------------AAPMKFPLETVVRYQNQALSQLV----------------- 133 Query: 192 WSEQPLSPIETVISGQILPTVAFKETQKTLKFGSREEFLATLYPHAEKAAKALGTKPEVL 251 Q P + +L S+ FLA L A+ A++ G ++ Sbjct: 134 ---QKAVP---------------RNYDDSLPGDSKA-FLAQLSLPAQLASQQSGVPHHLI 174 Query: 252 LAQSALETGWGQKIVRGSNGAPSHNLFNIKADRRWLGDKANVSTLEFEQGIAVRQKADFR 311 LAQ+ALE+GWGQ+ +R NG PS+NLF +KA W G ++T E+E G A + KA FR Sbjct: 175 LAQAALESGWGQRQIRRENGEPSYNLFGVKASGNWKGPVTEITTTEYENGEAKKVKAKFR 234 Query: 312 VYTDFEHSFNDFVTFIAEGERYQGATKVAASPTQFIRALKDAGYATDPKYAEKVIKVMQT 371 VY+ + + +D+V + RY A AAS Q +AL+DAGYATDP YA K+ ++Q Sbjct: 235 VYSSYLEALSDYVGLLTRNPRY-AAVTTAASAEQGAQALQDAGYATDPHYARKLTNMIQQ 293 Query: 372 ISQ 374 + Sbjct: 294 MKS 296
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 443 bits (1141), Expect = e-155 Identities = 169/484 (34%), Positives = 261/484 (53%), Gaps = 27/484 (5%) Query: 7 RILLVGTPSERLSRLCCIFEFLGEQIDVI-----APEKLNSYLQDTRYRALVLFTDTMPS 61 IL+ + + L G + + + + D LV+ MP Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGD-----LVVTDVVMPD 59 Query: 62 -DAIKLLATQFAWQP----ILL--FGEIGDFQVSNVLG---QIEEPLSYPQLTELLHFCQ 111 +A LL +P +++ ++ G + +P +L ++ Sbjct: 60 ENAFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRAL 119 Query: 112 VYGQVKRPQVPTSANQTKLFRSLVGRSDGIAHVRHLINQVATSDATVLVLGQSGTGKEVV 171 + + ++ + LVGRS + + ++ ++ +D T+++ G+SGTGKE+V Sbjct: 120 AEPKRRPSKLEDDSQD---GMPLVGRSAAMQEIYRVLARLMQTDLTLMITGESGTGKELV 176 Query: 172 ARNIHYLSERRDGPFIPVNCGAIPPELLESELFGHEKGSFTGAICSRKGRFELAEGGTLF 231 AR +H +RR+GPF+ +N AIP +L+ESELFGHEKG+FTGA GRFE AEGGTLF Sbjct: 177 ARALHDYGKRRNGPFVAINMAAIPRDLIESELFGHEKGAFTGAQTRSTGRFEQAEGGTLF 236 Query: 232 LDEIGDMPLQMQVKLLRVLQERVFERVGGTKTINVDVRVVAATHRDLESMISGNEFREDL 291 LDEIGDMP+ Q +LLRVLQ+ + VGG I DVR+VAAT++DL+ I+ FREDL Sbjct: 237 LDEIGDMPMDAQTRLLRVLQQGEYTTVGGRTPIRSDVRIVAATNKDLKQSINQGLFREDL 296 Query: 292 YYRLNVFPIEMPALSERKDDVPLLLQELVSRVYNEGRGKVRFTQRAIESLKEHAWSGNVR 351 YYRLNV P+ +P L +R +D+P L++ V + EG RF Q A+E +K H W GNVR Sbjct: 297 YYRLNVVPLRLPPLRDRAEDIPDLVRHFVQQAEKEGLDVKRFDQEALELMKAHPWPGNVR 356 Query: 352 ELSNLVERLTILYPGGLVDVNDLPVKYRHIDVPEYCVEMSEEQQERDALASIFTSEEPVE 411 EL NLV RLT LYP ++ + + R ++P+ +E + + +++ EE + Sbjct: 357 ELENLVRRLTALYPQDVITREIIENELRS-EIPDSPIEKAAARSGSLSISQAV--EENMR 413 Query: 412 IPETRFPNELPPEGVNLKDLLAELEIDMIRQALELQDNVVARAAEMLGIRRTTLVEKMRK 471 F + LPP G+ +LAE+E +I AL +AA++LG+ R TL +K+R+ Sbjct: 414 QYFASFGDALPPSGL-YDRVLAEMEYPLILAALTATRGNQIKAADLLGLNRNTLRKKIRE 472 Query: 472 YGMT 475 G++ Sbjct: 473 LGVS 476
>PF06580#Sensor histidine kinase Length = 349 Score = 29.1 bits (65), Expect = 0.025 Identities = 21/95 (22%), Positives = 37/95 (38%), Gaps = 19/95 (20%) Query: 256 LVINSLEAGASQ------IRILATESKDQLMLEVIDNGKGLDAKMQQKVMEPFFTTKAQG 309 LV N ++ G +Q I + T+ + LEV + G + Sbjct: 263 LVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSL------------ALKNTKES 310 Query: 310 TGLGLA-VVQSVVRNHGGEIQLRCLPNKGCTVSLV 343 TG GL V + + +G E Q++ +G ++V Sbjct: 311 TGTGLQNVRERLQMLYGTEAQIKLSEKQGKVNAMV 345
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 455 bits (1173), Expect = e-160 Identities = 168/484 (34%), Positives = 249/484 (51%), Gaps = 43/484 (8%) Query: 1 MSEAKLLLVEDDASLREALLDTLLLAQYECIDVACGEDAILALKQHQFDLVISDVQMEGI 60 M+ A +L+ +DDA++R L L A Y+ + + DLV++DV M Sbjct: 1 MTGATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDE 60 Query: 61 GGLGLLNYLQQHHPKLPVLLMTAYATIGSAVSAIKLGAVDYLAKPFAPEVLLNQVSRYLP 120 LL +++ P LPVL+M+A T +A+ A + GA DYL KPF L+ + R L Sbjct: 61 NAFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALA 120 Query: 121 LKTNVDKPIVAD-----------EKSLALLSLAQRVAASDASVMIMGPSGSGKEVLARYI 169 + D + + R+ +D ++MI G SG+GKE++AR + Sbjct: 121 EPKRRPSKLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVARAL 180 Query: 170 HQHSSRAEQAFVAINCAAIPENMLEATLFGYEKGAFTGAYQACPGKFEQAQGGTLLLDEI 229 H + R FVAIN AAIP +++E+ LFG+EKGAFTGA G+FEQA+GGTL LDEI Sbjct: 181 HDYGKRRNGPFVAINMAAIPRDLIESELFGHEKGAFTGAQTRSTGRFEQAEGGTLFLDEI 240 Query: 230 SEMDLGLQAKLLRVLQEREVERLGGRKTIKLDVRVLATSNRDLKAVVAAGGFREDLYYRI 289 +M + Q +LLRVLQ+ E +GGR I+ DVR++A +N+DLK + G FREDLYYR+ Sbjct: 241 GDMPMDAQTRLLRVLQQGEYTTVGGRTPIRSDVRIVAATNKDLKQSINQGLFREDLYYRL 300 Query: 290 NVFPLTWPALNQRPADILPLARHLLAKHAKALNIGAIPELDEQACRRLLSHRWPGNVREL 349 NV PL P L R DI L RH + + K + D++A + +H WPGNVREL Sbjct: 301 NVVPLRLPPLRDRAEDIPDLVRHFVQQAEK--EGLDVKRFDQEALELMKAHPWPGNVREL 358 Query: 350 DNIVQRALILRTGPVITANDIIIDVQGALISDEFEVSASEPEG----------------- 392 +N+V+R L VIT I +++ + E +A+ Sbjct: 359 ENLVRRLTALYPQDVITREIIENELRSEIPDSPIEKAAARSGSLSISQAVEENMRQYFAS 418 Query: 393 ----------LGEELKAQEHVIILETLAQCQGSRKLVAEKLGISARTLRYKMARMRDMGI 442 L E+ +IL L +G++ A+ LG++ TLR K +R++G+ Sbjct: 419 FGDALPPSGLYDRVLAEMEYPLILAALTATRGNQIKAADLLGLNRNTLRKK---IRELGV 475 Query: 443 QLPS 446 + Sbjct: 476 SVYR 479
>FLGHOOKFLIE#Flagellar hook-basal body complex protein FliE signature. Length = 103 Score = 57.4 bits (138), Expect = 3e-14 Identities = 29/81 (35%), Positives = 46/81 (56%) Query: 31 QQVNNTSGADFGQLLSQAVGNVSGLQSTSSNLATRLEMGDTTVSLSDTVIAREKASVAFE 90 Q+ F L A+ +S Q+ + A + +G+ V+L+D + +KASV+ + Sbjct: 23 QESLPQPTISFAGQLHAALDRISDTQTAARTQAEKFTLGEPGVALNDVMTDMQKASVSMQ 82 Query: 91 ATVQVRNKLVEAYKEIMSMPV 111 +QVRNKLV AY+E+MSM V Sbjct: 83 MGIQVRNKLVAAYQEVMSMQV 103
>FLGMRINGFLIF#Flagellar M-ring protein signature. Length = 559 Score = 299 bits (768), Expect = 5e-97 Identities = 163/566 (28%), Positives = 263/566 (46%), Gaps = 56/566 (9%) Query: 26 LGGVDMMRQITMILALAICLALAVFVMLWAQEPEYRPL-GKMETQEMVQVLDVLDKNKIK 84 L + +I +I+A + +A+ V ++LWA+ P+YR L + Q+ ++ L + I Sbjct: 16 LNRLRANPRIPLIVAGSAAVAIVVAMVLWAKTPDYRTLFSNLSDQDGGAIVAQLTQMNIP 75 Query: 85 YQIEVD--VIKVPEDKYQEVKLMLSRAGIDGGTTSKDFLTQDSGFGVSQRMEQARLKHSQ 142 Y+ I+VP DK E++L L++ G+ G L FG+SQ EQ + + Sbjct: 76 YRFANGSGAIEVPADKVHELRLRLAQQGLPKGGAVGFELLDQEKFGISQFSEQVNYQRAL 135 Query: 143 EENLARAIEQLQSVSRAKVILALPKENVFARNTSQPSATVVINTRRG-GLGQGEVDAIVD 201 E LAR IE L V A+V LA+PK ++F R PSA+V + G L +G++ A+V Sbjct: 136 EGELARTIETLGPVKSARVHLAMPKPSLFVREQKSPSASVTVTLEPGRALDEGQISAVVH 195 Query: 202 IVASAVQGLEPSRVTVTDSNGRLLNSGSQDGVSARARRELELVQQKEAEYRTKIESILVP 261 +V+SAV GL P VT+ D +G LL + G +L+ E+ + +IE+IL P Sbjct: 196 LVSSAVAGLPPGNVTLVDQSGHLLTQSNTSGRDL-NDAQLKFANDVESRIQRRIEAILSP 254 Query: 262 ILGPDNFTSQVDVSMDFTAVEQTAKRFNPDLPALRSEMTVENNST-----GGTTGGIPGA 316 I+G N +QV +DF EQT + ++P+ A ++ + + G GG+PGA Sbjct: 255 IVGNGNVHAQVTAQLDFANKEQTEEHYSPNGDASKATLRSRQLNISEQVGAGYPGGVPGA 314 Query: 317 LSNQPPMESDIP--------EDATNASEKVVAGNSH--------REATRNFELDTTISHT 360 LSNQP ++ P ++A N + + NS+ R T N+E+D TI HT Sbjct: 315 LSNQPAPPNEAPIATPPTNQQNAQNTPQTSTSTNSNSAGPRSTQRNETSNYEVDRTIRHT 374 Query: 361 RQQIGVVRRISVSVAVDFKPGAADENGQVARVARTEQELTNIRRLLEGAVGFSTQRGDVL 420 + +G + R+SV+V V++K A + + T ++ I L A+GFS +RGD L Sbjct: 375 KMNVGDIERLSVAVVVNYKTLADGKP-----LPLTADQMKQIEDLTREAMGFSDKRGDTL 429 Query: 421 EVVTVPFMDQLMEDIPSPELWEQPWFWRAVKLGVGALVILV----LILAVVRPMLKRLIY 476 VV PF + W+Q F + L++LV L VRP L R + Sbjct: 430 NVVNSPF-SAVDNTGGELPFWQQQSFIDQLLAAGRWLLVLVVAWILWRKAVRPQLTRRVE 488 Query: 477 PDSVNMPDDSRLGNELAEIEDQYAADTLGMLNTKEAEYSYADDGSIL---IPNLHKDDDM 533 E E+ E + D + + M Sbjct: 489 ----EAKAAQEQAQVRQETEE-------------AVEVRLSKDEQLQQRRANQRLGAEVM 531 Query: 534 IKAIRALVANEPELSTQVVKNWLQDN 559 + IR + N+P + V++ W+ ++ Sbjct: 532 SQRIREMSDNDPRVVALVIRQWMSND 557
>FLGMOTORFLIG#Flagellar motor switch protein FliG signature. Length = 344 Score = 285 bits (730), Expect = 9e-97 Identities = 111/348 (31%), Positives = 196/348 (56%), Gaps = 5/348 (1%) Query: 1 MAENKTKEAAEVSSFNVKDMSGIEKTAILLLSLSEADAASILKHLEPKQVQKVGMAMAAM 60 M E K KE +VS+ ++G +K AILL+S+ ++ + K+L ++++ + +A + Sbjct: 1 MEEKKEKEILDVSA-----LTGKQKAAILLVSIGSEISSKVFKYLSQEEIESLTFEIAKL 55 Query: 61 EDFGQEKVVGVHKLFLDDIQKYSSIGFNSEEFVRKALTAALGADKAGNLIEQIIMGSGAK 120 E E V F + + I ++ R+ L +LG KA ++I + ++ Sbjct: 56 ETITSELKDNVLLEFKELMMAQEFIQKGGIDYARELLEKSLGTQKAVDIINNLGSALQSR 115 Query: 121 GLDSLKWMDARQVATIIQNEHPQIQTIVLSYLEPDQAAEIFGQFPENTRLDLMMRIANLE 180 + ++ D + IQ EHPQ ++LSYL+P +A+ I P + ++ RIA ++ Sbjct: 116 PFEFVRRADPANILNFIQQEHPQTIALILSYLDPQKASFILSSLPTEVQTNVARRIALMD 175 Query: 181 EVQPAALQELNDIMEKQFAGQGGAQAAKMGGLKAAANIMNYLDTGIESQLMETMRESDEE 240 P ++E+ ++EK+ A GG+ I+N D E ++E++ E D E Sbjct: 176 RTSPEVVREVERVLEKKLASLSSEDYTSAGGVDNVVEIINMADRKTEKFIIESLEEEDPE 235 Query: 241 MAQQIQDLMFVFENLIDVDDRGIQILLREVQQDVLLKALKGTDDQLKEKLLGNMSKRAAE 300 +A++I+ MFVFE+++ +DDR IQ +LRE+ L KALK D ++EK+ NMSKRAA Sbjct: 236 LAEEIKKKMFVFEDIVLLDDRSIQRVLREIDGQELAKALKSVDIPVQEKIFKNMSKRAAS 295 Query: 301 LLRDDLEAMGPIRISEVEVAQKEILSIARRLSDSGEIMLGGGGGDEFL 348 +L++D+E +GP R +VE +Q++I+S+ R+L + GEI++ GG ++ L Sbjct: 296 MLKEDMEFLGPTRRKDVEESQQKIVSLIRKLEEQGEIVISRGGEEDVL 343
>FLGFLIH#Flagellar assembly protein FliH signature. Length = 228 Score = 87.9 bits (217), Expect = 1e-22 Identities = 57/192 (29%), Positives = 98/192 (51%), Gaps = 9/192 (4%) Query: 55 VEAIAPPTMAEIEYIRAQAEEEGFSEGKTQGFNEGVEKGRLEGLAQGHQEGFTQGHEQGL 114 +E P ++ ++ QA E QG+ G+ +GR +G QG+QEG QG EQGL Sbjct: 33 IEEAEPSLEQQLAQLQMQAHE--------QGYQAGIAEGRQQGHKQGYQEGLAQGLEQGL 84 Query: 115 ETGLEEAKGLINRFESLLNQFEKPLQLLDGDIELSLMTLAMALAKSVIGHELKTHPEQIL 174 + + R + L+++F+ L LD I LM +A+ A+ VIG ++ Sbjct: 85 AEAKSQQAPIHARMQQLVSEFQTTLDALDSVIASRLMQMALEAARQVIGQTPTVDNSALI 144 Query: 175 SALRLGIESLPIKEQAVTIRLHPDDVILVEKLYSAAQLARNQWQLEVDPSLSPGECIISS 234 ++ ++ P+ +R+HPDD+ V+ + A L+ + W+L DP+L PG C +S+ Sbjct: 145 KQIQQLLQQEPLFSGKPQLRVHPDDLQRVDDMLGAT-LSLHGWRLRGDPTLHPGGCKVSA 203 Query: 235 QRSLVDLSLPSR 246 +D S+ +R Sbjct: 204 DEGDLDASVATR 215
>FLGFLIJ#Flagellar FliJ protein signature. Length = 147 Score = 43.3 bits (101), Expect = 4e-08 Identities = 36/145 (24%), Positives = 72/145 (49%) Query: 1 MANADPLLLVLNLALDAEEQASLLLKSAQLECQKRQHQLNALNNYRLDYMKQMQSQQGQA 60 MA L + +LA E A+ LL + CQ+ + QL L +Y+ +Y + S Sbjct: 1 MAEHGALATLKDLAEKEVEDAARLLGEMRRGCQQAEEQLKMLIDYQNEYRNNLNSDMSAG 60 Query: 61 ISASHYHQFHRFIRQIDDAIAQQNRVVADGEKQKEYRQHHWLEKQKKRKAVELLLANKAK 120 I+++ + + +FI+ ++ AI Q + + ++ + + W EK+++ +A + L ++ Sbjct: 61 ITSNRWINYQQFIQTLEKAITQHRQQLNQWTQKVDIALNSWREKKQRLQAWQTLQERQST 120 Query: 121 KRDALELKREQKMTDEFASQQCYRR 145 E + +QK DEFA + R+ Sbjct: 121 AALLAENRLDQKKMDEFAQRAAMRK 145
>FLGHOOKFLIK#Flagellar hook-length control protein signature. Length = 375 Score = 53.7 bits (128), Expect = 7e-10 Identities = 43/162 (26%), Positives = 68/162 (41%), Gaps = 7/162 (4%) Query: 313 EVASEFKPVSVTTSPTQPQVNRQDIPQIQLSLRQGVETPNQMQEMIQRFSPVMKQQLITM 372 EV S PV+ SP Q +P + + + P E Q S Q + Sbjct: 199 EVISTPSPVTAAASPLITPHQTQPLPTVAAPV---LSAPLGSHEWQQSLS----QHISLF 251 Query: 373 VSNGIQHAEIRLDPPELGHMTVKIQVHGDQTQVQFHVTQSQTRDMVEQAIPRLRELLQEQ 432 G Q AE+RL P +LG + + ++V +Q Q+Q R +E A+P LR L E Sbjct: 252 TRQGQQSAELRLHPQDLGEVQISLKVDDNQAQIQMVSPHQHVRAALEAALPVLRTQLAES 311 Query: 433 GMQLADSHVSQGEQEQGRDGGFGESNGSGSTNLDEFSAEELD 474 G+QL S++S + + + N + + E+ D Sbjct: 312 GIQLGQSNISGESFSGQQQAASQQQQSQRTANHEPLAGEDDD 353
>FLGMOTORFLIM#Flagellar motor switch protein FliM signature. Length = 344 Score = 248 bits (634), Expect = 2e-82 Identities = 87/326 (26%), Positives = 166/326 (50%), Gaps = 10/326 (3%) Query: 1 MSDLLSQDEIDALLHGVD--DVDDDDDLD-AASQDARSYDFSSQDRIVRGRMPTLEIVNE 57 M+++LSQDEID LL + D +D + ++ YDF D+ + +M TL +++E Sbjct: 1 MTEVLSQDEIDQLLTAISSGDASIEDARPISDTRKITLYDFRRPDKFSKEQMRTLSLMHE 60 Query: 58 RFARHLRISMFNMMRRAAEVSINGVQMLKFGEYVHTLFVPTSLNMVRFSPLKGTALITME 117 FAR S+ +R V + V L + E++ ++ P++L ++ PLKG A++ ++ Sbjct: 61 TFARLTTTSLSAQLRSMVHVHVASVDQLTYEEFIRSIPTPSTLAVITMDPLKGNAVLEVD 120 Query: 118 ARLVFILVDNFFGGDGRFHAKIEGREFTPTERRIVQLLLKIIFEDYKDAWAPVMDVEFDY 177 + F ++D FGG G+ R+ T E +++ ++ I + +++W V+D+ Sbjct: 121 PSITFSIIDRLFGGTGQAAKVQ--RDLTDIENSVMEGVIVRILANVRESWTQVIDLRPRL 178 Query: 178 LDSEVNPAMANIVSPTEVVVINSFHIEVDGGGGDFHITMPYSMIEPIRELLDAG--VQSD 235 E NP A IV P+E+VV+ + +V G + +PY IEPI L + S Sbjct: 179 GQIETNPQFAQIVPPSEMVVLVTLETKVGEEEGMMNFCIPYITIEPIISKLSSQFWFSSV 238 Query: 236 KQDTDMRWSQALHDEIMDVKVGFDACVVEHELTLKDVMNFKAGDIIPVE---LPEYIMMK 292 ++ + ++ L D++ V + A V L+++D++ + GDII + + + ++ Sbjct: 239 RRSSTTQYMGVLRDKLSTVDMDVVAEVGSLRLSVRDILGLRVGDIIRLHDTHVGDPFVLS 298 Query: 293 IEDLPTYRCKMGRSRDNLALKIYEKI 318 I + + C+ G +A +I E+I Sbjct: 299 IGNRKKFLCQPGVVGKKIAAQILERI 324
>FLGMOTORFLIN#Flagellar motor switch protein FliN signature. Length = 137 Score = 111 bits (278), Expect = 1e-34 Identities = 58/128 (45%), Positives = 85/128 (66%), Gaps = 3/128 (2%) Query: 2 STEDTG---DDWAAAMAEQALEEANAVALDELVDDSQPISKADAAKLDTILDIPVTISME 58 S E+TG D WA A+ EQ + A +D I+DIPV +++E Sbjct: 8 SDENTGALDDLWADALNEQKATTTKSAADAVFQQLGGGDVSGAMQDIDLIMDIPVKLTVE 67 Query: 59 VGRSFISIRNLLQLNQGSVVELDRVAGEPLDVMVNGTLIAHGEVVVVNDKFGIRLTDVIS 118 +GR+ ++I+ LL+L QGSVV LD +AGEPLD+++NG LIA GEVVVV DK+G+R+TD+I+ Sbjct: 68 LGRTRMTIKELLRLTQGSVVALDGLAGEPLDILINGYLIAQGEVVVVADKYGVRITDIIT 127 Query: 119 QTERIKKL 126 +ER+++L Sbjct: 128 PSERMRRL 135
>FLGBIOSNFLIP#Escherichia coli: Flagellar biosynthetic protein FliP signature. Length = 245 Score = 276 bits (707), Expect = 3e-96 Identities = 120/240 (50%), Positives = 176/240 (73%) Query: 8 LIGLAILFFSVSVGAADGVLPAVTVKTAADGSTEYSVTMQILLLMTSLSFLPAMVIMLTS 67 L+ +A + + A LP +T + G +S+ +Q L+ +TSL+F+PA+++M+TS Sbjct: 4 LLSVAPVLLWLITPLAFAQLPGITSQPLPGGGQSWSLPVQTLVFITSLTFIPAILLMMTS 63 Query: 68 FTRIIVVLSILRQAIGLQQTPSNQVLIGMSLFMTFFIMAPVFDKIYDQGVKPYIDEQLTL 127 FTRII+V +LR A+G P NQVL+G++LF+TFFIM+PV DKIY +P+ +E++++ Sbjct: 64 FTRIIIVFGLLRNALGTPSAPPNQVLLGLALFLTFFIMSPVIDKIYVDAYQPFSEEKISM 123 Query: 128 QQAFDKGKEPLRAFMLGQVRTTDLKTFIDISGYQNINSPEEAPMSVLVPAFITSELKTAF 187 Q+A +KG +PLR FML Q R DL F ++ + PE PM +L+PA++TSELKTAF Sbjct: 124 QEALEKGAQPLREFMLRQTREADLGLFARLANTGPLQGPEAVPMRILLPAYVTSELKTAF 183 Query: 188 QIGFMLFVPFLVLDLVVASILMAMGMMMLSPMIVSLPFKIMLFVLVDGWGLVLGTLANSF 247 QIGF +F+PFL++DLV+AS+LMA+GMMM+ P ++LPFK+MLFVLVDGW L++G+LA SF Sbjct: 184 QIGFTIFIPFLIIDLVIASVLMALGMMMVPPATIALPFKLMLFVLVDGWQLLVGSLAQSF 243
>TYPE3IMQPROT#Type III secretion system inner membrane Q protein family signature. Length = 86 Score = 46.7 bits (111), Expect = 1e-10 Identities = 20/73 (27%), Positives = 37/73 (50%) Query: 4 EALIDIFREALAVIVMMVSAIVLPGLGIGLVVAVFQAATSINEQTLSFLPRLLVTLFGLM 63 + L+ +AL +++++ + IGL+V +FQ T + EQTL F +LL L Sbjct: 2 DDLVFAGNKALYLVLILSGWPTIVATIIGLLVGLFQTVTQLQEQTLPFGIKLLGVCLCLF 61 Query: 64 FMGHWLVQTLMDF 76 + W + L+ + Sbjct: 62 LLSGWYGEVLLSY 74
>TYPE3IMRPROT#Type III secretion system inner membrane R protein family signature. Length = 261 Score = 122 bits (309), Expect = 5e-36 Identities = 93/243 (38%), Positives = 143/243 (58%), Gaps = 1/243 (0%) Query: 15 YMWPLFRVASMLMVMVVFGAATTPARVRLLLAMAITFAIAPVLPPVENADLFSLSAVFIT 74 Y WPL RV +++ + + P RV+L LAM ITFAIAP LP + +FS A+++ Sbjct: 16 YFWPLLRVLALISTAPILSERSVPKRVKLGLAMMITFAIAPSLP-ANDVPVFSFFALWLA 74 Query: 75 AQQIIIGVAMGFVSQMVMQTFVLTGQIIGMQTSLGFASMVDPGSGQQTPVIGNFFLLLAT 134 QQI+IG+A+GF Q G+IIG+Q L FA+ VDP S PV+ +LA Sbjct: 75 VQQILIGIALGFTMQFAFAAVRTAGEIIGLQMGLSFATFVDPASHLNMPVLARIMDMLAL 134 Query: 135 LIFLAVDGHLLMIRMLVASFETLPISNQGLTLTSYRSLAEWGSYMFGAALTMSISAIIAL 194 L+FL +GHL +I +LV +F TLPI + L ++ +L + GS +F L +++ I L Sbjct: 135 LLFLTFNGHLWLISLLVDTFHTLPIGGEPLNSNAFLALTKAGSLIFLNGLMLALPLITLL 194 Query: 195 LLVNLSFGVMTRAAPQLNIFSIGFPITMIGGLLILWLTLTPVMAHFDEVWAAAQVLLCDI 254 L +NL+ G++ R APQL+IF IGFP+T+ G+ ++ + + + +++ LL DI Sbjct: 195 LTLNLALGLLNRMAPQLSIFVIGFPLTLTVGISLMAALMPLIAPFCEHLFSEIFNLLADI 254 Query: 255 LGL 257 + Sbjct: 255 ISE 257
>TYPE3IMSPROT#Type III secretion system inner membrane S protein family signature. Length = 354 Score = 335 bits (861), Expect = e-116 Identities = 95/347 (27%), Positives = 177/347 (51%), Gaps = 2/347 (0%) Query: 6 SGERSEEPTGRRLEQAREKGQVARSKELGTAAVLLSAATGFYMLGPGIATALSHVFERVF 65 SGE++E+PT +++ AR+KGQVA+SKE+ + A++++ + L S + + Sbjct: 2 SGEKTEQPTPKKIRDARKKGQVAKSKEVVSTALIVALSAMLMGLSDYYFEHFSKLM--LI 59 Query: 66 TMDRAQIYDTNQMFNVWGLVAGEIAWPMLKIMLLIVVVAFIGNVSLGGMNFSTQAMMPKA 125 +++ + + + V V E + ++ + ++A +V G S +A+ P Sbjct: 60 PAEQSYLPFSQALSYVVDNVLLEFFYLCFPLLTVAALMAIASHVVQYGFLISGEAIKPDI 119 Query: 126 SKMSPLAGFKRMFGVQALVELTKGIAKFSVVAFSAYFLLSYYFNDILLLSSDHLPGNVHH 185 K++P+ G KR+F +++LVE K I K +++ + ++ +L L + + Sbjct: 120 KKINPIEGAKRIFSIKSLVEFLKSILKVVLLSILIWIIIKGNLVTLLQLPTCGIECITPL 179 Query: 186 ALDLLIWMFILLCSSVLLIVVIDVPFQIWNHNKQLKMTKQEVKDEYKDTEGKPEVKGRVR 245 +L + ++ ++I + D F+ + + K+LKM+K E+K EYK+ EG PE+K + R Sbjct: 180 LGQILRQLMVICTVGFVVISIADYAFEYYQYIKELKMSKDEIKREYKEMEGSPEIKSKRR 239 Query: 246 QMQRELAQRRMMAEVPNADVIVVNPEHYAVAVKYDVKRSAAPFVIAKGVDDVAFKIREVA 305 Q +E+ R M V + V+V NP H A+ + Y + P V K D +R++A Sbjct: 240 QFHQEIQSRNMRENVKRSSVVVANPTHIAIGILYKRGETPLPLVTFKYTDAQVQTVRKIA 299 Query: 306 REYNIAIVSAPPLARAIYHTTKLDQQIPEGLFTAVAQVLAYVFQLRQ 352 E + I+ PLARA+Y +D IP A A+VL ++ + Sbjct: 300 EEEGVPILQRIPLARALYWDALVDHYIPAEQIEATAEVLRWLERQNI 346
>PF05272#Virulence-associated E family protein Length = 892 Score = 30.0 bits (67), Expect = 0.023 Identities = 8/21 (38%), Positives = 11/21 (52%) Query: 244 GVVALVGPTGVGKTTSLAKLA 264 V L G G+GK+T + L Sbjct: 597 YSVVLEGTGGIGKSTLINTLV 617
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 88.0 bits (218), Expect = 9e-24 Identities = 33/105 (31%), Positives = 51/105 (48%), Gaps = 3/105 (2%) Query: 2 KILIVDDFSTMRRIIKNLLRDLGFNNTQEADDGSTALPMLQKGDFDFVVTDWNMPGMQGI 61 IL+ DD + +R ++ L G++ + +T + GD D VVTD MP Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRI-TSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63 Query: 62 DLLRAIRADDSLKHLPVLMVTAEAKREQIIAAAQAGVNGYVVKPF 106 DLL I+ LPVL+++A+ I A++ G Y+ KPF Sbjct: 64 DLLPRIKKAR--PDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPF 106
>PF06580#Sensor histidine kinase Length = 349 Score = 46.4 bits (110), Expect = 2e-07 Identities = 28/182 (15%), Positives = 54/182 (29%), Gaps = 68/182 (37%) Query: 431 TLNKEIDLVM---------IGEETDLDKNLVEALADPLVH------LVRNSVDHGIEMPN 475 +L E+ +V + + + A+ D V LV N + HGI Sbjct: 217 SLADELTVVDSYLQLASIQFEDRLQFENQINPAIMDVQVPPMLVQTLVENGIKHGIA--- 273 Query: 476 EREASGKPRTGTITLSASQEGDHILLKIEDDGAGMDPEKLKQIAIKRGVLDDDAAARMTD 535 P+ G I L +++ + L++E+ G+ Sbjct: 274 -----QLPQGGKILLKGTKDNGTVTLEVENTGSLALKN---------------------- 306 Query: 536 TEAYNLIFAPGFSTKVEISDISGRGVGMDVVKTRIAQLNG---TVHIDSMKGKGTVLEIK 592 G G+ V+ R+ L G + + +GK + + Sbjct: 307 -------------------TKESTGTGLQNVRERLQMLYGTEAQIKLSEKQGKVNAM-VL 346 Query: 593 VP 594 +P Sbjct: 347 IP 348
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 64.5 bits (157), Expect = 2e-13 Identities = 28/135 (20%), Positives = 56/135 (41%), Gaps = 7/135 (5%) Query: 2 AIKVLVVDDSSFFRRRVSEIVNQDPELEVIATASNGAEAVKMAAELNPQVITMDIEMPVM 61 +LV DD + R +++ +++ + SN A + A + ++ D+ MP Sbjct: 3 GATILVADDDAAIRTVLNQALSR--AGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDE 60 Query: 62 DGITAVREIMAKCP-TPILMFSSLTHDGAKATLDALDAGALDFLPKRF--EDIATNKDDA 118 + + I P P+L+ S+ + + A + GA D+LPK F ++ A Sbjct: 61 NAFDLLPRIKKARPDLPVLVMSA--QNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRA 118 Query: 119 ILLLQQRVKALGRRR 133 + ++R L Sbjct: 119 LAEPKRRPSKLEDDS 133
>TYPE3IMSPROT#Type III secretion system inner membrane S protein family signature. Length = 354 Score = 57.5 bits (139), Expect = 3e-13 Identities = 20/98 (20%), Positives = 38/98 (38%), Gaps = 9/98 (9%) Query: 6 NKTKQAVALSYDRKH--APKIVATGEGLIAEEIIALAKESGVYIHQDAHLSNFL-RLLEL 62 N T A+ + Y R P + + + +A+E GV I Q L+ L + Sbjct: 263 NPTHIAIGILYKRGETPLPLVTFKYTDAQVQTVRKIAEEEGVPILQRIPLARALYWDALV 322 Query: 63 GEEIPKELYILIAELIAFVYMLDGKFPEQWNNMHQKIV 100 IP E AE++ ++ + + H +++ Sbjct: 323 DHYIPAEQIEATAEVLRWLERQNIE------KQHSEML 354
>VACCYTOTOXIN#Helicobacter pylori vacuolating cytotoxin signature. Length = 1291 Score = 29.6 bits (66), Expect = 0.044 Identities = 21/106 (19%), Positives = 38/106 (35%), Gaps = 7/106 (6%) Query: 245 SNATTINISPSLSAQSTSVAASSMTPTLDATNLGQATTKANANN---TQANAQTGQSITA 301 S I P + S T +A N Q +++ N+N N+ I Sbjct: 318 SAGLNIIAPPEGGYKDKPNDKPSNTTQNNAKNDKQESSQNNSNTQVINPPNSAQKTEIQP 377 Query: 302 PRLPLGSLP--PTTEQNIT--NTATNISLQNSSLIAATISQSAHVT 343 ++ G T NI NT + +++ A+ + +AH+ Sbjct: 378 TQVIDGPFAGGKNTVVNINRINTNADGTIRVGGFKASLTTNAAHLH 423
>VACJLIPOPROT#VacJ lipoprotein signature. Length = 251 Score = 234 bits (598), Expect = 2e-79 Identities = 95/264 (35%), Positives = 139/264 (52%), Gaps = 19/264 (7%) Query: 1 MKLKWIGLSLGFVLLPQAYGAEVSVPDTTSQDITAVTITYDDPRDPFEGFNRAMWDFNYL 60 MKL+ L+LG LL + T Q + DP EGFNR M++FN+ Sbjct: 1 MKLRLSALALGTTLL-----VGCASSGTDQQGRS----------DPLEGFNRTMYNFNFN 45 Query: 61 YLDKYLYRPVAHGYNDYIPRPAKTGINNFVQNLEEPSSLVNNVLQGKWGWAANAGGRFTV 120 LD Y+ RPVA + DY+P+PA+ G++NF NLEEP+ +VN LQG RF + Sbjct: 46 VLDPYIVRPVAVAWRDYVPQPARNGLSNFTGNLEEPAVMVNYFLQGDPYQGMVHFTRFFL 105 Query: 121 NSTIGLLGVFDVADMMGMPRK---QDAFNEVLGYYGVPNGPYFMAPFAGPYVVRELATDW 177 N+ +G+ G DVA M + F LG+YGV GPY PF G + +R+ D Sbjct: 106 NTILGMGGFIDVAGMANPKLQRTEPHRFGSTLGHYGVGYGPYVQLPFYGSFTLRDDGGDM 165 Query: 178 VDGLYFPLSELTMWQSVVRWGLKSLHARASAIDQERLVDNALDPYAFVKDAYLQHMDYKV 237 D LY LS LT SV +W L+ + RA +D + L+ + DPY V++AY Q D+ Sbjct: 166 ADALYPVLSWLTWPMSVGKWTLEGIETRAQLLDSDGLLRQSSDPYIMVREAYFQRHDFIA 225 Query: 238 YDGNV-PQKQEDDELLDQYMQELD 260 G + PQ+ + + + ++++D Sbjct: 226 NGGELKPQENPNAQAIQDDLKDID 249
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 97.6 bits (243), Expect = 2e-24 Identities = 41/154 (26%), Positives = 67/154 (43%), Gaps = 2/154 (1%) Query: 7 SILLVEDDPVFRQIVATFLSGRGADVAQASDGEQGLSVFKQQRFDIVLADLSMPKLGGLD 66 +IL+ +DD R ++ LS G DV S+ D+V+ D+ MP D Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64 Query: 67 MLKEMTKLEPLIPSIVISGNNVMADVVEALRIGASDYLVKPVSDLFIIEQAIRQALHKIL 126 +L + K P +P +V+S N ++A GA DYL KP +I I +AL + Sbjct: 65 LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIG-IIGRALAE-P 122 Query: 127 GDEPIQAEIDALSRQELSDNLALLEQSVEAAKQV 160 P + E D+ L A +++ ++ Sbjct: 123 KRRPSKLEDDSQDGMPLVGRSAAMQEIYRVLARL 156
>NUCEPIMERASE#Nucleotide sugar epimerase signature. Length = 334 Score = 174 bits (442), Expect = 9e-54 Identities = 81/361 (22%), Positives = 147/361 (40%), Gaps = 51/361 (14%) Query: 1 MKILVTGGAGFIGSAVVRHIIGNTQDSVVNVDKLT--YAGNLESLT-SVANNARYTFEKV 57 MK LVTG AGFIG V + ++ VV +D L Y +L+ + + F K+ Sbjct: 1 MKYLVTGAAGFIGFHVSKRLLEAG-HQVVGIDNLNDYYDVSLKQARLELLAQPGFQFHKI 59 Query: 58 DICDRAELDRVFLQHQPDAVMHLAAESHVDRSITGPSDFIQTNIVGTYMLLEAARNYWMQ 117 D+ DR + +F + V V S+ P + +N+ G +LE R+ +Q Sbjct: 60 DLADREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFLNILEGCRHNKIQ 119 Query: 118 LDTERKSAFRFHHISTDEVYGDLPHPDEQEGQVVNQELPLFTENTPYAPSSPYSASKASS 177 + S+ VYG N+++P T+++ P S Y+A+K ++ Sbjct: 120 ---------HLLYASSSSVYGL------------NRKMPFSTDDSVDHPVSLYAATKKAN 158 Query: 178 DHLVRAWLRTYGLPTIVTNCSNNYGPYHFPEKLIPLVILNALEGKLLPIYGKGDQIRDWL 237 + + + YGLP YGP+ P+ + LEGK + +Y G RD+ Sbjct: 159 ELMAHTYSHLYGLPATGLRFFTVYGPWGRPDMALFKFTKAMLEGKSIDVYNYGKMKRDFT 218 Query: 238 YVEDHARALYKVV------------------TEGKIGETYNIGGHNEKQNLEVVQTICSI 279 Y++D A A+ ++ YNIG + + ++ +Q + Sbjct: 219 YIDDIAEAIIRLQDVIPHADTQWTVETGTPAASIAPYRVYNIGNSSPVELMDYIQALEDA 278 Query: 280 LDSLVPKATPYAEQITYVTDRPGHDRRYAIDARKMSNDLNWRPQETFETGLRKTIEWYLA 339 L +A + + +PG + D + + + + P+ T + G++ + WY Sbjct: 279 LG---IEA-----KKNMLPLQPGDVLETSADTKALYEVIGFTPETTVKDGVKNFVNWYRD 330 Query: 340 N 340 Sbjct: 331 F 331
>adhesinmafb#Neisseria meningitidis: adhesin MafB signature. Length = 467 Score = 25.4 bits (55), Expect = 0.040 Identities = 9/44 (20%), Positives = 16/44 (36%) Query: 54 AGFSGSLVVADFDSLASAQAWANADPYFAAGVYQSVVVKPFKRV 97 G GS+ + ++ + W +P A V V +V Sbjct: 279 IGGLGSVAGFEKNTREAVDRWIQENPNAAETVEAVFNVAAAAKV 322
>2FE2SRDCTASE#Ferric iron reductase signature. Length = 262 Score = 108 bits (272), Expect = 1e-29 Identities = 70/238 (29%), Positives = 95/238 (39%), Gaps = 67/238 (28%) Query: 129 KALHSLWGQWYFGLLVPPIMEWIFNAPKAIFEPIHWQPQSIFMQVHPSGRVAKFEFNLAK 188 K L SLW QWY GL+VPP+M + KA+ P+ + H +GRVA F ++ + Sbjct: 89 KPLISLWAQWYIGLMVPPLMLALLTQEKAL----DVSPEHFHAEFHETGRVACFWVDVCE 144 Query: 189 RQPNTALTFKKHHGIEPLSQTNTKPSFKTDSKVHSPLTPHKPPVDKELALQGLILNLLQP 248 + T PH P E LI L P Sbjct: 145 DKNAT---------------------------------PHSPQHRMET----LISQALVP 167 Query: 249 SVERLLTLSPTPAKLYWSHLGYLIHWYLGELG--LSQQQNQRLKQALFRQATFQDGSINP 306 V+ L KL WS+ GYLI+WYL E+ L + + L+ ALF + T +G NP Sbjct: 168 VVQALEATGEINGKLIWSNTGYLINWYLTEMKQLLGEATVESLRHALFFEKTLTNGEDNP 227 Query: 307 LYNSINLFIDTEQSNANSNTKTSVKTNSKPGPKISCIRRTCCLRYQLANTGQCHDCPL 364 L+ ++ L RRTCC RY+L + QC DC L Sbjct: 228 LWRTVVLRDGLLV------------------------RRTCCQRYRLPDVQQCGDCTL 261
>PRTACTNFAMLY#Pertactin virulence factor family signature. Length = 910 Score = 31.2 bits (70), Expect = 0.021 Identities = 31/130 (23%), Positives = 43/130 (33%), Gaps = 21/130 (16%) Query: 224 DSGSVRGRVVAAYQDKDSFQDRYEQQRTTLYGIVETDIGDSTLFTLGVDYQDATPSGTMS 283 D+G GR A Q D+ R Q + G F LG D+ A G Sbjct: 645 DAGGAWGRGFAQRQQLDNRAGRRFDQ--KVAG-----------FELGADHAVAVAGGRWH 691 Query: 284 GGLPLFYSDGSRTNYDRATSTAPDWGSAHTQGLNTFASLEHRLDNGWNLKGTYTYGDNSL 343 G Y+ G R G HT ++ + D+G+ L T Sbjct: 692 LGGLAGYTRGDRG--------FTGDGGGHTDSVHVGGYATYIADSGFYLDATLRASRLEN 743 Query: 344 EFDVLWATGY 353 +F V + GY Sbjct: 744 DFKVAGSDGY 753
>PF04183#IucA / IucC family Length = 580 Score = 619 bits (1597), Expect = 0.0 Identities = 165/593 (27%), Positives = 293/593 (49%), Gaps = 22/593 (3%) Query: 42 LTPAYWQAANRHLVKKILCEFTHEKLITPTLYGQKTGLNHYELRLKDSTYYFSARHYQLD 101 + W NR LV K+L E +E++ + G + Y + L + + F A Sbjct: 1 MNHKDWDLVNRRLVAKMLSELEYEQVFHA----ESQGDDRYCINLPGAQWRFIAERGIWG 56 Query: 102 HLAIDADTIRVSLAGKEQTLDAMSLIISLKNDLGISETLLPTYLEEITSTLYSKAYKL-A 160 L IDA T+R + ++ + A +L++ LK L +S+ + +++++ +TL L A Sbjct: 57 WLWIDAQTLRCA----DEPVLAQTLLMQLKQVLSMSDATVAEHMQDLYATLLGDLQLLKA 112 Query: 161 HQAIPAATLARADYQSIEAGMTEGHPVFIANNGRIGFDMQDYRQFAPESAMPMQLVWLGV 220 + + A+ L + ++ + GHP F+ N GR G+ + ++APE A +L WL V Sbjct: 113 RRGLSASDLINLNADRLQC-LLSGHPKFVFNKGRRGWGKEALERYAPEYANTFRLHWLAV 171 Query: 221 RKNKTTFAALENLSHDALLKEELG-QQFDDFQQHLKTKQHDPQDFYFMPVHPWQWREKIA 279 ++ + + LL + Q+F F Q + D ++ +PVHPWQW++KIA Sbjct: 172 KREHMIWRCDNEMDIHQLLTAAMDPQEFARFSQVWQENGLD-HNWLPLPVHPWQWQQKIA 230 Query: 280 RVFAGDIARGDLVYLGEGSEQYQVQQSIRTFFNLASPQKCYVKTALSILNMGFMRGLSPL 339 F D A G +V LGE +Q+ QQS+RT N + +K L+I N RG+ Sbjct: 231 TDFIADFAEGRMVSLGEFGDQWLAQQSLRTLTNASRRGGLDIKLPLTIYNTSCYRGIPGR 290 Query: 340 YMSCTPQINAWVANLVENDPYFAQQGFVILKEIAAIGYHHTYYEQALTQDSAYKKMLSAL 399 Y++ P + W+ + D Q G VIL E AA H Y Y++ML + Sbjct: 291 YIAAGPLASRWLQQVFATDATLVQSGAVILGEPAAGYVSHEGYAALARAPYRYQEMLGVI 350 Query: 400 WRESPLPHIEPKQNLMTMAALLHTDHEDKALIAALIVASGLPAKDWVSRYLNLYLSPLLH 459 WRE+P ++P ++ + MA L+ D ++ L A I SGL A+ W+++ + + PL H Sbjct: 351 WRENPCRWLKPDESPVLMATLMECDENNQPLAGAYIDRSGLDAETWLTQLFRVVVVPLYH 410 Query: 460 AFFAYDLVFMPHGENLILVLDEYVPVKILMKDIGEEVAVLNG----AKPLPDDVKRLAVS 515 Y + + HG+N+ L + E VP ++L+KD ++ ++ LP +V+ + Sbjct: 411 LLCRYGVALIAHGQNITLAMKEGVPQRVLLKDFQGDMRLVKEEFPEMDSLPQEVRDVTSR 470 Query: 516 LEEEMKLNYILLDIFDCIFRYLAPLLDEQTSVSESQFWELVADNVRDYQAQHPHLADKFS 575 L + ++ + F + R+++PL+ + V E +F++L+A + DY +HP ++++F+ Sbjct: 471 LSADYLIHDLQTGHFVTVLRFISPLMV-RLGVPERRFYQLLAAVLSDYMKKHPQMSERFA 529 Query: 576 QYDLFKDSFVRTCLNRIQLNNNQQMIDLADREKNL-RFAGGIDNPLAAFRQSH 627 + LF+ +R LN ++L DL + L + + NPL Q + Sbjct: 530 LFSLFRPQIIRVVLNPVKL----TWPDLDGGSRMLPNYLEDLQNPLWLVTQEY 578
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 63.3 bits (154), Expect = 7e-14 Identities = 27/130 (20%), Positives = 53/130 (40%), Gaps = 2/130 (1%) Query: 3 RIAIVEDEAAIRENYKDVLQQHGYSVQTYADRPSAMLAFNTRLPDLAIIDIGLGNEIDGG 62 I + +D+AAIR L + GY V+ ++ + DL + D+ + +E Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDE--NA 62 Query: 63 FMLCQSLRAMSNTLPIIFLTARDSDFDTVCGLRLGADDYLSKEVSFPHLTARLAALFRRS 122 F L ++ LP++ ++A+++ + GA DYL K L + Sbjct: 63 FDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEP 122 Query: 123 ELAASQTPQE 132 + S+ + Sbjct: 123 KRRPSKLEDD 132
>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein signature. Length = 347 Score = 39.4 bits (92), Expect = 2e-05 Identities = 24/81 (29%), Positives = 41/81 (50%), Gaps = 11/81 (13%) Query: 192 AAKRAGFIDVAFLFEPLAAGMDYEASLIDNQTVLVVDVGGGTTDCSVVKMGPAHKANLDR 251 +A+ AG +V + EP+AA + + + +VVD+GGGTT+ +V+ + Sbjct: 129 SAQGAGAREVFLIEEPMAAAIGAGLPVSEATGSMVVDIGGGTTEVAVISLN--------- 179 Query: 252 AADCLGHSGQRIGGNDLDIAL 272 + S RIGG+ D A+ Sbjct: 180 --GVVYSSSVRIGGDRFDEAI 198
>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein signature. Length = 347 Score = 30.1 bits (68), Expect = 0.024 Identities = 16/36 (44%), Positives = 24/36 (66%) Query: 137 NLVIDIGGGSTEVVLGQKNTPTHLSSLRCGCVSFNE 172 ++V+DIGGG+TEV + N + SS+R G F+E Sbjct: 161 SMVVDIGGGTTEVAVISLNGVVYSSSVRIGGDRFDE 196
>TCRTETB#Tetracycline resistance protein TetB signature. Length = 458 Score = 61.4 bits (149), Expect = 2e-12 Identities = 39/184 (21%), Positives = 83/184 (45%), Gaps = 2/184 (1%) Query: 14 RDTRLMWALCVASVVVYINLYLMQGMLPLIAEHFAVSGSKATLILSVTSFSLAFSLLIYA 73 R +++ LC+ S +N ++ LP IA F + + + + + +Y Sbjct: 11 RHNQILIWLCILSFFSVLNEMVLNVSLPDIANDFNKPPASTNWVNTAFMLTFSIGTAVYG 70 Query: 74 VISDRIGRHAPIVVSLWLLALSNLL-LIWTPDFNGLLLVRLLQGVVLAAVPAIAMAYFKE 132 +SD++G ++ + + +++ + F+ L++ R +QG AA PA+ M Sbjct: 71 KLSDQLGIKRLLLFGIIINCFGSVIGFVGHSFFSLLIMARFIQGAGAAAFPALVMVVVAR 130 Query: 133 QLSPSTMLKAAGIYIMANSIGGIVGRLLGGMMSQFLSWQASMWLLFLVTLAGVALTSYLL 192 + KA G+ ++G VG +GGM++ ++ W + + L+ ++T+ V LL Sbjct: 131 YIPKENRGKAFGLIGSIVAMGEGVGPAIGGMIAHYIHW-SYLLLIPMITIITVPFLMKLL 189 Query: 193 PSGA 196 Sbjct: 190 KKEV 193
>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase signature. Length = 261 Score = 82.8 bits (204), Expect = 2e-20 Identities = 53/204 (25%), Positives = 84/204 (41%), Gaps = 19/204 (9%) Query: 6 KVALITGAGSGLGRAYAIMLAERGAKVVLIDQPTVHCAEVSTDAQSVTHSINDNLNQTYD 65 K+A ITGA G+G A A LA +GA + +D + L + Sbjct: 9 KIAFITGAAQGIGEAVARTLASQGAHIAAVDYNP------------------EKLEKVVS 50 Query: 66 SIIKLGCDCLQFVLDVSDKAAVDRMVDTVAKSWQRIDILINNAGIYGACAFERITPEQWQ 125 S+ F DV D AA+D + + + IDIL+N AG+ ++ E+W+ Sbjct: 51 SLKAEARHAEAFPADVRDSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWE 110 Query: 126 RQLDVDLNGSFYLTQAVWPLMKLQNYGRIVMTTGVSGLFGDLHQVGFSAAKMALVGMVNS 185 V+ G F +++V M + G IV ++++K A V Sbjct: 111 ATFSVNSTGVFNASRSVSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKC 170 Query: 186 LSIEGEMHNIRVNSLCPQAV-TAM 208 L +E +NIR N + P + T M Sbjct: 171 LGLELAEYNIRCNIVSPGSTETDM 194
>ARGREPRESSOR#Bacterial arginine repressor signature. Length = 149 Score = 27.9 bits (62), Expect = 0.006 Identities = 9/30 (30%), Positives = 17/30 (56%) Query: 7 LLEAIKAEHQITTQNELVALLSQNELLIQQ 36 + I ++I TQ+ELV +L ++ + Q Sbjct: 9 KIREIITANEIETQDELVDILKKDGYNVTQ 38
>SACTRNSFRASE#Streptothricin acetyltransferase signature. Length = 173 Score = 29.5 bits (66), Expect = 0.004 Identities = 23/112 (20%), Positives = 35/112 (31%), Gaps = 6/112 (5%) Query: 20 LLLQLGYSSTQEQLQMYLEKSERTDE-IYIAEEKGNIIGLISLLFFDYFPAQQQICRITA 78 Y E M + E + ++ + N IG I + I Sbjct: 40 ERFSKPYFKQYEDDDMDVSYVEEEGKAAFLYYLENNCIGRIKIR-----SNWNGYALIED 94 Query: 79 LIVTQACRGLGVGTQLINFAKARANEQGCHQLEVTTSMRREKTQAYYEAIGF 130 + V + R GVGT L++ A A E L + T +Y F Sbjct: 95 IAVAKDYRKKGVGTALLHKAIEWAKENHFCGLMLETQDINISACHFYAKHHF 146
>ACRIFLAVINRP#Acriflavin resistance protein family signature. Length = 1034 Score = 841 bits (2174), Expect = 0.0 Identities = 321/1035 (31%), Positives = 551/1035 (53%), Gaps = 30/1035 (2%) Query: 3 LTDLSVKRPVFASVISLLVVAFGLVSFDKLPLREYPNIDPPIVSIETNYRGASAAVVESR 62 + + ++RP+FA V++++++ G ++ +LP+ +YP I PP VS+ NY GA A V+ Sbjct: 1 MANFFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDT 60 Query: 63 ITQLIEDRISGVEGIRHVSSSS-SDGRSSVTLEFDISRNIEDAANDVRDRISGLLDNLPE 121 +TQ+IE ++G++ + ++SS+S S G ++TL F + + A V++++ LP+ Sbjct: 61 VTQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQ 120 Query: 122 EADPPEVQKANGGDEVIMWLNLVSD--NMTTLELTDYTNRYLSDRLSVVDGVARIRIGGG 179 E + +M VSD T +++DY + D LS ++GV +++ G Sbjct: 121 EVQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFGA 180 Query: 180 KVYAMRIWLDRQALASRSLTVADVEAALRAENVELPAGSI------ESKERHFTVRLERS 233 + YAMRIWLD L LT DV L+ +N ++ AG + ++ + ++ + Sbjct: 181 Q-YAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTR 239 Query: 234 YRTAEDFANLVLTQGNDGYLVKLGDVAKVEIGSEEERIMFRGNKEAMIGLGVSKQSTANT 293 ++ E+F + L +DG +V+L DVA+VE+G E ++ R N + GLG+ + AN Sbjct: 240 FKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGANA 299 Query: 294 LEVARAVNALIDKINPTLPAGMSIKRSYDSSVFIEASIKEVYQTLFIAMILVIIVIYLFL 353 L+ A+A+ A + ++ P P GM + YD++ F++ SI EV +TLF A++LV +V+YLFL Sbjct: 300 LDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVMYLFL 359 Query: 354 GSARAMLIPAITVPVSLLGTFIVLYALGYTINLLTLLAMILAIGMVVDDAIVMLENIHRR 413 + RA LIP I VPV LLGTF +L A GY+IN LT+ M+LAIG++VDDAIV++EN+ R Sbjct: 360 QNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERV 419 Query: 414 I-EEGDSPLKAAYLGAREVAFAVIATTLVLVSVFMPITFLEGDLGKLFKEFAVAMSAAVI 472 + E+ P +A ++ A++ +VL +VF+P+ F G G ++++F++ + +A+ Sbjct: 420 MMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMA 479 Query: 473 FSSIVALTLSPMMCSKLLKPATQD-----SWLVRKVDGIMASIARGYQTSLQKAMAKPLL 527 S +VAL L+P +C+ LLKP + + + Y S+ K + Sbjct: 480 LSVLVALILTPALCATLLKPVSAEHHENKGGFFGWFNTTFDHSVNHYTNSVGKILGSTGR 539 Query: 528 MSVLVLCALGSSFFLVQKVPQEFAPQEDRGSLFLMVNGPQGASYEYIESYMTEVENRLMP 587 ++ + L ++P F P+ED+G M+ P GA+ E + + +V + + Sbjct: 540 YLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQVTDYYLK 599 Query: 588 LVDAGDIKRLLIRAPRGFGRAADFSNGMAIVVLEDWGQRRPIKE----VIVDINKRLADL 643 + +++ + F A + GMA V L+ W +R + VI L + Sbjct: 600 -NEKANVESVFTVNGFSFSGQAQ-NAGMAFVSLKPWEERNGDENSAEAVIHRAKMELGKI 657 Query: 644 --AGVQAFPVMRQA-FGRGVGKPVQFV-IGGPSYEELARWRDIMMEKAAENP-MLLGLDH 698 V F + G G + + G ++ L + R+ ++ AA++P L+ + Sbjct: 658 RDGFVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQHPASLVSVRP 717 Query: 699 DYKETKPQLRVVIDRDRAASLGVSIANIGRTLESMLGSRLVTTFMRDGEEYDVIVEGERN 758 + E Q ++ +D+++A +LGVS+++I +T+ + LG V F+ G + V+ + Sbjct: 718 NGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRVKKLYVQADAK 777 Query: 759 NQNTAADLQNIYVRSERSKELIPLSNLVTVEEFADASSLNRYNRMRAITIEASLADGYSL 818 + D+ +YVRS + E++P S T + L RYN + ++ I+ A G S Sbjct: 778 FRMLPEDVDKLYVRS-ANGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEIQGEAAPGTSS 836 Query: 819 GAALDDLNQMARAYLPAEAVISYKGQSLDYQESGNSMYFVFLLALGIVFLVLAAQFESYI 878 G A+ + +A LPA + G S + SGN + ++ +VFL LAA +ES+ Sbjct: 837 GDAMALMENLASK-LPAGIGYDWTGMSYQERLSGNQAPALVAISFVVVFLCLAALYESWS 895 Query: 879 HPIVIMLTVPLATVGALAGLWFTGQSLNIYSQIGIIMLVGLAAKNGILIVEFANQLRDK- 937 P+ +ML VPL VG L Q ++Y +G++ +GL+AKN ILIVEFA L +K Sbjct: 896 IPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILIVEFAKDLMEKE 955 Query: 938 GVDFDRAIIQAASQRLRPILMTGITTAAGAIPLVMAVGAGAETRFVIGVVVLSGILLATL 997 G A + A RLRPILMT + G +PL ++ GAG+ + +G+ V+ G++ ATL Sbjct: 956 GKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIGVMGGMVSATL 1015 Query: 998 FTIFVIPTAYGFFAR 1012 IF +P + R Sbjct: 1016 LAIFFVPVFFVVIRR 1030 Score = 91.1 bits (226), Expect = 1e-20 Identities = 51/324 (15%), Positives = 126/324 (38%), Gaps = 13/324 (4%) Query: 706 QLRVVIDRDRAASLGVSIANIGRTLES----MLGSRLVTTFMRDGEEYDVIVEGERNNQN 761 +R+ +D D ++ ++ L+ + +L T G++ + + + + Sbjct: 183 AMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTRFK- 241 Query: 762 TAADLQNIYVRSERSKELIPLSNLVTVEE-FADASSLNRYNRMRAITIEASLADGYSLGA 820 + + +R ++ L ++ VE + + + R N A + LA G + Sbjct: 242 NPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGANALD 301 Query: 821 ALDDLNQMA---RAYLPA--EAVISYKGQSLDYQESGNSMYFVFLLALGIVFLVLAAQFE 875 + + + P + + Y + Q S + + A+ +VFLV+ + Sbjct: 302 TAKAIKAKLAELQPFFPQGMKVLYPYD-TTPFVQLSIHEVVKTLFEAIMLVFLVMYLFLQ 360 Query: 876 SYIHPIVIMLTVPLATVGALAGLWFTGQSLNIYSQIGIIMLVGLAAKNGILIVE-FANQL 934 + ++ + VP+ +G A L G S+N + G+++ +GL + I++VE + Sbjct: 361 NMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERVM 420 Query: 935 RDKGVDFDRAIIQAASQRLRPILMTGITTAAGAIPLVMAVGAGAETRFVIGVVVLSGILL 994 + + A ++ SQ ++ + +A IP+ G+ + ++S + L Sbjct: 421 MEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMAL 480 Query: 995 ATLFTIFVIPTAYGFFARNSGSPE 1018 + L + + P + + Sbjct: 481 SVLVALILTPALCATLLKPVSAEH 504
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 52.1 bits (125), Expect = 2e-09 Identities = 34/202 (16%), Positives = 71/202 (35%), Gaps = 21/202 (10%) Query: 91 VQLQNAEQIAKVKAAQVKVTDNKRELNRISSLVTSRTVAELERDRLQTLIDTTRAELEQA 150 + ++++ + ++ K E ++ L + + +L + I EL + Sbjct: 264 AVNELRVYKSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDN--IGLLTLELAKN 321 Query: 151 QVSLNDRRIWAPFDGR-LGLRQVSVGSLVTPGT---EITTLDDISKIKLDFSVPERFIQE 206 + I AP + L+ + G +VT I DD +++ V + I Sbjct: 322 EERQQASVIRAPVSVKVQQLKVHTEGGVVTTAETLMVIVPEDD--TLEVTALVQNKDIGF 379 Query: 207 LRPGKLVEATAIAFPDETF---NGIVTSI------DSRVNPTTRAVI--VRAEIP--NPD 253 + G+ AFP + G V +I D R+ +I + N + Sbjct: 380 INVGQNAIIKVEAFPYTRYGYLVGKVKNINLDAIEDQRLGLVFNVIISIEENCLSTGNKN 439 Query: 254 LRLLPGMLMKVKLIKRSRDALM 275 + L GM + ++ R + Sbjct: 440 IPLSSGMAVTAEIKTGMRSVIS 461 Score = 32.5 bits (74), Expect = 0.002 Identities = 19/90 (21%), Positives = 34/90 (37%), Gaps = 5/90 (5%) Query: 62 SVTITPKVTDMVMSLNFDDGDIVKRGDLLVQLQNAEQIAKVKAAQVKVTDNKRELNRISS 121 S I P +V + +G+ V++GD+L++L A Q + + E R Sbjct: 96 SKEIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQI 155 Query: 122 LVTSRTVAELERDRLQTLIDTTRAELEQAQ 151 L S +E ++L L + Sbjct: 156 LSRS-----IELNKLPELKLPDEPYFQNVS 180
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 30.6 bits (69), Expect = 0.011 Identities = 9/16 (56%), Positives = 14/16 (87%) Query: 38 LVGESGSGRSLLARAI 53 + GESG+G+ L+ARA+ Sbjct: 165 ITGESGTGKELVARAL 180
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 29.0 bits (65), Expect = 0.022 Identities = 13/28 (46%), Positives = 16/28 (57%) Query: 42 TLAIVGEAGSGKSTLARILVGAEPRSGG 69 TL I GE+G+GK +AR L R G Sbjct: 162 TLMITGESGTGKELVARALHDYGKRRNG 189
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 77.0 bits (189), Expect = 2e-19 Identities = 29/163 (17%), Positives = 60/163 (36%), Gaps = 6/163 (3%) Query: 31 SSDARQRLIIAALSLFSHRSYPTVSTREIAREAGVDAALIRYYFGSKAGLFEQMVRETLE 90 + + RQ ++ AL LFS + + S EIA+ AGV I ++F K+ LF ++ + Sbjct: 9 AQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWELSES 68 Query: 91 PVLARLREISAAQAPNN---MSELMQTYYRVMAPNPGLPRLIMRVLQEGDGTEPYHIMLS 147 + E A + + E++ L+ + + + ++ Sbjct: 69 NIGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFVGEMAVVQQ 128 Query: 148 VFDHILSLSRQWLESTL---VNAGYLKEGIDPDLVRLSFVSLM 187 ++ S +E TL + A L + + + Sbjct: 129 AQRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYI 171
>PF05307#Bundlin Length = 193 Score = 27.8 bits (61), Expect = 0.048 Identities = 29/101 (28%), Positives = 46/101 (45%), Gaps = 11/101 (10%) Query: 13 YQTGLSLVELMVAMVIGLFLTAGVFTMFSMSSSNVTTTSQFNQLQENGRIALAILERDLS 72 Y+ GLSL+E + + + +TAGV MF S++ + SQ N + E AI + Sbjct: 10 YEKGLSLIESAMVLALAATVTAGV--MFYYQSASDSNKSQ-NAISEVMSATSAINGLYIG 66 Query: 73 QLGFMGDMTGTDFVLGSNTQVNIAAVANDCVGDGLNNATLP 113 Q + G L SN +N +A+ ++ N T P Sbjct: 67 QTSYTG--------LNSNILLNTSAIPDNYKDTKNNKITNP 99
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 30.2 bits (68), Expect = 0.002 Identities = 9/24 (37%), Positives = 18/24 (75%), Gaps = 2/24 (8%) Query: 13 QQGFSLIEVLVALVIL--VIGLIG 34 Q+GF+L+E++V +VI+ + L+ Sbjct: 7 QRGFTLLEIMVVIVIIGVLASLVV 30
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 25.6 bits (56), Expect = 0.033 Identities = 12/51 (23%), Positives = 22/51 (43%), Gaps = 1/51 (1%) Query: 21 PNGIPSVELTHIQLEADEFEALELG-DVQRLSQLDAAALMGISRQTFGYLL 70 + +P L L E+ + R +Q+ AA L+G++R T + Sbjct: 420 GDALPPSGLYDRVLAEMEYPLILAALTATRGNQIKAADLLGLNRNTLRKKI 470
>ECOLIPORIN#E.coli/Salmonella-type porin signature. Length = 383 Score = 31.4 bits (71), Expect = 0.002 Identities = 21/49 (42%), Positives = 31/49 (63%), Gaps = 4/49 (8%) Query: 1 MKYKVLALV--SLFAAMSANASVIYDENG--VGFVGKGDIQSLFDWNNS 45 MK KVLALV +L AA +A+A+ IY+++G + GK D F ++S Sbjct: 1 MKRKVLALVIPALLAAGAAHAAEIYNKDGNKLDLYGKVDGLHYFSDDSS 49
>PF06580#Sensor histidine kinase Length = 349 Score = 40.2 bits (94), Expect = 2e-05 Identities = 25/149 (16%), Positives = 58/149 (38%), Gaps = 21/149 (14%) Query: 405 NQLNEINEGVSTAYVQLRELL----STFRLTIKEPNLKS-AMEAMLDQLRAKTDI----- 454 N LN I + + RE+L R +++ N + ++ L + + + Sbjct: 177 NALNNIRALILEDPTKAREMLTSLSELMRYSLRYSNARQVSLADELTVVDSYLQLASIQF 236 Query: 455 --KISLDYKLSPQWLEAKQHIHILQITREATLNAIKH-----SKATLIHIRCYKDDNAMV 507 ++ + +++P ++ + ++Q E N IKH + I ++ KD+ + Sbjct: 237 EDRLQFENQINPAIMDVQVPPMLVQTLVE---NGIKHGIAQLPQGGKILLKGTKDNGTVT 293 Query: 508 NISVCDNGVGIEHLKERDQHFGIGIMHER 536 + V + G + G+ + ER Sbjct: 294 -LEVENTGSLALKNTKESTGTGLQNVRER 321
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 62.2 bits (151), Expect = 1e-13 Identities = 22/137 (16%), Positives = 55/137 (40%), Gaps = 2/137 (1%) Query: 6 SILVVDDHPLLRKGICQLITSDPDFSLFGEAGGGLDALSAVATDEPDIILLDLNMKGMTG 65 +ILV DD +R + Q ++ + + +A + D+++ D+ M Sbjct: 5 TILVADDDAAIRTVLNQALS-RAGYDVRI-TSNAATLWRWIAAGDGDLVVTDVVMPDENA 62 Query: 66 LDTLNAMRQEGVTSRIVILTVSDAKQDVIRLLRAGADGYLLKDTEPDLLLEKLKNAMLGH 125 D L +++ +++++ + I+ GA YL K + L+ + A+ Sbjct: 63 FDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEP 122 Query: 126 RVISEEIEEYLYELKNV 142 + ++E+ + + Sbjct: 123 KRRPSKLEDDSQDGMPL 139
>CARBMTKINASE#Bacterial carbamate kinase signature. Length = 314 Score = 30.9 bits (70), Expect = 0.010 Identities = 18/81 (22%), Positives = 27/81 (33%), Gaps = 5/81 (6%) Query: 202 DYSAALLAEALRASAVEIWTDVAGIYTTDPRLAPNAHPIAEISFNEAAEMATFGAKVLHP 261 D + LAE + A I TDV G + E+ E + G Sbjct: 216 DLAGEKLAEEVNADIFMILTDVNGAALY--YGTEKEQWLREVKVEELRKYYEEGH--FKA 271 Query: 262 ATILPAVRQQIQVFVGSSKEP 282 ++ P V I+ F+ E Sbjct: 272 GSMGPKVLAAIR-FIEWGGER 291
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 82.6 bits (204), Expect = 2e-20 Identities = 31/131 (23%), Positives = 61/131 (46%), Gaps = 1/131 (0%) Query: 1 MQNPHILIVEDEAVTRNTLRSIFEAEGYVVTEANDGAEMHKAMQENKINLVVMDINLPGK 60 M IL+ +D+A R L GY V ++ A + + + +LVV D+ +P + Sbjct: 1 MTGATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDE 60 Query: 61 NGLLLARELREIN-NIGLIFLTGRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLT 119 N L +++ ++ ++ ++ ++ + I E GA DY+ KPF+ EL L Sbjct: 61 NAFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALA 120 Query: 120 RVNSAGNEVEE 130 +++E+ Sbjct: 121 EPKRRPSKLED 131
>BCTERIALGSPH#Bacterial general secretion pathway protein H signature. Length = 170 Score = 33.8 bits (77), Expect = 2e-04 Identities = 14/56 (25%), Positives = 29/56 (51%), Gaps = 4/56 (7%) Query: 16 KGFTLIELVVGMLVIAIAIVM-LSSMLFPQADRAAKTLHRVRSA-ELA--HSVMNE 67 +GFTL+E+++ +L++ ++ M L + + D AA+TL R + + Sbjct: 4 RGFTLLEMMLILLLMGVSAGMVLLAFPASRDDSAAQTLARFEAQLRFVQQRGLQTG 59
>BCTERIALGSPH#Bacterial general secretion pathway protein H signature. Length = 170 Score = 44.9 bits (106), Expect = 1e-08 Identities = 25/80 (31%), Positives = 40/80 (50%), Gaps = 1/80 (1%) Query: 8 KQTGFTLVELVTTVILIGILSVTVLPRLFTQSSYSAFSLRNEFMAELRQVQQRALNNTDR 67 +Q GFTL+E++ ++L+G+ + VL SA F A+LR VQQR L + Sbjct: 2 RQRGFTLLEMMLILLLMGVSAGMVLLAFPASRDDSAAQTLARFEAQLRFVQQRGLQT-GQ 60 Query: 68 CYRIAVSSVGYQVSQFATRD 87 + ++V +Q RD Sbjct: 61 FFGVSVHPDRWQFLVLEARD 80
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 49.1 bits (117), Expect = 4e-10 Identities = 18/52 (34%), Positives = 28/52 (53%) Query: 1 MKKQIGFTLIELVVVIIILGILAVTAAPKFINLQSDARASTVKGLEAAIKGA 52 KQ GFTL+E++VVI+I+G+LA P + + A A++ A Sbjct: 4 TDKQRGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQKAVSDIVALENA 55
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 44.9 bits (106), Expect = 1e-08 Identities = 14/31 (45%), Positives = 23/31 (74%) Query: 2 MKRQQGFTLIELVVVIIILGILAVTAAPKFI 32 +Q+GFTL+E++VVI+I+G+LA P + Sbjct: 4 TDKQRGFTLLEIMVVIVIIGVLASLVVPNLM 34
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 43.7 bits (103), Expect = 5e-08 Identities = 20/46 (43%), Positives = 31/46 (67%), Gaps = 2/46 (4%) Query: 4 KQNGFSLIELVIVIVILGLLAATAIPRFLNVTD--DAQDASVDGVA 47 KQ GF+L+E+++VIVI+G+LA+ +P + + D Q A D VA Sbjct: 6 KQRGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQKAVSDIVA 51
>BCTERIALGSPF#Bacterial general secretion pathway protein F signature. Length = 408 Score = 305 bits (782), Expect = e-103 Identities = 112/406 (27%), Positives = 202/406 (49%), Gaps = 4/406 (0%) Query: 1 MPVYQYRGRSGQGQAVTGQLDAASESAAADMLLARGIIPLEVKVAKVVK----SFSVTQL 56 M Y Y+ QG+ G +A S A +L RG++PL V + + S ++ Sbjct: 1 MAQYHYQALDAQGKKCRGTQEADSARQARQLLRERGLVPLSVDENRGDQQKSGSTGLSLR 60 Query: 57 FGGKVGLDELQIFTRQMYSLTRSGIPILRAIAGLSETAHSQRMKDALNDISEQLTAGRPL 116 ++ +L + TRQ+ +L + +P+ A+ +++ + + + + ++ G L Sbjct: 61 RKIRLSTSDLALLTRQLATLVAASMPLEEALDAVAKQSEKPHLSQLMAAVRSKVMEGHSL 120 Query: 117 SSAMNQHPEVFDSLFVSMVHVGENTGKLEDAFIQLSGYIEREQETRRRIKAAMRYPIFVL 176 + AM P F+ L+ +MV GE +G L+ +L+ Y E+ Q+ R RI+ AM YP + Sbjct: 121 ADAMKCFPGSFERLYCAMVAAGETSGHLDAVLNRLADYTEQRQQMRSRIQQAMIYPCVLT 180 Query: 177 IAITIAMVILNIMVIPKFAEMFSRFGADLPWATKVLIGTSNLFVNYWPLMLVALIGAIVG 236 + + IL +V+PK E F LP +T+VL+G S+ + P ML+AL+ + Sbjct: 181 VVAIAVVSILLSVVVPKVVEQFIHMKQALPLSTRVLMGMSDAVRTFGPWMLLALLAGFMA 240 Query: 237 IRYWHHTEKGEKQWDKWKLHIPAVGSIIERSTLSRYCRSFSMMLSAGVPMTQALSLVADA 296 R EK + + LH+P +G I +RY R+ S++ ++ VP+ QA+ + D Sbjct: 241 FRVMLRQEKRRVSFHRRLLHLPLIGRIARGLNTARYARTLSILNASAVPLLQAMRISGDV 300 Query: 297 VDNAYMHDRIVGMRRGIESGDSVLRVSNQSQLFTPLVLQMVAVGEETGQIDQLLNDAADF 356 + N Y R+ + G S+ + Q+ LF P++ M+A GE +G++D +L AAD Sbjct: 301 MSNDYARHRLSLATDAVREGVSLHKALEQTALFPPMMRHMIASGERSGELDSMLERAADN 360 Query: 357 YEGEVDYDLKNLTAKLEPILIGIVAVIVLVLALGIYLPMWDMLNVV 402 + E + EP+L+ +A +VL + L I P+ + ++ Sbjct: 361 QDREFSSQMTLALGLFEPLLVVSMAAVVLFIVLAILQPILQLNTLM 406
>SYCDCHAPRONE#Gram-negative bacterial type III secretion SycD chaperone signature. Length = 168 Score = 30.7 bits (69), Expect = 0.005 Identities = 9/48 (18%), Positives = 22/48 (45%) Query: 324 QGQFTLAEQAYRQLLQQEPQQGKWWMGLGYALDSQQQFAKASQAYRTA 371 G++ A + ++ L + ++++GLG + Q+ A +Y Sbjct: 49 SGKYEDAHKVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYG 96
>BCTERIALGSPD#Bacterial general secretion pathway protein D signature. Length = 660 Score = 180 bits (457), Expect = 2e-51 Identities = 76/293 (25%), Positives = 131/293 (44%), Gaps = 27/293 (9%) Query: 257 PQAGLVTIRAFPSELRQVRSFLNSAETHLQRQVILEAKILEVTLSDDFQQGIQWENVLGH 316 Q + + A P + + + + + QV++EA I EV +D GIQW N Sbjct: 316 GQTNALIVTAAPDVMNDLERVIAQLDIR-RPQVLVEAIIAEVQDADGLNLGIQWANKNAG 374 Query: 317 VGN-TNINFGTTAGTVGNKVTSTLGGVTS-------------LSIKGSDFTTMINLLDTQ 362 + TN + G + G V+S ++ ++ L + Sbjct: 375 MTQFTNSGLPISTAIAGANQYNKDGTVSSSLASALSSFNGIAAGFYQGNWAMLLTALSSS 434 Query: 363 GDVDVLSSPRVTASNNQKAVIKVGTDEYFVTDVSSTTVAGTTPVTTPQVELTPFFSGIAL 422 D+L++P + +N +A VG + +T S T +G T + + GI L Sbjct: 435 TKNDILATPSIVTLDNMEATFNVGQEVPVLT--GSQTTSGDNIFNTVERKTV----GIKL 488 Query: 423 DVTPQIDKDGNVLLHVHPSVIDVKEQTKNIKVSNESLELPLAQSEIRESDTVIRAASGDV 482 V PQI++ +VLL + V V + S+ S +L + R + + SG+ Sbjct: 489 KVKPQINEGDSVLLEIEQEVSSVADAA-----SSTSSDLGATFN-TRTVNNAVLVGSGET 542 Query: 483 VVIGGLMKSENVEVVSQVPLLGDIPLLGELFKNRSKQKKKTELIILLKPTVVG 535 VV+GGL+ + +VPLLGDIP++G LF++ SK+ K L++ ++PTV+ Sbjct: 543 VVVGGLLDKSVSDTADKVPLLGDIPVIGALFRSTSKKVSKRNLMLFIRPTVIR 595
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 29.0 bits (65), Expect = 0.012 Identities = 13/75 (17%), Positives = 24/75 (32%), Gaps = 9/75 (12%) Query: 51 EQALQQASQQKQQLEQQKAALEAQIAARKPDPALVARVELESQQLELKQLLISELALRSA 110 ++ QK Q E A+ ++AR+ +++ S L S+ Sbjct: 192 KEQFSTWQNQKYQKELNLDKKRAERL------TVLARINRYENLSRVEK---SRLDDFSS 242 Query: 111 LTSRGFAPVLKDLAQ 125 L + L Q Sbjct: 243 LLHKQAIAKHAVLEQ 257
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 29.5 bits (66), Expect = 0.007 Identities = 16/41 (39%), Positives = 25/41 (60%), Gaps = 3/41 (7%) Query: 3 LKLTKAHTGFTLLEMLIAIAIFAMIGVAANAVLSTVLTNDE 43 ++ T GFTLLE+++ I I IGV A+ V+ ++ N E Sbjct: 1 MRATDKQRGFTLLEIMVVIVI---IGVLASLVVPNLMGNKE 38
>PilS_PF08805#PilS N terminal Length = 185 Score = 28.7 bits (64), Expect = 0.004 Identities = 12/32 (37%), Positives = 17/32 (53%) Query: 5 KGMTLLEVIVALAVFSVAAVSITKSLGEQMAN 36 KG TL+EV++ + V V A S K +N Sbjct: 26 KGATLMEVLLVVGVIVVLAASAYKLYSMVQSN 57
>BCTERIALGSPH#Bacterial general secretion pathway protein H signature. Length = 170 Score = 88.1 bits (218), Expect = 2e-24 Identities = 42/171 (24%), Positives = 72/171 (42%), Gaps = 39/171 (22%) Query: 4 LRQTGFTLMEVMLVILLMGLTAAAVTMSIGNSGPQQALERTAQQFMAATELVLDETVLSG 63 +RQ GFTL+E+ML++LLMG++A V ++ S A + T +F A V + +G Sbjct: 1 MRQRGFTLLEMMLILLLMGVSAGMVLLAFPASRDDSAAQ-TLARFEAQLRFVQQRGLQTG 59 Query: 64 QFIGIVIEKTSYQFVFYKDG---------------KWNPLEKDRMLSEKQMETGVSLNLV 108 QF G+ + +QF+ + +W PL R+ + Sbjct: 60 QFFGVSVHPDRWQFLVLEARDGADPAPADDGWSGYRWLPLRAGRVATSGS---------- 109 Query: 109 LDGLPLVQEDEEEKSWFDEPFIEAKTEDKKKHPEPQIMLFPSGEMSAFELS 159 + G L + ++W P +++FP GEM+ F L+ Sbjct: 110 IAGGKLNLAFAQGEAW-------------TPGDNPDVLIFPGGEMTPFRLT 147
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 235 bits (601), Expect = 2e-83 Identities = 98/144 (68%), Positives = 121/144 (84%) Query: 1 MQINNRQKGFTLLEVMVVIVILGILASMVVPNLMGNKDKADQQKAVSDIVALENALDMYK 60 M+ ++Q+GFTLLE+MVVIVI+G+LAS+VVPNLMGNK+KAD+QKAVSDIVALENALDMYK Sbjct: 1 MRATDKQRGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQKAVSDIVALENALDMYK 60 Query: 61 LDNGVYPTTEQGLEALVQKPTISPEPRNYREEGYVKRLPQDPWRNNYLLLSPGENSKLDI 120 LDN YPTT QGLE+LV+ PT+ P NY +EGY+KRLP DPW N+Y+L++PGE+ D+ Sbjct: 61 LDNHHYPTTNQGLESLVEAPTLPPLAANYNKEGYIKRLPADPWGNDYVLVNPGEHGAYDL 120 Query: 121 FSAGPDGQPGTEDDIGNWNLQNFQ 144 SAGPDG+ GTEDDI NW L + Sbjct: 121 LSAGPDGEMGTEDDITNWGLSKKK 144
>BCTERIALGSPF#Bacterial general secretion pathway protein F signature. Length = 408 Score = 507 bits (1307), Expect = 0.0 Identities = 229/408 (56%), Positives = 308/408 (75%), Gaps = 1/408 (0%) Query: 1 MPAFEYKALDAKGKQLKGVIEADTARHARSQLREQRMMPLEILPVTEKEAKAKSSGFSV- 59 M + Y+ALDA+GK+ +G EAD+AR AR LRE+ ++PL + + K+ S+G S+ Sbjct: 1 MAQYHYQALDAQGKKCRGTQEADSARQARQLLRERGLVPLSVDENRGDQQKSGSTGLSLR 60 Query: 60 FKRGISVAELALITRQIATLVAAGLPIEESLKAVGQQCEKDRLASMIMAVRSRVVEGYSF 119 K +S ++LAL+TRQ+ATLVAA +P+EE+L AV +Q EK L+ ++ AVRS+V+EG+S Sbjct: 61 RKIRLSTSDLALLTRQLATLVAASMPLEEALDAVAKQSEKPHLSQLMAAVRSKVMEGHSL 120 Query: 120 ADSLAEFPHIFDDLYRAMVASGEKSGHLEVVLNRLADYTERRQQLKSKLQQAMIYPIVLT 179 AD++ FP F+ LY AMVA+GE SGHL+ VLNRLADYTE+RQQ++S++QQAMIYP VLT Sbjct: 121 ADAMKCFPGSFERLYCAMVAAGETSGHLDAVLNRLADYTEQRQQMRSRIQQAMIYPCVLT 180 Query: 180 VVAIGVISVLLAAVVPKVVGQFEHMGAELPATTRFLISASDFVQNYGLFVVLAIVLLAVV 239 VVAI V+S+LL+ VVPKVV QF HM LP +TR L+ SD V+ +G +++LA++ + Sbjct: 181 VVAIAVVSILLSVVVPKVVEQFIHMKQALPLSTRVLMGMSDAVRTFGPWMLLALLAGFMA 240 Query: 240 FQRMLKSPAFRMKYDSFLLKMPVIGRVSKGLNTARFARTLSILSASSVPLLDGMRIASEV 299 F+ ML+ R+ + LL +P+IGR+++GLNTAR+ARTLSIL+AS+VPLL MRI+ +V Sbjct: 241 FRVMLRQEKRRVSFHRRLLHLPLIGRIARGLNTARYARTLSILNASAVPLLQAMRISGDV 300 Query: 300 LQNMRVRAAVDDATARVREGTSLGAALTNTKLFPAMMLYMIASGEKSGQLEQMLERAADN 359 + N R + AT VREG SL AL T LFP MM +MIASGE+SG+L+ MLERAADN Sbjct: 301 MSNDYARHRLSLATDAVREGVSLHKALEQTALFPPMMRHMIASGERSGELDSMLERAADN 360 Query: 360 QDREFEGNVNIALGVFEPMLVVSMAGIVLFIVMAILQPILALNNLISS 407 QDREF + +ALG+FEP+LVVSMA +VLFIV+AILQPIL LN L+SS Sbjct: 361 QDREFSSQMTLALGLFEPLLVVSMAAVVLFIVLAILQPILQLNTLMSS 408
>BCTERIALGSPD#Bacterial general secretion pathway protein D signature. Length = 660 Score = 595 bits (1536), Expect = 0.0 Identities = 327/681 (48%), Positives = 448/681 (65%), Gaps = 33/681 (4%) Query: 6 IRRKLIAGVVAGAAMFTSQFVWSEQYAANFKGTDIQEFINIVGKNLNKTIIVDPTIRGKI 65 IR + ++ A +F +E+++A+FKGTDIQEFIN V KNLNKT+I+DP++RG I Sbjct: 7 IRSFSLTLLIFAALLFRP--AAAEEFSASFKGTDIQEFINTVSKNLNKTVIIDPSVRGTI 64 Query: 66 NVRSYDLLNDEQYYQFFLNVLQVYGYAIVEMENGVIKVVKDKSAQTGAIRVANDNDPGIG 125 VRSYD+LN+EQYYQFFL+VL VYG+A++ M NGV+KVV+ K A+T A+ VA+D PGIG Sbjct: 65 TVRSYDMLNEEQYYQFFLSVLDVYGFAVINMNNGVLKVVRSKDAKTAAVPVASDAAPGIG 124 Query: 126 DEMVTRIVALYNTEAKQLAPLLRQLNDNAGGGNVVNYDPSNVLMLTGRASVVNKLVEIIR 185 DE+VTR+V L N A+ LAPLLRQLNDNAG G+VV+Y+PSNVL++TGRA+V+ +L+ I+ Sbjct: 125 DEVVTRVVPLTNVAARDLAPLLRQLNDNAGVGSVVHYEPSNVLLMTGRAAVIKRLLTIVE 184 Query: 186 RVDKQGDTSVQVVPLEYASAGEMVRIIDTLYRASANQAQLPGQAPKVVADERINAVIVSG 245 RVD GD SV VPL +ASA ++V+++ L + ++ A VVADER NAV+VSG Sbjct: 185 RVDNAGDRSVVTVPLSWASAADVVKLVTELNKDTSKSALPGSMVANVVADERTNAVLVSG 244 Query: 246 DEKSRQRVVELIHRLDAEQASTGNTKVRYLRYAKAEDLVEVLTGFAQKLESEKDPSAQAG 305 + SRQR++ +I +LD +QA+ GNTKV YL+YAKA DLVEVLTG + ++SEK + Sbjct: 245 EPNSRQRIIAMIKQLDRQQATQGNTKVIYLKYAKASDLVEVLTGISSTMQSEKQAAKPVA 304 Query: 306 AKRRNEINIMAHTDTNALVISAEPDQMRTIESVINQLDIRRAQVLVEAIIVEVAEGDNVG 365 A +N I I AH TNAL+++A PD M +E VI QLDIRR QVLVEAII EV + D + Sbjct: 305 ALDKN-IIIKAHGQTNALIVTAAPDVMNDLERVIAQLDIRRPQVLVEAIIAEVQDADGLN 363 Query: 366 FGVQWAAKAGGGTQFNNLGPTIGEIGAGIWQAQDKEGDTVTTLDGNGNPVTTKNPDTRGD 425 G+QWA K G TQF N G I AG + +G ++ Sbjct: 364 LGIQWANKNAGMTQFTNSGLPISTAIAG-----------ANQYNKDGTVSSS-------- 404 Query: 426 VTLLAQALGKVNGMAWGVAMGDFGALIQAVSSDTNSNVLATPSITTLDNQEASFIVGDEV 485 LA AL NG+A G G++ L+ A+SS T +++LATPSI TLDN EA+F VG EV Sbjct: 405 ---LASALSSFNGIAAGFYQGNWAMLLTALSSSTKNDILATPSIVTLDNMEATFNVGQEV 461 Query: 486 PILTGSTASSNNSNPFQTVERKEVGVKLKVVPQINEGNAVKLAIEQEVSGVNG-----NT 540 P+LTGS +++ N F TVERK VG+KLKV PQINEG++V L IEQEVS V ++ Sbjct: 462 PVLTGSQ-TTSGDNIFNTVERKTVGIKLKVKPQINEGDSVLLEIEQEVSSVADAASSTSS 520 Query: 541 GVDISFATRRLTTTVMADSGQIVVLGGLINEEVQESVQKVPFLGDIPVLGHLFKSSSSKK 600 + +F TR + V+ SG+ VV+GGL+++ V ++ KVP LGDIPV+G LF+S+S K Sbjct: 521 DLGATFNTRTVNNAVLVGSGETVVVGGLLDKSVSDTADKVPLLGDIPVIGALFRSTSKKV 580 Query: 601 TKKNLMIFIKPTIIRDGMTMEGIAGRKYNYFRALQLEQQ-KRGVNLMPDTQVPVLDEWNQ 659 +K+NLM+FI+PT+IRD + +Y F Q +Q+ K + M + + + Q Sbjct: 581 SKRNLMLFIRPTVIRDRDEYRQASSGQYTAFNDAQSKQRGKENNDAMLNQDLLEIYP-RQ 639 Query: 660 SEYLPPEVNDILERYKDGRGL 680 +V+ ++ + G L Sbjct: 640 DTAAFRQVSAAIDAFNLGGNL 660
>BCTERIALGSPC#Bacterial general secretion pathway protein C signature. Length = 272 Score = 178 bits (453), Expect = 1e-56 Identities = 70/295 (23%), Positives = 141/295 (47%), Gaps = 33/295 (11%) Query: 8 IAKAASIPHKPLSQVTFWFGFIVSLLLAAQITWKLVPTHSSPSAWSPTATTVGSGAGQID 67 I+K + + ++ F+ ++ A I W++ ++P S T + A Q Sbjct: 3 ISKLPPLSPSVIRRILFYLLMLLFCQQLAMIFWRIGLPDNAPV-SSVQIT--PAQARQQP 59 Query: 68 LTGLQQLGLFGKADAQSERPKVEVVEAITDAPKTSLSILLTGVVASTADQKGLAIIESSG 127 +T L LFG + +++ ++ + ++ P ++L++ LTGV+A D + +AII Sbjct: 60 VT-LNDFTLFGVSPEKNKAGALDASQM-SNLPPSTLNLSLTGVMAGDDDSRSIAIISKDN 117 Query: 128 IQETYSLGDKIKGTSASLKEVYADRIIITNAGRYETLMLDGLVYTSQSAVNQQLQQAKTS 187 Q + + +++ G +A + + DR+++ GRYE L L + V Sbjct: 118 EQFSRGVNEEVPGYNAKIVSIRPDRVVLQYQGRYEVLGLYSQEDSGSDGVPG-------- 169 Query: 188 KVEQTVSRVDQRQNAEISQELAESRNELLADPSKITDYIAISPVRQGDAVVGYRLNPGKD 247 A+++++L + + ++DY++ SP+ + + GYRLNPG Sbjct: 170 --------------AQVNEQLQQR------ASTTMSDYVSFSPIMNDNKLQGYRLNPGPK 209 Query: 248 VNLFRQAGFKANDLAKSINGYDLTVMTQALEMMSQLPELTEVSIMVEREGQLVEI 302 + F + G + ND+A ++NG DL QA + M ++ ++ ++ VER+GQ +I Sbjct: 210 SDSFYRVGLQDNDMAVALNGLDLRDAEQAKKAMERMADVHNFTLTVERDGQRQDI 264
>PF00577#Outer membrane usher protein FimD Length = 878 Score = 677 bits (1749), Expect = 0.0 Identities = 265/859 (30%), Positives = 405/859 (47%), Gaps = 60/859 (6%) Query: 11 QDFTFDDSLLLGGGYGDSYLSRFNSTAETIPGQYQVDIYINGTYLNREIINFIKVD-SQG 69 + F+ L + LSRF + E PG Y+VDIY+N Y+ + F D QG Sbjct: 45 AELYFNPRFLADDPQAVADLSRFENGQELPPGTYRVDIYLNNGYMATRDVTFNTGDSEQG 104 Query: 70 VVPCLDLNFWKKSNVTAIYINEDALLQAE-CAAPDTVVKGVSTQFDAEKLRLGIAIPQAY 128 +VPCL + ++ LL + C +++ + Q D + RL + IPQA+ Sbjct: 105 IVPCLTRAQLASMGLNTASVSGMNLLADDACVPLTSMIHDATAQLDVGQQRLNLTIPQAF 164 Query: 129 LRQIPRGYVDPSSWSEGENAGFISYNSNYYQTNSRSAGSDMRAIYTGLNSGVNLGLWRLR 188 + RGY+ P W G NAG ++YN + +R G+ Y L SG+N+G WRLR Sbjct: 165 MSNRARGYIPPELWDPGINAGLLNYNFSGNSVQNRIGGNS-HYAYLNLQSGLNIGAWRLR 223 Query: 189 NQSSYQYNDVGQN--TQESFNSIRTYITRALPDMQSELLLGDAYTRGNIFGSLAFTGVQL 246 + +++ YN + ++ + I T++ R + ++S L LGD YT+G+IF + F G QL Sbjct: 224 DNTTWSYNSSDSSSGSKNKWQHINTWLERDIIPLRSRLTLGDGYTQGDIFDGINFRGAQL 283 Query: 247 LTDNRMLPESQRGYAPVVRGLANSTASVVIKQNGVSIYQTTVAAGPFVINDLFPTSYEGD 306 +D+ MLP+SQRG+APV+ G+A TA V IKQNG IY +TV GPF IND++ GD Sbjct: 284 ASDDNMLPDSQRGFAPVIHGIARGTAQVTIKQNGYDIYNSTVPPGPFTINDIYAAGNSGD 343 Query: 307 LLVEISEADGKVSSFTVPFSAVPGSLREGSFQYGLSFGEVDQ---TESGGYFVDLISEYG 363 L V I EADG FTVP+S+VP REG +Y ++ GE + F +G Sbjct: 344 LQVTIKEADGSTQIFTVPYSSVPLLQREGHTRYSITAGEYRSGNAQQEKPRFFQSTLLHG 403 Query: 364 LSNMLTLNSGGRVGDDYFALSLGTVLGT-EWGALGLTAVHSMSRISQSSVLNEWKNGWRV 422 L T+ G ++ D Y A + G GAL + + S + + +G V Sbjct: 404 LPAGWTIYGGTQLADRYRAFNFGIGKNMGALGALSVDMTQANSTLPD----DSQHDGQSV 459 Query: 423 GLNYSHSFD-SGTSVALAGYHYSTESFRELNDVLGLRRALESG-------------NIFE 468 Y+ S + SGT++ L GY YST + D R + + Sbjct: 460 RFLYNKSLNESGTNIQLVGYRYSTSGYFNFADTTYSRMNGYNIETQDGVIQVKPKFTDYY 519 Query: 469 SETYRQRSEMSLSVNQSLDDFGFVYLSGSKRQYRDGRDDDDQLQFGYSVGIGRVNIGLTF 528 + Y +R ++ L+V Q L +YLSGS + Y + D+Q Q G + +N L++ Sbjct: 520 NLAYNKRGKLQLTVTQQLGRTSTLYLSGSHQTYWGTSNVDEQFQAGLNTAFEDINWTLSY 579 Query: 529 SRQYTSQVPLQNGFSGQLLTEMSGYSSDRVKEDLVSLTVSIPFGRR---------QSNML 579 S + + ++ +++L V+IPF + Sbjct: 580 SLTKN--------------------AWQKGRDQMLALNVNIPFSHWLRSDSKSQWRHASA 619 Query: 580 SSGFSHSSRGNEQYNLGLAGTVDDDNTWTYGLNASLQRQD--SSSESVSVNTQKRFSQAT 637 S SH G G+ GT+ +DN +Y + +S + R Sbjct: 620 SYSMSHDLNGRMTNLAGVYGTLLEDNNLSYSVQTGYAGGGDGNSGSTGYATLNYRGGYGN 679 Query: 638 LSGNYSISDTYQQVGAGLSGAAVVHSGGITLSQNLSDTFAIVQAEGASGAKVTNNWGTEI 697 + YS SD +Q+ G+SG + H+ G+TL Q L+DT +V+A GA AKV N G Sbjct: 680 ANIGYSHSDDIKQLYYGVSGGVLAHANGVTLGQPLNDTVVLVKAPGAKDAKVENQTGVRT 739 Query: 698 DGLGYAIIPSLTPYRSNSVTLDSGSMLSSTELIDTQQQVAPYAGSIVKIKFETRHGIAVV 757 D GYA++P T YR N V LD+ ++ + +L + V P G+IV+ +F+ R GI + Sbjct: 740 DWRGYAVLPYATEYRENRVALDTNTLADNVDLDNAVANVVPTRGAIVRAEFKARVGIK-L 798 Query: 758 FMTQQANGGVIPIGAEVVDEDGVVLGMVGQAGMAYVRAPKPSGQLTVNWGNKSDQQCHFN 817 MT N +P GA V E G+V G Y+ +G++ V WG + + C N Sbjct: 799 LMTLTHNNKPLPFGAMVTSESSQSSGIVADNGQVYLSGMPLAGKVQVKWGEEENAHCVAN 858 Query: 818 YAL-ENSRDNTLLRMLALC 835 Y L S+ L ++ A C Sbjct: 859 YQLPPESQQQLLTQLSAEC 877
>ACRIFLAVINRP#Acriflavin resistance protein family signature. Length = 1034 Score = 1035 bits (2678), Expect = 0.0 Identities = 510/1028 (49%), Positives = 705/1028 (68%), Gaps = 7/1028 (0%) Query: 1 MPQFFINRPVFAWVIALFIVLIGVIAIPKLPISRYPSVAPVSVSIYAAYPGATPQTLNDS 60 M FFI RP+FAWV+A+ +++ G +AI +LP+++YP++AP +VS+ A YPGA QT+ D+ Sbjct: 1 MANFFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDT 60 Query: 61 VVSLVERELSGVKNLLYFESSVDSSGSAQITATFKPGTDAEMAQVDVQNRIKAVEPRLPQ 120 V ++E+ ++G+ NL+Y S+ DS+GS IT TF+ GTD ++AQV VQN+++ P LPQ Sbjct: 61 VTQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQ 120 Query: 121 VVRQIGLQVESAASSFLMMIGMTSPNGQFDEIALNDYLARNIVEELRRIDGVGRVQLFGA 180 V+Q G+ VE ++SS+LM+ G S N + ++DY+A N+ + L R++GVG VQLFGA Sbjct: 121 EVQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFGA 180 Query: 181 EQAMRVWVDPNKLTAYSLTMNDLAIAIEQQNAQIAPGRLGDEPVLQGQRLTVPLTVQGQL 240 + AMR+W+D + L Y LT D+ ++ QN QIA G+LG P L GQ+L + Q + Sbjct: 181 QYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTRF 240 Query: 241 STPEEFAAIVLRAGADGAKLVLADVAWVELGAQSYGFSNRENGVAATSAAIQLSPGANAV 300 PEEF + LR +DG+ + L DVA VELG ++Y R NG A I+L+ GANA+ Sbjct: 241 KNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGANAL 300 Query: 301 RTASAVRERLAELAPMMPAGMNYSVPFDTAPFVKVSIEKVIYTLFEAMALVFMVMFLFLQ 360 TA A++ +LAEL P P GM P+DT PFV++SI +V+ TLFEA+ LVF+VM+LFLQ Sbjct: 301 DTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVMYLFLQ 360 Query: 361 NLRYTLIPAIVAPIALLGTFAVMLLAGFSINSLTMFGMVLAIGIIVDDAIVVVENVERLM 420 N+R TLIP I P+ LLGTFA++ G+SIN+LTMFGMVLAIG++VDDAIVVVENVER+M Sbjct: 361 NMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERVM 420 Query: 421 ATQGLSPREATSQAMKEITGAVIGITLVLTAVFIPMAFGSGSVGVIYQQFTLSMAVSILF 480 L P+EAT ++M +I GA++GI +VL+AVFIPMAF GS G IY+QF++++ ++ Sbjct: 421 MEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMAL 480 Query: 481 SAFLALTLTPALCATLLRPVSADHHQ-KGGFFGTFNRGFEHLTAGYSERVARLVGRSGRM 539 S +AL LTPALCATLL+PVSA+HH+ KGGFFG FN F+H Y+ V +++G +GR Sbjct: 481 SVLVALILTPALCATLLKPVSAEHHENKGGFFGWFNTTFDHSVNHYTNSVGKILGSTGRY 540 Query: 540 MAAFAVLCMVLILAAGQLPSSFLPEEDQGYFMTSIQLPTGATSERTLDVVKAYEAHV--A 597 + +A++ +++ +LPSSFLPEEDQG F+T IQLP GAT ERT V+ + Sbjct: 541 LLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQVTDYYLKN 600 Query: 598 SRPTLDANMVVLGFSFAGSGPNAAMAFTMLKDWDQRNGA--TAAEEAALAQQAMADNVEG 655 + +++ V GFSF+G NA MAF LK W++RNG +A A+ + +G Sbjct: 601 EKANVESVFTVNGFSFSGQAQNAGMAFVSLKPWEERNGDENSAEAVIHRAKMELGKIRDG 660 Query: 656 TVMSLMPPAIDELGTSSGFTLFLQDRANRGEAALIAAQTQLLALAAQS-EVVSDVYPDGL 714 V+ PAI ELGT++GF L D+A G AL A+ QLL +AAQ + V P+GL Sbjct: 661 FVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQHPASLVSVRPNGL 720 Query: 715 PPGESISLNINRSKAEAMGLSFAAVSSTLSAAMGSLYVNDFPNNGRMQQVILQADATARM 774 L +++ KA+A+G+S + ++ T+S A+G YVNDF + GR++++ +QADA RM Sbjct: 721 EDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRVKKLYVQADAKFRM 780 Query: 775 QLDDVLSLRVRNSSGGMVPLREIVTAEWKESPQQMMRFQGFPAMRISGGAAAGVSSGAAM 834 +DV L VR+++G MVP T+ W ++ R+ G P+M I G AA G SSG AM Sbjct: 781 LPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEIQGEAAPGTSSGDAM 840 Query: 835 TEMERLVAQLPQGFAVAWTGASLQERQSAAQAPLLMLLSALVVFLVLAALYESWSIPLSV 894 ME L ++LP G WTG S QER S QAP L+ +S +VVFL LAALYESWSIP+SV Sbjct: 841 ALMENLASKLPAGIGYDWTGMSYQERLSGNQAPALVAISFVVVFLCLAALYESWSIPVSV 900 Query: 895 MLVVPLGLLGAVAAVILRDMPNDVFFKVGMITIIGLSAKNAILIVEFARQLH-AEGHTLI 953 MLVVPLG++G + A L + NDV+F VG++T IGLSAKNAILIVEFA+ L EG ++ Sbjct: 901 MLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILIVEFAKDLMEKEGKGVV 960 Query: 954 DAAVTAARLRLRPILMTSLAFTLGVVPLMLASGASAETQHAIGTGVFGGMLSGTLLAIFF 1013 +A + A R+RLRPILMTSLAF LGV+PL +++GA + Q+A+G GV GGM+S TLLAIFF Sbjct: 961 EATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIGVMGGMVSATLLAIFF 1020 Query: 1014 VPAFFVFV 1021 VP FFV + Sbjct: 1021 VPVFFVVI 1028 Score = 74.9 bits (184), Expect = 1e-15 Identities = 65/334 (19%), Positives = 129/334 (38%), Gaps = 15/334 (4%) Query: 706 VSDVYPDGLPPGESISLNINRSKAEAMGLSFAAVSSTLSAA---MGSLYVNDFPNNGRMQ 762 V DV G ++ + ++ L+ V + L + + + P Q Sbjct: 172 VGDVQLFG--AQYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPG-Q 228 Query: 763 QVILQADATARMQ-LDDVLSLRVR-NSSGGMVPLREIVTAEW-KESPQQMMRFQGFPAMR 819 Q+ A R + ++ + +R NS G +V L+++ E E+ + R G PA Sbjct: 229 QLNASIIAQTRFKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAG 288 Query: 820 IS----GGAAAGVSSGAAMTEMERLVAQLPQGFAVAWTGASLQERQSAAQAPLLMLLSAL 875 + GA A ++ A ++ L PQG V + + Q + + L A+ Sbjct: 289 LGIKLATGANALDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAI 348 Query: 876 V-VFLVLAALYESWSIPLSVMLVVPLGLLGAVAAVILRDMPNDVFFKVGMITIIGLSAKN 934 + VFLV+ ++ L + VP+ LLG A + + GM+ IGL + Sbjct: 349 MLVFLVMYLFLQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDD 408 Query: 935 AILIVEFARQLHAEGHTLIDAAVTAARLRLR-PILMTSLAFTLGVVPLMLASGASAETQH 993 AI++VE ++ E A + +++ ++ ++ + +P+ G++ Sbjct: 409 AIVVVENVERVMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYR 468 Query: 994 AIGTGVFGGMLSGTLLAIFFVPAFFVFVIGTQER 1027 + M L+A+ PA ++ Sbjct: 469 QFSITIVSAMALSVLVALILTPALCATLLKPVSA 502
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 33.3 bits (76), Expect = 0.002 Identities = 25/131 (19%), Positives = 51/131 (38%), Gaps = 15/131 (11%) Query: 56 PGRVAAV-RSAEIRAQISGIVQGRLFEQGAEITSGTVLFQINPAPFKADVDIAAAALLRA 114 G++ RS EI+ + IV+ + ++G + G VL ++ +AD ++LL+A Sbjct: 87 NGKLTHSGRSKEIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQA 146 Query: 115 EAVWVRAR-----QEADRLASLIQT-----EAVSQQMYDDAI----SQRDQAAADVAQTK 160 R + E ++L L + VS++ Q Q + Sbjct: 147 RLEQTRYQILSRSIELNKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKE 206 Query: 161 ATLARRQLDLQ 171 L +++ + Sbjct: 207 LNLDKKRAERL 217 Score = 32.1 bits (73), Expect = 0.003 Identities = 19/109 (17%), Positives = 51/109 (46%), Gaps = 2/109 (1%) Query: 120 RARQEADRLASLIQTEAVSQQMYDDAISQRDQAAADVAQTKATLARRQLDLQFASVEAPI 179 + E++ L++ + + V+Q ++ + + Q ++ LA+ + Q + + AP+ Sbjct: 275 LEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDNIGLLTLELAKNEERQQASVIRAPV 334 Query: 180 SGRIDEALV-SEGALVSPTDTTPMARIQQIDQVYVDVRLPASMLKAMRQ 227 S ++ + V +EG +V+ +T M + + D + V + + + Sbjct: 335 SVKVQQLKVHTEGGVVTTAETL-MVIVPEDDTLEVTALVQNKDIGFINV 382
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 85.3 bits (211), Expect = 3e-21 Identities = 37/142 (26%), Positives = 68/142 (47%), Gaps = 6/142 (4%) Query: 11 MTSALVLIAEDEAEIADILIAYLQRSGLRTQHAIDGIQALAMHQTFKPDLLLLDVQMPNL 70 MT A +L+A+D+A I +L L R+G + + DL++ DV MP+ Sbjct: 1 MTGATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDE 60 Query: 71 DGWNVLNEIRSRG-DTPVIMLTALDQDIDKLMGLRLGADDYVVKPFNPAEVVARVQAVL- 128 + +++L I+ D PV++++A + + + GA DY+ KPF+ E++ + L Sbjct: 61 NAFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALA 120 Query: 129 ----RRARTNTPINTQMLRVGQ 146 R ++ M VG+ Sbjct: 121 EPKRRPSKLEDDSQDGMPLVGR 142
>ACETATEKNASE#Acetate kinase family signature. Length = 400 Score = 31.3 bits (71), Expect = 0.010 Identities = 8/28 (28%), Positives = 16/28 (57%), Gaps = 1/28 (3%) Query: 64 NSKLKIFSIPTDSELAEITLDAEDVAKN 91 +SK+ + +PT+ E I D E + ++ Sbjct: 372 DSKVNVMVVPTNEEYM-IAKDTEKIVES 398