>PF06580#Sensor histidine kinase Length = 349 Score = 37.9 bits (88), Expect = 5e-06 Identities = 15/88 (17%), Positives = 30/88 (34%), Gaps = 17/88 (19%) Query: 54 NAITHGKCDVEESFDIKFII--DEGKLVISVFDNGKGCMINNIKKPDLINPKEGGLGIFI 111 N I HG + + I D G + + V + G + N + G G+ Sbjct: 266 NGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSLALKN--------TKESTGTGLQN 317 Query: 112 ----IKSLMDD---VKITSDADKGTTII 132 ++ L +K++ K ++ Sbjct: 318 VRERLQMLYGTEAQIKLSEKQGKVNAMV 345
>PF01206#SirA family protein Length = 76 Score = 49.8 bits (119), Expect = 2e-11 Identities = 15/68 (22%), Positives = 31/68 (45%) Query: 65 VDLKGVKCPMNFVKAKVALGKIASGEEIGFYLDDDAPINNVPKSVEGEGHQIVNIDREYT 124 +D G+ CP+ +KAK L + +GE + D + + + GH+++ E Sbjct: 8 LDATGLNCPLPILKAKKTLATMNAGEVLYVMATDPGSVKDFESFSKQTGHELLEQKEEDG 67 Query: 125 GYNLLIVK 132 Y+ + + Sbjct: 68 TYHFRLKR 75
>PF05211#Neuraminyllactose-binding hemagglutinin Length = 260 Score = 27.3 bits (60), Expect = 0.042 Identities = 9/42 (21%), Positives = 23/42 (54%), Gaps = 1/42 (2%) Query: 58 EAAMHVSQGSVYAIEYKEEAVELIKKNIEKFQLENIQIMTGR 99 A+ + ++A +E +L +KN+E +Q ++ + + G+ Sbjct: 217 NDAIKSALNKIFANIMQEIDKKLTQKNLESYQ-KDAKELKGK 257
>PF06340#Vibrio cholerae toxin co-regulated pilus biosynthesis protein F (TcpF) Length = 338 Score = 29.2 bits (65), Expect = 0.035 Identities = 15/73 (20%), Positives = 28/73 (38%), Gaps = 9/73 (12%) Query: 350 GKITNPGYKKVIRIYEAENNRAQADLILLEEEEIDTTKPLTIFHPLYTWKKKTFSNYKVR 409 G I +P Y++ ++ Y+ +N L + ++ Y W FSN + Sbjct: 263 GVIYDPVYEETVKPYQPSDNLTGKKLYNVSTNDM---------RNGYKWSNTMFSNSNYK 313 Query: 410 EMLMPIYEDGKLV 422 ++ DG V Sbjct: 314 TQILLTKGDGSGV 326
>PF04647#Accessory gene regulator B Length = 212 Score = 83.3 bits (206), Expect = 3e-22 Identities = 34/161 (21%), Positives = 67/161 (41%), Gaps = 7/161 (4%) Query: 25 KMKYAMTVIWNEIVKFIILLIIFSVLDKRNLFLFSLCLLLPIRTFSGGLHFKSSFICFVT 84 +++Y + V + + II+L++ V+ F L R FSGG H + + C +T Sbjct: 24 EIRYGIEVFLGTVFQIIIILLVAFVIGLAKEVAFCLLSAAVYRRFSGGAHCEKYYRCTLT 83 Query: 85 SLMFF----LLSVVILPNLFTMNINLTIIFITVSILIIYIYSPIPSSFRPILDKKRKRFL 140 SL+ F ++ +I P F + I +I S+L + P+ + I + ++++ L Sbjct: 84 SLLVFNVLAYIAHLIDPAYFQLLI---LIAFITSLLALLFLVPVDNPRNLISNTEQRKTL 140 Query: 141 KYLSVFFTILSTFILFTFALTYNKAFFECGIWTICMQAFQL 181 K + ++ Y + + Q F L Sbjct: 141 KLKTSMVLMVLFGGSIGAYRLYTHQIALAILLGVLWQTFTL 181
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 49.8 bits (119), Expect = 3e-09 Identities = 28/147 (19%), Positives = 58/147 (39%), Gaps = 16/147 (10%) Query: 17 ILVVEDNEYEINNIARVLQSI--SKEFRIYKALTGEECFKVIEKADIDLFILDIELPDIS 74 ILV +D+ I VL + + ++ I D DL + D+ +PD + Sbjct: 6 ILVADDDA----AIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDEN 61 Query: 75 GVKIAEKIRNISKYELTYIIFITTH--IYLQLEAFKTIHCYDFLEKPYKKEELIKIIMRL 132 + +I+ ++ ++ ++A + YD+L KP+ ELI II R Sbjct: 62 AFDLLPRIK--KARPDLPVLVMSAQNTFMTAIKASEK-GAYDYLPKPFDLTELIGIIGR- 117 Query: 133 SRGISSEKQQNKLDRQQVSFQMKDFII 159 + + + + + + Q ++ Sbjct: 118 ----ALAEPKRRPSKLEDDSQDGMPLV 140
>SYCDCHAPRONE#Gram-negative bacterial type III secretion SycD chaperone signature. Length = 168 Score = 30.3 bits (68), Expect = 0.007 Identities = 7/32 (21%), Positives = 11/32 (34%) Query: 262 HMMEVFQKAAEELGGSVELDIERMYPPFNIGE 293 M + A +DI+ PF+ E Sbjct: 81 QAMGQYDLAIHSYSYGAIMDIKEPRFPFHAAE 112
>DNABINDINGHU#Prokaryotic integration host factor signature. Length = 91 Score = 108 bits (272), Expect = 8e-35 Identities = 50/89 (56%), Positives = 66/89 (74%), Gaps = 1/89 (1%) Query: 2 NKADLVAKMAEKSELTKKDAELALNSFMESVEEALVDGDKVQLVGFGTFEVRERKPRQGR 61 NK DL+AK+AE +ELTKKD+ A+++ +V L G+KVQL+GFG FEVRER R+GR Sbjct: 3 NKQDLIAKVAEATELTKKDSAAAVDAVFSAVSSYLAKGEKVQLIGFGNFEVRERAARKGR 62 Query: 62 NPRNPEQVIEIPASKAPVFKAGKTLKEKI 90 NP+ E+ I+I ASK P FKAGK LK+ + Sbjct: 63 NPQTGEE-IKIKASKVPAFKAGKALKDAV 90
>FLAGELLIN#Flagellin signature. Length = 507 Score = 24.2 bits (52), Expect = 0.031 Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 4/46 (8%) Query: 2 AFYNEVAELKKRVKELASQVEEGK-AEEQLKKVQAHSQEVDQILKE 46 NE+ +RV+EL+ Q G ++ LK +Q E+ Q L+E Sbjct: 79 GALNEINNNLQRVRELSVQATNGTNSDSDLKSIQ---DEIQQRLEE 121
>VACCYTOTOXIN#Helicobacter pylori vacuolating cytotoxin signature. Length = 1291 Score = 32.3 bits (73), Expect = 0.031 Identities = 25/98 (25%), Positives = 42/98 (42%), Gaps = 4/98 (4%) Query: 115 DPDNIADAIRVSGIGWVEIGEDDMPAIGSFDPSSRRVKAGQTLSIG-GESFANIGE--AN 171 D N A V W ++ D A+G+++ S G L + ++ +G+ N Sbjct: 114 DWGNAARHYWVKDGQWNKLEVDMQNAVGTYNLSGLINFTGGDLDVNMQKATLRLGQFNGN 173 Query: 172 QITARYSRGNTITPITDEAGNIDINNNEINISNISGSG 209 T+ + T + A NI I+N + I+N GSG Sbjct: 174 SFTSYKDSADRTTRVDFNAKNILIDNF-LEINNRVGSG 210
>BINARYTOXINA#Clostridial binary toxin A signature. Length = 454 Score = 28.1 bits (62), Expect = 0.036 Identities = 17/50 (34%), Positives = 27/50 (54%), Gaps = 3/50 (6%) Query: 167 VSLLNEGNVSIQLDQSATVITIDGKEYKQLDTRIVNPYVSAWYNDIRKDD 216 V L E + SI++D I I+GK+Y + + IVN + +D+ K D Sbjct: 216 VKTLIEQDYSIKID-KIVRIVIEGKQYIKAEASIVNSL--DFKDDVSKGD 262
>GPOSANCHOR#Gram-positive coccus surface protein anchor signature. Length = 539 Score = 28.5 bits (63), Expect = 0.045 Identities = 23/181 (12%), Positives = 52/181 (28%), Gaps = 5/181 (2%) Query: 147 KEIELQVKMIENVEKQLQQLSRKAGVGTASNYEHQVQLNKYNEENQKKSALEQELDNLYL 206 K +E + +++ L + A + + L + SA + L+ Sbjct: 127 KALEGAMNFSTADSAKIKTLEAEKAALAARKADLEKALEGAMNFSTADSAKIKTLEAEKA 186 Query: 207 KLNTTMGIDRTERYDVALEKEVEWMEDVNVDTHAKRMRSQHPSVWSQEQQIRLNELDIQL 266 L LE + + + + + + L Sbjct: 187 ALEARQAELEKA-----LEGAMNFSTADSAKIKTLEAEKAALAARKADLEKALEGAMNFS 241 Query: 267 HVFNSSDSPYEAKESELRKSQIELSSLKENIEQSVKSTYNQMKQLETQYETMKIMLEKAE 326 ++ EA+++ L Q EL E + ++K LE + ++ E Sbjct: 242 TADSAKIKTLEAEKAALEARQAELEKALEGAMNFSTADSAKIKTLEAEKAALEAEKADLE 301 Query: 327 N 327 + Sbjct: 302 H 302
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 54.1 bits (130), Expect = 4e-10 Identities = 47/270 (17%), Positives = 97/270 (35%), Gaps = 46/270 (17%) Query: 99 KDVLRSIEQAEQSVNLAQRSVEQAENAVETTKISFETTKENIENAE-------INLQRTK 151 ++VLR ++ + Q Q E ++ + T I E L Sbjct: 182 EEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYENLSRVEKSRLDDFS 241 Query: 152 ELFDAGAASRSQLE---------QAELAASRRPLETVENQIRQAEIGYQ----------- 191 L A ++ + EL + LE +E++I A+ YQ Sbjct: 242 SLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQLFKNEIL 301 Query: 192 ----QALNQLSQAQIGYRQAQDALEDTVVRAPMSGVISILNVVA-GELAGGTQPLATIAD 246 Q + + + + ++ + +V+RAP+S + L V G + + L I Sbjct: 302 DKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAETLMVIVP 361 Query: 247 INRVY-FQVDVTENIVNMLGDGQEVVVNIPA---ALEGEIIGTIDFISSTANPNTRL--- 299 + V + + GQ ++ + A G ++G + I+ A + RL Sbjct: 362 EDDTLEVTALVQNKDIGFINVGQNAIIKVEAFPYTRYGYLVGKVKNINLDAIEDQRLGLV 421 Query: 300 YTVKVNID-------NQERKIRTGMSGSMD 322 + V ++I+ N+ + +GM+ + + Sbjct: 422 FNVIISIEENCLSTGNKNIPLSSGMAVTAE 451 Score = 39.4 bits (92), Expect = 2e-05 Identities = 23/144 (15%), Positives = 46/144 (31%), Gaps = 7/144 (4%) Query: 67 MVLPKIPGRVTSVNVKLGDFVQKDSVLFTIDQKDVLRSIEQAEQSVNLAQRSVEQAENAV 126 + P V + VK G+ V+K VL + + + S+ A+ +EQ + Sbjct: 98 EIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQAR--LEQTRYQI 155 Query: 127 ETTKISFETTKENIENAEINLQRTKELFDAGAASRSQLEQAELAASRRPLETVENQI--R 184 + I E E Q E L + + + + E + + Sbjct: 156 LSRSIELNKLPELKLPDEPYFQNVSEEEVLRLT---SLIKEQFSTWQNQKYQKELNLDKK 212 Query: 185 QAEIGYQQALNQLSQAQIGYRQAQ 208 +AE A + +++ Sbjct: 213 RAERLTVLARINRYENLSRVEKSR 236
>ACRIFLAVINRP#Acriflavin resistance protein family signature. Length = 1034 Score = 738 bits (1907), Expect = 0.0 Identities = 254/1059 (23%), Positives = 477/1059 (45%), Gaps = 49/1059 (4%) Query: 3 LSKIAVNKPVTTAMLMLVILLLGGISLARLPLDLMPDIEIPVVIVTTSYSGVGPHEMENL 62 ++ + +P+ +L +++++ G +++ +LP+ P I P V V+ +Y G +++ Sbjct: 1 MANFFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDT 60 Query: 63 VTRPIEDTVATVSDLEAVTSVS-SQGSSMVMARFDFGTDMDFAALEMREKVDMARGRLPD 121 VT+ IE + + +L ++S S S GS + F GTD D A ++++ K+ +A LP Sbjct: 61 VTQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQ 120 Query: 122 GATSPMVMKLDPNAMPVVMLSL---SNGADLFELQTLAEDTIQPRLERISGVASVSIIGD 178 + ++ +++ + G ++ ++ L R++GV V + G Sbjct: 121 EVQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFGA 180 Query: 179 YTNEIEIKVDQQQLNAYGIGIDQLTQVISASNMNMPGGTVERGAEK------LTIRTMGE 232 + I +D LN Y + + + N + G + +I Sbjct: 181 -QYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTR 239 Query: 233 FETVEEIGELPI-TLPSGSIIRLKDVAAVEVIQKEISTISRTNSQNGIGIQIQKQSGTNT 291 F+ EE G++ + GS++RLKDVA VE+ + + I+R N + G+ I+ +G N Sbjct: 240 FKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGANA 299 Query: 292 VQVANSIDREVEKLRAEHPE-FELITIMNQAEYIQDSITSVAKNAVVGGLLAVLVLYVFL 350 + A +I ++ +L+ P+ +++ + ++Q SI V K +L LV+Y+FL Sbjct: 300 LDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVMYLFL 359 Query: 351 RNIGSTLIIATALPISIIATFVLLYFNGITLNMMTLGGLALGVGMLVDNAIVVLENIYRY 410 +N+ +TLI A+P+ ++ TF +L G ++N +T+ G+ L +G+LVD+AIVV+EN+ R Sbjct: 360 QNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERV 419 Query: 411 RSEGHSR-KDAAIEGAKEVSMAVSASTLTTIAVFMPIIFVGGITSILFGEFAMTVALSLA 469 E K+A + ++ A+ + AVF+P+ F GG T ++ +F++T+ ++A Sbjct: 420 MMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMA 479 Query: 470 ASLLVALTLIPMLCSKILKVETAVVGKPTEGMKPKKKRRFPGFYEAFDRGFEALEQTYKK 529 S+LVAL L P LC+ +LK + + GF+ F+ F+ Y Sbjct: 480 LSVLVALILTPALCATLLK-----------PVSAEHHENKGGFFGWFNTTFDHSVNHYTN 528 Query: 530 ALGWGLRHRKSTVLLAILIFVGSVSSVFFVGVEFMPSADQGEISINVTLPTGSQLYETDD 589 ++G L +L+ LI G V + F+P DQG + LP G+ T Sbjct: 529 SVGKILGSTGRYLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQK 588 Query: 590 VLKQIEALIEPLEEIEITSTTVGGGGGLGGGLMGSSENQGSMTVMLLGLSERSRSDVEVA 649 VL Q+ E+ + S G G ++N G V L ER+ + Sbjct: 589 VLDQVTDYYLKNEKANVESVFTVNGFSFS----GQAQNAGMAFVSLKPWEERNGDENSAE 644 Query: 650 DEIRDLAKDIAGAEISVSTADGM--------AMGGSPIEIKVKGDDLTVLEGITDDFRRS 701 I ++ M A G I G L + Sbjct: 645 AVIHRAKMELGKIRDGFVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGM 704 Query: 702 IRQVEGT-RDVETSFTEGIPELQIHINKYEASTYGLTTAQVANAVRSFAFGNTVSQFRES 760 Q + V + E + ++ +++ +A G++ + + + + G V+ F + Sbjct: 705 AAQHPASLVSVRPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDR 764 Query: 761 GDETDIVIRGEESIRQDLANLEQLSIQTPMGGTVPLNQVADIHITQGPTAINREDQQRLA 820 G + ++ + R ++++L +++ G VP + H G + R + Sbjct: 765 GRVKKLYVQADAKFRMLPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSM 824 Query: 821 TVT-SDISGRDLVSVTRDIEALLVEYEMPEGYLYEIGGENEQLEETFADLILAVVLAVVL 879 + G +E L ++P G Y+ G + Q + V ++ V+ Sbjct: 825 EIQGEAAPGTSSGDAMALMENLAS--KLPAGIGYDWTGMSYQERLSGNQAPALVAISFVV 882 Query: 880 VYMIMASQFESLMHPFTIIMSVPLAFSGGLLALFITGRTLNVTAFIGLLMLAGIVINNGI 939 V++ +A+ +ES P ++++ VPL G LLA + + +V +GLL G+ N I Sbjct: 883 VFLCLAALYESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAI 942 Query: 940 VLVDYINTL-RSSGKERSEAIQIAGPVRLRPILMTTLTTTLAMVPLALGIGEGAEMQAPM 998 ++V++ L GK EA +A +RLRPILMT+L L ++PLA+ G G+ Q + Sbjct: 943 LIVEFAKDLMEKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAV 1002 Query: 999 ATTVIGGLLLSTVLTLLVTPVIYTLMDDFSAAVKRKLKG 1037 V+GG++ +T+L + PV + + ++R KG Sbjct: 1003 GIGVMGGMVSATLLAIFFVPVFFVV-------IRRCFKG 1034
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 67.3 bits (164), Expect = 3e-16 Identities = 39/202 (19%), Positives = 79/202 (39%), Gaps = 10/202 (4%) Query: 1 MVREMKEKKIL----ILESALRVFRQYGFHESKISMIAEEAGIGKGTVYEYFDSKKEIYE 56 M R+ K++ IL+ ALR+F Q G + + IA+ AG+ +G +Y +F K +++ Sbjct: 1 MARKTKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFS 60 Query: 57 ETIFYTADIYLQEVERIILENH-SIRERLIAIAKHLGNFTEKNM---GTVENLIRNSNIL 112 E + + + L I H+ T +E + + Sbjct: 61 EIWELSESNIGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFV 120 Query: 113 SQETKVGLLE--IREKLYNALSKTFSQWEDKLEIRDDLNSKMITMIFLGMMKEFYEDALI 170 + V + + + Y+ + +T + + DL ++ +I G + E+ L Sbjct: 121 GEMAVVQQAQRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYISGLMENWLF 180 Query: 171 FNKEDQGEIEIEDMIDVLLEGI 192 + + E D + +LLE Sbjct: 181 APQSFDLKKEARDYVAILLEMY 202
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 30.2 bits (68), Expect = 0.014 Identities = 24/178 (13%), Positives = 62/178 (34%), Gaps = 25/178 (14%) Query: 164 ASQSSQYVVSQMEVEEAQLDDALVELREFLSQ-------PRGVSELQMELDARL--SQAT 214 S + +++E Q+ +EL + + VSE ++ L Q + Sbjct: 137 LKTQSSLLQARLEQTRYQILSRSIELNKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFS 196 Query: 215 SFKTQLTDLEIREPALQSAIQVAQA-------------EGNTNSQIMINDNAGSQQITLE 261 +++ Q E+ ++ A + +++ A ++ LE Sbjct: 197 TWQNQKYQKELNLDKKRAERLTVLARINRYENLSRVEKSRLDDFSSLLHKQAIAKHAVLE 256 Query: 262 STETLLKI--ELAEVQSNIQSFRTQITEIQDEIEELQVELQDKKHQERLINQRVNIAE 317 ++ EL +S ++ ++I ++E + + + + ++L NI Sbjct: 257 QENKYVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQLFK-NEILDKLRQTTDNIGL 313
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 51.0 bits (122), Expect = 2e-11 Identities = 20/61 (32%), Positives = 36/61 (59%) Query: 3 KKSNGFTLVELIVVIAILGIIVAIAVPRLTGYIRIAEERVCAANRKTVEKMYSAFLLEND 62 K GFTL+E++VVI I+G++ ++ VP L G A+++ ++ +E + L+N Sbjct: 5 DKQRGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQKAVSDIVALENALDMYKLDNH 64 Query: 63 H 63 H Sbjct: 65 H 65
>NUCEPIMERASE#Nucleotide sugar epimerase signature. Length = 334 Score = 61.3 bits (149), Expect = 6e-13 Identities = 53/349 (15%), Positives = 116/349 (33%), Gaps = 92/349 (26%) Query: 2 ILLTGATGFLGGFVLEEMVKRGHKVTCF---------VRETSNLEKIKELNVPYIFGKLD 52 L+TGA GF+G V + +++ GH+V + + LE + + + L Sbjct: 3 YLVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLKQARLELLAQPGFQFHKIDLA 62 Query: 53 DYESICNALKDKE--TLINIA-------SLGFGHAPHIVN---------ACQEMNINRAI 94 D E + + + SL HA N C+ I + Sbjct: 63 DREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFLNILEGCRHNKIQHLL 122 Query: 95 FISTTGI--------FTKLNPDSKGIRLEAERLIKESN------------LDYTIIRPTM 134 + S++ + F+ + + L A K++N L T +R Sbjct: 123 YASSSSVYGLNRKMPFSTDDSVDHPVSLYA--ATKKANELMAHTYSHLYGLPATGLRFFT 180 Query: 135 IYGTPKDRNM--WRLVQYLKKFSVLPILGNGTYLQQPVYVKDLAWAVVSA------YETD 186 +YG +M ++ + + + + + G + Y+ D+A A++ +T Sbjct: 181 VYGPWGRPDMALFKFTKAMLEGKSIDVYNYGKMKRDFTYIDDIAEAIIRLQDVIPHADTQ 240 Query: 187 KSIKKA-----------YNISGLKALTYNEVVDVMGRVLGKKILKIHVPMKLSYSLLKIY 235 +++ YNI + + + + LG + K +P++ +L+ Sbjct: 241 WTVETGTPAASIAPYRVYNIGNSSPVELMDYIQALEDALGIEAKKNMLPLQPG-DVLETS 299 Query: 236 ENISSKPKLKAEQVLRLNENKAFSHDEATKDFGYKP-ISFEKGIELQVK 283 + + + G+ P + + G++ V Sbjct: 300 ADTKA----------------------LYEVIGFTPETTVKDGVKNFVN 326
>TYPE3IMSPROT#Type III secretion system inner membrane S protein family signature. Length = 354 Score = 30.5 bits (69), Expect = 0.014 Identities = 12/89 (13%), Positives = 32/89 (35%), Gaps = 2/89 (2%) Query: 427 GLKRKIGPLGIKNMLTTGIKVLASSLIMGFATLHVYRYLSFSFTGSTLIDLIVLSVSIGF 486 G KR + L + +KV+ S+++ + + + L I Sbjct: 127 GAKRIFSIKSLVEFLKSILKVVLLSILIWI-IIKGNLVTLLQLPTCGIECITPLLGQILR 185 Query: 487 GALVYLLLIYL-MKVKELFWFINLFKKKL 514 +V + ++ + + + + + K+L Sbjct: 186 QLMVICTVGFVVISIADYAFEYYQYIKEL 214
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 64.5 bits (157), Expect = 1e-14 Identities = 29/123 (23%), Positives = 53/123 (43%), Gaps = 1/123 (0%) Query: 2 KGRVVIADDEPITRMDIVEMLLEEGYDIVGEASDGFDAIELCKKHKPDLVLMDVKMPLLN 61 +++ADD+ R + + L GYD+ S+ DLV+ DV MP N Sbjct: 3 GATILVADDDAAIRTVLNQALSRAGYDVRI-TSNAATLWRWIAAGDGDLVVTDVVMPDEN 61 Query: 62 GLKAAEVINQDELAACVVLVTAYSGREFVEEAKKAGAMGYVVKPINEKNLLPTLEVAVSK 121 I + V++++A + +A + GA Y+ KP + L+ + A+++ Sbjct: 62 AFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAE 121 Query: 122 SKE 124 K Sbjct: 122 PKR 124
>PF06580#Sensor histidine kinase Length = 349 Score = 40.2 bits (94), Expect = 1e-05 Identities = 20/92 (21%), Positives = 38/92 (41%), Gaps = 11/92 (11%) Query: 380 LVVNELLQNALEHGFKGRQE-GKIRIHIRKSDIYTDVTVVDSGLGFDAEKVKTKSLGLSI 438 ++V L++N ++HG + GKI + K + + V ++G ++ GL Sbjct: 258 MLVQTLVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSLALKNTKESTGTGL-- 315 Query: 439 VKSIVRERL---YGN---LQMNSSNQGTEIRF 464 VRERL YG ++++ Sbjct: 316 --QNVRERLQMLYGTEAQIKLSEKQGKVNAMV 345
>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein signature. Length = 347 Score = 29.0 bits (65), Expect = 0.047 Identities = 21/76 (27%), Positives = 35/76 (46%), Gaps = 11/76 (14%) Query: 151 DVGGGTTNIAIFKNGEVIDTACLDIGGRLIKFANDQLKVSYASGKIKVL-----AKEIGI 205 D+GGGTT +A+ V+ ++ + IGG D+ ++Y L A+ I Sbjct: 165 DIGGGTTEVAVISLNGVVYSSSVRIGGDRF----DEAIINYVRRNYGSLIGEATAERIKH 220 Query: 206 DVEVGNKLSVEEVERI 221 E+G+ +EV I Sbjct: 221 --EIGSAYPGDEVREI 234
>FIMBRIALPAPE#Escherichia coli: P pili tip fibrillum papE protein signature. Length = 173 Score = 29.6 bits (66), Expect = 0.017 Identities = 29/124 (23%), Positives = 54/124 (43%), Gaps = 18/124 (14%) Query: 62 NPAVPYETDEVTRVIQDGVNEKIYKEIQN--WTVSELREWILSNETTGSDIKRIGRGLTS 119 N V + E+ ++Q G N+K + N +++ ++ I SN TG+ I Sbjct: 43 NAEVNWGDIEIQNLVQSGGNQKDFTVDMNCPYSLGTMKVTITSNGQTGNSI--------- 93 Query: 120 EMVAAVTKLMSNLDLVYGAKKIIVTAHCNTTIGESGTLAYRLQPNHTTDNIEGIKVSLYE 179 +V + + L+Y + ++ N+ IG + TL ++ P T K++LY Sbjct: 94 -LVPNTSTASGDGLLIY-----LYNSN-NSGIGNAVTLGSQVTPGKITGTAPARKITLYA 146 Query: 180 GLSY 183 L Y Sbjct: 147 KLGY 150
>CARBMTKINASE#Bacterial carbamate kinase signature. Length = 314 Score = 29.0 bits (65), Expect = 0.042 Identities = 27/129 (20%), Positives = 48/129 (37%), Gaps = 18/129 (13%) Query: 204 VKAAYSSGTPALGVGPGNVPVFIERS--ADIKEAIGKIFSSKTFDNGTVCASEQAIVT-- 259 +K G + G G VPV +E ++ I K + + V A I+T Sbjct: 179 IKKLVERGVIVIASGGGGVPVILEDGEIKGVEAVIDKDLAGEKLAE-EVNADIFMILTDV 237 Query: 260 -----------ERCISEKVKEEVKR--QGGYFLVGEQLEKVTAIMETVTGGMNPKIVGRS 306 E+ + E EE+++ + G+F G KV A + + G I+ Sbjct: 238 NGAALYYGTEKEQWLREVKVEELRKYYEEGHFKAGSMGPKVLAAIRFIEWGGERAIIAHL 297 Query: 307 AQDIATIAG 315 + + + G Sbjct: 298 EKAVEALEG 306
>PF08280#M protein trans-acting positive regulator Length = 530 Score = 28.7 bits (64), Expect = 0.029 Identities = 13/30 (43%), Positives = 19/30 (63%) Query: 117 SFQAQILEVQVILNNRKEKKLLADLSEVLT 146 SF IL +Q ++ KE+K ADL++ LT Sbjct: 501 SFDESILSIQELMYQVKEEKFQADLTKQLT 530
>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein signature. Length = 347 Score = 58.2 bits (141), Expect = 5e-12 Identities = 48/259 (18%), Positives = 98/259 (37%), Gaps = 54/259 (20%) Query: 62 VRDGLVVDYIGATQIVRKLKEKLEKR-LGQSLLKAAIALPPGTGSKDSRTHNYVVEGAGL 120 ++DG++ D+ ++++ +++ + + + +P G + R +GAG Sbjct: 76 MKDGVIADFFVTEKMLQHFIKQVHSNSFMRPSPRVLVCVPVGATQVERRAIRESAQGAGA 135 Query: 121 EVVSVVDEPTAAN-----NVLQVKNGVIVDIGGGTTGLSIIKNDEVIHTVDEATGGTHLS 175 V +++EP AA V + ++VDIGGGTT +++I + V+++ GG Sbjct: 136 REVFLIEEPMAAAIGAGLPVSEATGSMVVDIGGGTTEVAVISLNGVVYSSSVRIGGDRFD 195 Query: 176 LVLAGNYRVKF------EEAEKIKK--------DPTRKKEV------------------- 202 + R + AE+IK D R+ EV Sbjct: 196 EAIINYVRRNYGSLIGEATAERIKHEIGSAYPGDEVREIEVRGRNLAEGVPRGFTLNSNE 255 Query: 203 ------------LAIVRPVIQKMASIIQNNIVDYDVETIYLVGGTCCLDGFEDVVEKETG 250 ++ V +++ + ++I + + L GG L + ++ +ETG Sbjct: 256 ILEALQEPLTGIVSAVMVALEQCPPELASDISE---RGMVLTGGGALLRNLDRLLMEETG 312 Query: 251 ISTQKPHNPFLVTPLGIAM 269 I +P G Sbjct: 313 IPVVVAEDPLTCVARGGGK 331
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 81.4 bits (201), Expect = 6e-19 Identities = 61/375 (16%), Positives = 111/375 (29%), Gaps = 115/375 (30%) Query: 53 ISGNVKPAQLIRSGFKVAGVIDHIHVEEGDIVKEGQTLM--------------------- 91 SG K + I ++ I V+EG+ V++G L+ Sbjct: 92 HSGRSKEIKPI-----ENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQA 146 Query: 92 QLDPYDYQLGVNAA-------------------------------RSQYQALQKQA---- 116 +L+ YQ+ + + Q+ Q Q Sbjct: 147 RLEQTRYQILSRSIELNKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKE 206 Query: 117 ---------ESSINSGVNQAVAHLEFVNTQYDRMLKLYEEGAIPKKTLEEVETQIV---- 163 ++ + +N+ ++ D L + AI K + E E + V Sbjct: 207 LNLDKKRAERLTVLARINRYENLSRVEKSRLDDFSSLLHKQAIAKHAVLEQENKYVEAVN 266 Query: 164 -------------------------VAQNKYQESLDASPIAEAQLDQARTGLEAAESKIG 198 V Q E LD + L E + Sbjct: 267 ELRVYKSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDNIGLLTLELAKNEERQQ 326 Query: 199 DTILKSPITGTVIK-RTFEVGETVAPGHP-TIILGRLDKLEVEIGVPDGLVDNIRIGKNV 256 +++++P++ V + + G V +I+ D LEV V + + I +G+N Sbjct: 327 ASVIRAPVSVKVQQLKVHTEGGVVTTAETLMVIVPEDDTLEVTALVQNKDIGFINVGQNA 386 Query: 257 DV----FIYGLDKEIKGTIASI--DTTADLETRT-FGVKVEID-------NKENRIRPGM 302 + F Y + G + +I D D F V + I+ NK + GM Sbjct: 387 IIKVEAFPYTRYGYLVGKVKNINLDAIEDQRLGLVFNVIISIEENCLSTGNKNIPLSSGM 446 Query: 303 IAKVMMNTDKLTTIM 317 + T + I Sbjct: 447 AVTAEIKTGMRSVIS 461
>ACRIFLAVINRP#Acriflavin resistance protein family signature. Length = 1034 Score = 504 bits (1300), Expect = e-164 Identities = 200/1043 (19%), Positives = 441/1043 (42%), Gaps = 47/1043 (4%) Query: 1 MTKWCLEHRSIVAVLSIFIFLSGIFVYTTMERQENPDVVAPGATVKTIYPGATPEDIEKF 60 M + + VL+I + ++G + + P + P +V YPGA + ++ Sbjct: 1 MANFFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDT 60 Query: 61 IVKPLESKIGEIPDVKMMLSYSLDNVGVIIIRLEDLSDEDINETWNLLRQKVDEAE--LP 118 + + +E + I ++ M S S D+ G + I L S D + ++ K+ A LP Sbjct: 61 VTQVIEQNMNGIDNLMYMSSTS-DSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLP 119 Query: 119 EQAWDPEI---DTDLIDTYGMLFTISGDRFEYKELKSIADE-LQEELEKMDGIAQVDING 174 ++ I + F ++ +++ L +++G+ V + G Sbjct: 120 QEVQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFG 179 Query: 175 YIDEEIHINLDLLRMKHFNIPVETIGMALKATNINIPGGSL----KLRGT--NVPISTTG 228 + I LD + + + + LK N I G L L G N I Sbjct: 180 A-QYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQT 238 Query: 229 EYKNIHDIENTIVGMSEAGNVIYLKDVADIEQVEGDRDVFVGSNGEKALLMNLKYSDGEN 288 +KN + + ++ G+V+ LKDVA +E + +V NG+ A + +K + G N Sbjct: 239 RFKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGAN 298 Query: 289 IVNIGEEVMTFLEEYKNTIAEDMNITVITDQAEYVEDAINLFEKNLLSAISLVVVVVLIS 348 ++ + + L E + + M + D +V+ +I+ K L AI LV +V+ + Sbjct: 299 ALDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVMYLF 358 Query: 349 MG-YRSALVVSSAIPITVMATFAFMRFTGIVLHQVSISSLIVCLGLLVANAIVANDSM-D 406 + R+ L+ + A+P+ ++ TFA + G ++ +++ +++ +GLLV +AIV +++ Sbjct: 359 LQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVER 418 Query: 407 LYLSKGMSRKEAIVYGINEVKIPILTSTLTTVASFLPLLLMEGVAGKFVKSLPIMVTVAL 466 + + + KEA +++++ ++ + A F+P+ G G + I + A+ Sbjct: 419 VMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAM 478 Query: 467 FSSFILSLTVVPAMGYTFLKGSQGEKKK------SLFSDVSDFFLKQYKFILKATLKMPI 520 S +++L + PA+ T LK E + F+ D + Y + L Sbjct: 479 ALSVLVALILTPALCATLLKPVSAEHHENKGGFFGWFNTTFDHSVNHYTNSVGKILGSTG 538 Query: 521 ITILVAMGLLVFSTTMISSLGLQLFPFVERDQYVIDVTLIEGTSAEKTKEVITEIEE--M 578 +L+ ++ + L P ++ ++ + L G + E+T++V+ ++ + + Sbjct: 539 RYLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQVTDYYL 598 Query: 579 LKEDPSVDSFLSKVG-------DGIPKFYPSFVP---NQIASNQAQFVVNGKVSEMVALQ 628 E +V+S + G + S P N A+ V++ E+ ++ Sbjct: 599 KNEKANVESVFTVNGFSFSGQAQNAGMAFVSLKPWEERNGDENSAEAVIHRAKMELGKIR 658 Query: 629 DRIDQTVVGARVEVKQLENAVPVGLPIQVRVSGNDIDTLIRTSNEIKEILYTV-EEGQHV 687 D + L A + + +G D L + N++ + V Sbjct: 659 DGFVIPFNMPAIVE--LGTATGFDFELIDQ-AGLGHDALTQARNQLLGMAAQHPASLVSV 715 Query: 688 QDDYGHEVLKMVIDVNQDKASMVGITNYDIASTVRMAINGHEVIKMRPDDTDDDIPVVLR 747 + + + + ++V+Q+KA +G++ DI T+ A+ G V D + ++ Sbjct: 716 RPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYV--NDFIDRGRVKKLYVQ 773 Query: 748 IPTDEKNTVQVLDNIFVTSQFTGRNVPIQQIADIHSEFSLSRILRRDRDRTITVGLYPKP 807 + + +D ++V S G VP H + R+ R + ++ + P Sbjct: 774 ADAKFRMLPEDVDKLYVRSA-NGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEIQGEAAP 832 Query: 808 GYSAAEVLNVVEERMEGFEVPQGYMMEFGGESEDRTEAFESLIGPFFLAAMLIYVILMFQ 867 G S+ + + ++E ++P G ++ G S + ++ +++++ L Sbjct: 833 GTSSGDAMALMENLAS--KLPAGIGYDWTGMSYQERLSGNQAPALVAISFVVVFLCLAAL 890 Query: 868 FMDLRQPLIIMGTIPLSFIGVIWGLKITGYPLGFMALMGTVSLMGIVVNNGIVLLDYIN- 926 + P+ +M +PL +GV+ + ++G ++ +G+ N I+++++ Sbjct: 891 YESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILIVEFAKD 950 Query: 927 ILAKSGIEAKEAVIEACATRLRPIMIGMITTVIGLVPMAL---IGGSLWAPLAYAIIFGL 983 ++ K G EA + A RLRPI++ + ++G++P+A+ G + ++ G+ Sbjct: 951 LMEKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIGVMGGM 1010 Query: 984 MVSSILTMLVIPSAFMLFRRRDK 1006 + +++L + +P F++ RR K Sbjct: 1011 VSATLLAIFFVPVFFVVIRRCFK 1033 Score = 101 bits (252), Expect = 9e-24 Identities = 76/531 (14%), Positives = 196/531 (36%), Gaps = 67/531 (12%) Query: 516 LKMPIITILVAMGLLVFSTTMISSLGLQLFPFVERDQYVIDVTLIEGTSAEKTKEVITE- 574 ++ PI ++A+ L++ I L + +P + + G A+ ++ +T+ Sbjct: 6 IRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYP-GADAQTVQDTVTQV 64 Query: 575 IEEMLKEDPSVDSFLSKVGDGIPKFYPSFVPNQIASNQAQFVVNGKVSEMVALQDRIDQT 634 IE+ + ++ S + S + L + Sbjct: 65 IEQNMNGIDNLMYMSS-------------------------TSDSAGSVTITLTFQSGTD 99 Query: 635 VVGARVEVKQLENAVPVGLPIQVRVSGNDIDTLIRTSNEIKEILYTVEEGQHVQD---DY 691 A+V+V+ LP +V+ G ++ +S+ + + + QD DY Sbjct: 100 PDIAQVQVQNKLQLATPLLPQEVQQQGISVEKS--SSSYLMVAGFVSDNPGTTQDDISDY 157 Query: 692 GHEVLK--------------------MVIDVNQDKASMVGITNYDIASTVRMAINGHEVI 731 +K M I ++ D + +T D+ + +++ + Sbjct: 158 VASNVKDTLSRLNGVGDVQLFGAQYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAG 217 Query: 732 KMRPDDTDDDIPVVLRIPTDEK-NTVQVLDNIFVTSQFTGRNVPIQQIADIHSEFSLSRI 790 ++ + I + + + + G V ++ +A + + Sbjct: 218 QLGGTPALPGQQLNASIIAQTRFKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNV 277 Query: 791 LRR-DRDRTITVGLYPKPGYSAAEVLNVVEERMEGFE--VPQGYMMEFGGESEDRTE--- 844 + R + +G+ G +A + ++ ++ + PQG + D T Sbjct: 278 IARINGKPAAGLGIKLATGANALDTAKAIKAKLAELQPFFPQGMKVL---YPYDTTPFVQ 334 Query: 845 -AFESLIGPFFLAAMLIYVILMFQFMDLRQPLIIMGTIPLSFIGVIWGLKITGYPLGFMA 903 + ++ F A ML+++++ ++R LI +P+ +G L GY + + Sbjct: 335 LSIHEVVKTLFEAIMLVFLVMYLFLQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLT 394 Query: 904 LMGTVSLMGIVVNNGIVLLDYI-NILAKSGIEAKEAVIEACATRLRPIMIGMITTVIGLV 962 + G V +G++V++ IV+++ + ++ + + KEA ++ + ++ + + Sbjct: 395 MFGMVLAIGLLVDDAIVVVENVERVMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFI 454 Query: 963 PMALIGGS---LWAPLAYAIIFGLMVSSILTMLVIPSAFMLFRRRDKKGNG 1010 PMA GGS ++ + I+ + +S ++ +++ P+ + + Sbjct: 455 PMAFFGGSTGAIYRQFSITIVSAMALSVLVALILTPALCATLLKPVSAEHH 505
>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein signature. Length = 347 Score = 126 bits (318), Expect = 4e-34 Identities = 85/370 (22%), Positives = 150/370 (40%), Gaps = 58/370 (15%) Query: 2 SKIIGIDLGTSTSEVGIFETGKPIVIGNHLNEKITPSVVGLGEEGQ------LIIGRDAK 55 S + IDLGT+ + + + G+ IV LNE PSVV + ++ +G DAK Sbjct: 10 SNDLSIDLGTANTLI--YVKGQGIV----LNE---PSVVAIRQDRAGSPKSVAAVGHDAK 60 Query: 56 DQMLFKPEDTVMEVKRLMGSREKVKMGGKEYRPQEMSSFILKYLKECAEAYLEEEVLRAV 115 + P + + R M K + + ++M +K + R + Sbjct: 61 QMLGRTPGN--IAAIRPM----KDGVIADFFVTEKMLQHFIKQVHS---NSFMRPSPRVL 111 Query: 116 ITVPAYFTDEQRRATVEAGGLAGLKVERIINEPTAAALAYGIDHMDENQHILVYDLGGGT 175 + VP T +RRA E+ AG + +I EP AAA+ G+ + E +V D+GGGT Sbjct: 112 VCVPVGATQVERRAIRESAQGAGAREVFLIEEPMAAAIGAGLP-VSEATGSMVVDIGGGT 170 Query: 176 LDVTVLEMFEGVLEVKASSGNNQLGGKDFDQKLIDYLCDRFFEQYHIDLRSDLRAMAKLK 235 +V V+ + V S + ++GG FD+ +I+Y+ Y + Sbjct: 171 TEVAVISLNGVV-----YSSSVRIGGDRFDEAIINYVR----RNYGSLIGE--------- 212 Query: 236 KSAEECKITLS----GHEAYHVLIPFIAEKEGNPVSLEETITRQVFESLIEEIVQSTLKP 291 +AE K + G E + + EG P + ++ E+L +E + + Sbjct: 213 ATAERIKHEIGSAYPGDEVREIEVRGRNLAEGVPRGFTLN-SNEILEAL-QEPLTGIVSA 270 Query: 292 ITIALKDAKLTSKDL--DL----ILMVGGSTRVPLVKSVVDHHLGQGSQSLVDPDLAVVT 345 + +AL+ +L D+ +++ GG + + ++ G DP V Sbjct: 271 VMVALEQ---CPPELASDISERGMVLTGGGALLRNLDRLLMEETGIPVVVAEDPLTCVAR 327 Query: 346 GAAIQAGMIN 355 G MI+ Sbjct: 328 GGGKALEMID 337
>SYCDCHAPRONE#Gram-negative bacterial type III secretion SycD chaperone signature. Length = 168 Score = 34.5 bits (79), Expect = 9e-05 Identities = 25/98 (25%), Positives = 37/98 (37%), Gaps = 6/98 (6%) Query: 80 LGEMEQGDFEDLCKEYNQALMLAKLKKYKKAIKILNSKEFASIKITSFQNLLGLCYLAQG 139 L E+ E L Y+ A + KY+ A K+ + + F LG C A G Sbjct: 28 LNEISSDTLEQL---YSLAFNQYQSGKYEDAHKVFQALCVLDHYDSRFFLGLGACRQAMG 84 Query: 140 KKVKALHVWHQALKIDIDNPYTLRYIQES---LGNLEE 174 + A+H + +DI P + E G L E Sbjct: 85 QYDLAIHSYSYGAIMDIKEPRFPFHAAECLLQKGELAE 122
>SECA#SecA protein signature. Length = 901 Score = 55.7 bits (134), Expect = 3e-10 Identities = 18/30 (60%), Positives = 21/30 (70%) Query: 428 QEPHVREEPKIGRNEPCPCGSGKKYKKCCG 457 E K+GRN+PCPCGSGKKYK+C G Sbjct: 869 ALAAQTGERKVGRNDPCPCGSGKKYKQCHG 898
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 83.3 bits (206), Expect = 7e-21 Identities = 33/111 (29%), Positives = 63/111 (56%), Gaps = 2/111 (1%) Query: 4 ILIIEDEDPIRELIKLNLVMAGYETLEACDGEEGLQYLNNEKIDLVLLDVMLPQQDGYTL 63 IL+ +D+ IR ++ L AGY+ + +++ DLV+ DV++P ++ + L Sbjct: 6 ILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFDL 65 Query: 64 LPKILK--KNIPTIMLTAKDRLKDKVKGLEMGADDYVTKPFEAMELLARVK 112 LP+I K ++P ++++A++ +K E GA DY+ KPF+ EL+ + Sbjct: 66 LPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIG 116
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 39.6 bits (92), Expect = 2e-06 Identities = 27/198 (13%), Positives = 61/198 (30%), Gaps = 21/198 (10%) Query: 5 TKEAMAASLKERLRKTTLQNITVKDIVKDCEVNRQTFYYHFQDSFALLEWIFETEGTKAI 64 T++ + + + + ++ +I K V R Y+HF+D L I+E + Sbjct: 12 TRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWELSESNIG 71 Query: 65 STNKTYD---------TWEQGFLRVFQYVEQNK-------MLVHNAYHSMGREHV---ER 105 Y + + V + + ++ H V +R Sbjct: 72 ELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFVGEMAVVQQAQR 131 Query: 106 YLYSVVYRLLINVINE-QAKGMNVPEDDKGFIADFYKYAFVGIMLEWIHQ-GMKERPEDI 163 L Y + + M + A + G+M W+ + ++ Sbjct: 132 NLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYISGLMENWLFAPQSFDLKKEA 191 Query: 164 VDRLSKLITGAIHRALLK 181 D ++ L+ + L+ Sbjct: 192 RDYVAILLEMYLLCPTLR 209
>OMPADOMAIN#OMPA domain signature. Length = 346 Score = 75.0 bits (184), Expect = 5e-18 Identities = 36/125 (28%), Positives = 59/125 (47%), Gaps = 17/125 (13%) Query: 123 IRFRDSVLFGSGQARISQEGYMLLDHVTAKLRTI---DNAIVIEGFTDNIPIQTNEFPSN 179 + VLF +A + EG LD + ++L + D ++V+ G+TD I ++ + N Sbjct: 215 FTLKSDVLFNFNKATLKPEGQAALDQLYSQLSNLDPKDGSVVVLGYTDRI--GSDAY--N 270 Query: 180 WELSVARAIGVARYMIDEEYIEESRISVSGFGEQQPIDSNETNEGR---------ANNRR 230 LS RA V Y+I + I +IS G GE P+ N + + A +RR Sbjct: 271 QGLSERRAQSVVDYLI-SKGIPADKISARGMGESNPVTGNTCDNVKQRAALIDCLAPDRR 329 Query: 231 IEITI 235 +EI + Sbjct: 330 VEIEV 334
>SYCDCHAPRONE#Gram-negative bacterial type III secretion SycD chaperone signature. Length = 168 Score = 31.1 bits (70), Expect = 0.002 Identities = 12/47 (25%), Positives = 19/47 (40%) Query: 125 TVQEGLAIAPEDLELTFKKAQIYFIQDKNEEAIEGFQFLIEADSETY 171 T+ I+ + LE + A + K E+A + FQ L D Sbjct: 24 TIAMLNEISSDTLEQLYSLAFNQYQSGKYEDAHKVFQALCVLDHYDS 70
>NUCEPIMERASE#Nucleotide sugar epimerase signature. Length = 334 Score = 176 bits (449), Expect = 4e-55 Identities = 76/344 (22%), Positives = 140/344 (40%), Gaps = 42/344 (12%) Query: 1 MAVLVCGGAGYIGSHTVLALLKEKVEVIVLDNLS-------KGHREALPSE--VKLYQGD 51 M LV G AG+IG H LL+ +V+ +DNL+ K R L ++ + ++ D Sbjct: 1 MKYLVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLKQARLELLAQPGFQFHKID 60 Query: 52 LRDEKLLAGIFIDNEIDGVIHFAADSLVGESVEAPLKYYENNVYGSLSLLKAMAKHGVKK 111 L D + + +F + V V S+E P Y ++N+ G L++L+ + ++ Sbjct: 61 LADREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFLNILEGCRHNKIQH 120 Query: 112 IVFSSTAAVYGEPREVPIVEESLT-LPTNPYGETKLAVERMLKWAQEAHGIEFVVLRYFN 170 ++++S+++VYG R++P + P + Y TK A E M +G+ LR+F Sbjct: 121 LLYASSSSVYGLNRKMPFSTDDSVDHPVSLYAATKKANELMAHTYSHLYGLPATGLRFFT 180 Query: 171 AAGAEEEGTIGEDHSPESHLIPLVLEVALGKREKIYIFGEDYPTEDGTCVRDYIHVMDLA 230 G P+ L + GK +Y G RD+ ++ D+A Sbjct: 181 VYGPWGR--------PDMALFKFTKAMLEGKSIDVY--------NYGKMKRDFTYIDDIA 224 Query: 231 DAHLLALKRLQRGEGSGT---------------YNLGNGKGFSVQEVIETARRITGKPIP 275 +A + + + T YN+GN + + I+ G Sbjct: 225 EAIIRLQDVIPHADTQWTVETGTPAASIAPYRVYNIGNSSPVELMDYIQALEDALGIEAK 284 Query: 276 AEMAPRRAGDPAVLIASSDKARKELGWTSQYDSLEKIIGTAWKW 319 M P + GD A + + +G+T + +++ + W Sbjct: 285 KNMLPLQPGDVLETSADTKALYEVIGFTPET-TVKDGVKNFVNW 327
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 81.8 bits (202), Expect = 5e-19 Identities = 60/364 (16%), Positives = 109/364 (29%), Gaps = 97/364 (26%) Query: 58 VFSENEVMVLPRTPGIVDCVNVKLGDSVQKDQVLFVLEQ--------------------- 96 S + P IV + VK G+SV+K VL L Sbjct: 91 THSGRSKEIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQ 150 Query: 97 --DSSVLLGIE--QAEEAVKSATKGTEQAAQG-----IALAENQYKMAKDQYDDAQANLE 147 + IE + E + ++ +L + Q+ ++Q + NL+ Sbjct: 151 TRYQILSRSIELNKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLD 210 Query: 148 R----------------------------IKSLYDAGAVPKTQL---------DQAEMAA 170 + SL A+ K + E+ Sbjct: 211 KKRAERLTVLARINRYENLSRVEKSRLDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRV 270 Query: 171 ADGSLVAARSQITQAEISYQQ--------TLGQLRQA-------EISVDQARTNLNHLEV 215 L S+I A+ YQ L +LRQ + + + + Sbjct: 271 YKSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDNIGLLTLELAKNEERQQASVI 330 Query: 216 KAPASGIISTLDLR-VGQMVTNAQPVATIV-DVNALYIQFELPENMINQFKRGQEVVVSI 273 +AP S + L + G +VT A+ + IV + + L + + I GQ ++ + Sbjct: 331 RAPVSVKVQQLKVHTEGGVVTTAETLMVIVPEDDTLEVTALVQNKDIGFINVGQNAIIKV 390 Query: 274 PAANVR---DAKATVGLVSA--ATDQRTQL-YPVRIDLTKSGDL-------VRPGSTGEV 320 A V ++ DQR L + V I + ++ + G Sbjct: 391 EAFPYTRYGYLVGKVKNINLDAIEDQRLGLVFNVIISIEENCLSTGNKNIPLSSGMAVTA 450 Query: 321 QVAT 324 ++ T Sbjct: 451 EIKT 454
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 78.5 bits (193), Expect = 2e-20 Identities = 32/169 (18%), Positives = 68/169 (40%), Gaps = 6/169 (3%) Query: 1 MKDKREIGKEEIIQAAMTVFDKHGFHETKMKDIATEAGIGKGTLYEYFESKKELFRQMII 60 K + + ++ I+ A+ +F + G T + +IA AG+ +G +Y +F+ K +LF ++ Sbjct: 5 TKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWE 64 Query: 61 YKLNSYIEGIEKVIAHEGTTREKLMGFAAYHG--GFMHEHHSKA--EMIFLKSDSLPEEF 116 ++ E + A ++ H + E + E+IF K + + E Sbjct: 65 LSESNIGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFVGEMA 124 Query: 117 K--QWMVAGRNQIFRLMLSLIEEGMNRGELRKDLNKEIATAVIFGGIKE 163 Q + + + ++ + L DL A ++ G I Sbjct: 125 VVQQAQRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYISG 173
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 76.8 bits (189), Expect = 9e-20 Identities = 29/117 (24%), Positives = 57/117 (48%), Gaps = 1/117 (0%) Query: 4 KILIIDDQPRICSLLEEVF-KKDYEVYLATEANKALEIIETAQPDLAIVDMNLGQESGVD 62 IL+ DD I ++L + + Y+V + + A I DL + D+ + E+ D Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64 Query: 63 LIEKMLEIKNDLLLVMLTGNYTPRHKERGAELGVKAFLEKPFDIIEMRSCIASILSN 119 L+ ++ + + DL +++++ T + +E G +L KPFD+ E+ I L+ Sbjct: 65 LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAE 121
>SECA#SecA protein signature. Length = 901 Score = 28.7 bits (64), Expect = 0.033 Identities = 22/74 (29%), Positives = 36/74 (48%), Gaps = 9/74 (12%) Query: 202 KIHSIEVPTLVIASDKDVVTPYEELLMIHRKIKNSLFVMLPEAGHASCYE------KMRE 255 I+++E P + SD+++ E K L ++PEA A E MR Sbjct: 27 IINAME-PEMEKLSDEELKGKTAEFRARLEK-GEVLENLIPEA-FAVVREASKRVFGMRH 83 Query: 256 FNVQVLGFLVMNQG 269 F+VQ+LG +V+N+ Sbjct: 84 FDVQLLGGMVLNER 97
>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein signature. Length = 347 Score = 455 bits (1172), Expect = e-164 Identities = 180/332 (54%), Positives = 251/332 (75%), Gaps = 5/332 (1%) Query: 3 GFGSDIGIDLGTASVLVFVKGKGIVLQEPSVVAIDKN----TNNILAVGEEARRMLGRTP 58 F +D+ IDLGTA+ L++VKG+GIVL EPSVVAI ++ ++ AVG +A++MLGRTP Sbjct: 8 MFSNDLSIDLGTANTLIYVKGQGIVLNEPSVVAIRQDRAGSPKSVAAVGHDAKQMLGRTP 67 Query: 59 GNIVAIRPLKDGVISDYEVTEKMLRYFIQKTTGKRIFF-KPKIIVCVPSGVTEVEKRAVV 117 GNI AIRP+KDGVI+D+ VTEKML++FI++ P+++VCVP G T+VE+RA+ Sbjct: 68 GNIAAIRPMKDGVIADFFVTEKMLQHFIKQVHSNSFMRPSPRVLVCVPVGATQVERRAIR 127 Query: 118 DATTEAGARTAYLIEEPIAAAIGAGLDISIPNGHMIVDIGGGTCDVAVISLGGIVVSTSI 177 ++ AGAR +LIEEP+AAAIGAGL +S G M+VDIGGGT +VAVISL G+V S+S+ Sbjct: 128 ESAQGAGAREVFLIEEPMAAAIGAGLPVSEATGSMVVDIGGGTTEVAVISLNGVVYSSSV 187 Query: 178 KVAGDKFDEAIIRHMRKRHNIMIGERTAENMKIEIGCAYPRAKEVTMDVRGRNLVSGLPV 237 ++ GD+FDEAII ++R+ + +IGE TAE +K EIG AYP + ++VRGRNL G+P Sbjct: 188 RIGGDRFDEAIINYVRRNYGSLIGEATAERIKHEIGSAYPGDEVREIEVRGRNLAEGVPR 247 Query: 238 NIKISSEEILDALEESVSSIADAVHSVLEKTPPELAADISDQGIVMTGGGALLWGLDKLI 297 ++S EIL+AL+E ++ I AV LE+ PPELA+DIS++G+V+TGGGALL LD+L+ Sbjct: 248 GFTLNSNEILEALQEPLTGIVSAVMVALEQCPPELASDISERGMVLTGGGALLRNLDRLL 307 Query: 298 SKRTGIPVYIAEDAISCVAKGTGQALDSIHLL 329 + TGIPV +AED ++CVA+G G+AL+ I + Sbjct: 308 MEETGIPVVVAEDPLTCVARGGGKALEMIDMH 339
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 45.3 bits (107), Expect = 3e-07 Identities = 12/36 (33%), Positives = 19/36 (52%) Query: 4 GLYTATSGMQTAQRKLDVTSNNIANINTTGFKKDVV 39 + A SG+ AQ L+ SNNI++ N G+ + Sbjct: 3 LINNAMSGLNAAQAALNTASNNISSYNVAGYTRQTT 38 Score = 31.1 bits (70), Expect = 0.008 Identities = 9/37 (24%), Positives = 16/37 (43%) Query: 318 LEESNINSIQEMVEMISTFRDYEANQKVVQAYDEILQ 354 S +N +E + + Y AN +V+Q + I Sbjct: 504 QSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFD 540
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 44.9 bits (106), Expect = 1e-07 Identities = 10/43 (23%), Positives = 21/43 (48%) Query: 221 LETSNVQIVDEMVKMITAQRAYETSSKTIQTADEMLGMANNLR 263 S V + +E + Q+ Y +++ +QTA+ + N+R Sbjct: 504 QSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALINIR 546 Score = 38.8 bits (90), Expect = 2e-05 Identities = 14/53 (26%), Positives = 23/53 (43%) Query: 4 LWTAASGMKAQQLNIDTVANNMANVNTTAYKAQRTEFKDLLYANMKRTNLNNG 56 + A SG+ A Q ++T +NN+++ N Y Q T + NG Sbjct: 4 INNAMSGLNAAQAALNTASNNISSYNVAGYTRQTTIMAQANSTLGAGGWVGNG 56
>FLGFLGJ#Flagellar protein FlgJ signature. Length = 313 Score = 53.2 bits (127), Expect = 2e-11 Identities = 23/75 (30%), Positives = 46/75 (61%), Gaps = 1/75 (1%) Query: 21 GNEDAQGLKEVTQDFEAVFINMMLKQMRATVSEGGLTEKSYGRGIFEEMQDENMAEVMSK 80 G + A ++ V + E +F+ MMLK MR + + GL + R ++ M D+ +A+ M+ Sbjct: 26 GEDPAANIRPVARQVEGMFVQMMLKSMRDALPKDGLFSSEHTR-LYTSMYDQQIAQQMTA 84 Query: 81 GRGIGIAQELYRQLS 95 G+G+G+A+ + +Q++ Sbjct: 85 GKGLGLAEMMVKQMT 99
>PF07472#Fucose-binding lectin II Length = 245 Score = 27.3 bits (60), Expect = 0.023 Identities = 23/89 (25%), Positives = 36/89 (40%), Gaps = 9/89 (10%) Query: 59 IRAKVTAYSPSDDRNGINA--DANPSITSTGKTPGKIYAAADPKRLPYGTKIYIPNFGEV 116 I VTA S + I D NP +T + A + T+I G+V Sbjct: 142 IAFGVTALVNSSAQQTIEVYVDDNPKPAAT-------FQGAGTQDANLNTQIVNSGKGKV 194 Query: 117 EIQDTGGALRNDKKNVRIDIFKETYEGAI 145 + T + + ++DIFK+TY G + Sbjct: 195 RVVVTANGKPSKIGSRQVDIFKKTYFGLV 223
>SUBTILISIN#Subtilisin serine protease family (S8) signature. Length = 326 Score = 28.3 bits (63), Expect = 0.022 Identities = 10/30 (33%), Positives = 15/30 (50%) Query: 7 AEIIVLSMGPPSAENALREAIARGAHKGIL 36 +II +S+G P L EA+ + IL Sbjct: 141 VDIISMSLGGPEDVPELHEAVKKAVASQIL 170
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 66.6 bits (162), Expect = 7e-16 Identities = 27/167 (16%), Positives = 62/167 (37%), Gaps = 15/167 (8%) Query: 1 MASQSEIKYNRLVEKAEMLFIQFGYKAVSVDEISEAAGISKMTIYKYFDSKETLFIEVML 60 +++ +++ A LF Q G + S+ EI++AAG+++ IY +F K LF E+ Sbjct: 5 TKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWE 64 Query: 61 LLMDRQYNLIEAKLNDISGTLEK-----INFMMNYSLEGAK-------DYSLALYKDIMN 108 L L G + ++ ++ + + + M Sbjct: 65 LSESNIGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFVGEMA 124 Query: 109 IPHITERLIAVKNEKNKVLFESMIREGMEKGEVKRGDVVFMADMIIM 155 + +R + ++ E ++ +E + + A +I+ Sbjct: 125 VVQQAQRNLC---LESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMR 168
>PF05272#Virulence-associated E family protein Length = 892 Score = 34.7 bits (79), Expect = 3e-04 Identities = 20/70 (28%), Positives = 30/70 (42%), Gaps = 17/70 (24%) Query: 23 VAAVKEIDLELYQGEFVVIL-GPSGSGKSTLLNILGGM--------DLPT--------QG 65 + V + + ++ V+L G G GKSTL+N L G+ D+ T G Sbjct: 582 MGHVARVMEPGCKFDYSVVLEGTGGIGKSTLINTLVGLDFFSDTHFDIGTGKDSYEQIAG 641 Query: 66 KVFMEGQEIT 75 V E E+T Sbjct: 642 IVAYELSEMT 651
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 69.9 bits (171), Expect = 4e-15 Identities = 62/362 (17%), Positives = 118/362 (32%), Gaps = 87/362 (24%) Query: 11 IVIVLGAAAFFMMNRGIVVEVEMAAVTQGNIAKYVEELGVVKTKNQASVYADTAGRVTDV 70 I+ F++ ++ +VE+ A G + + + V ++ Sbjct: 62 YFIMGFLVIAFIL--SVLGQVEIVATANGK---------LTHSGRSKEIKPIENSIVKEI 110 Query: 71 LVKEGEQVNTGDVLVRLDS----------------------------------------- 89 +VKEGE V GDVL++L + Sbjct: 111 IVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELKL 170 Query: 90 -----------QQLSRQKRELEAQRLGIIAQYNEATQSIDEKEIEKLELE--IEVIERRI 136 +++ R ++ Q Q + ++D+K E+L + I E Sbjct: 171 PDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYENLS 230 Query: 137 KEAKRVVENNKRLYEAGAIS---YEEYNITVTSLEAE-----------QSNLEGVQLDLE 182 + K +++ L AI+ E E +S + + + + Sbjct: 231 RVEKSRLDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQ 290 Query: 183 LIKKPISENIS---AQYEAQLRQLDIQMEALESQSGDFVITAHMSGTVL-MKAVEKGSYV 238 L+ + I Q + L +++ E + VI A +S V +K +G V Sbjct: 291 LVTQLFKNEILDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVV 350 Query: 239 QPGVPLLEI-GDTEILYIESDLLIGDIANVEVGAPVII---SNKDLRIIDLQGTVTKIHP 294 L+ I + + L + + + DI + VG II + R L G V I+ Sbjct: 351 TTAETLMVIVPEDDTLEVTALVQNKDIGFINVGQNAIIKVEAFPYTRYGYLVGKVKNINL 410 Query: 295 QA 296 A Sbjct: 411 DA 412
>PF06580#Sensor histidine kinase Length = 349 Score = 30.6 bits (69), Expect = 0.018 Identities = 20/101 (19%), Positives = 34/101 (33%), Gaps = 18/101 (17%) Query: 520 VISNSIDALIDEKGGKRQIFIGIYEQGNDVITEIEDTGGGISEAIADKVFDLYFTTKEDT 579 ++ N I I + +I + + V E+E+TG K Sbjct: 263 LVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSLA--------------LKNTK 308 Query: 580 QGTGLGLYMTKVIIEKNLKG---SLHWKNTDRGVKMMIRIP 617 + TG GL + + + L G + V M+ IP Sbjct: 309 ESTGTGLQNVRERL-QMLYGTEAQIKLSEKQGKVNAMVLIP 348
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 81.8 bits (202), Expect = 8e-20 Identities = 23/108 (21%), Positives = 45/108 (41%) Query: 14 KVLYVEDEPDTREEMTKFLKRRVGKLYVAKNGLEGIAAFDQNQPHIVVTDLKMPVMDGLE 73 +L +D+ R + + L R + + N +VVTD+ MP + + Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64 Query: 74 MIKAIRNREHQPAIIITSALSDSETILAAVDIGIVKYVVKPIHPKELM 121 ++ I+ +++ SA + T + A + G Y+ KP EL+ Sbjct: 65 LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELI 112
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 92.2 bits (229), Expect = 3e-25 Identities = 30/117 (25%), Positives = 53/117 (45%), Gaps = 1/117 (0%) Query: 4 RVLIVDDAGFMRMTIKDVLTKNGYEVVGEAENGLKAVEKFKELEPTLTIMDITMPEMNGI 63 +L+ DD +R + L++ GY+V N + L + D+ MP+ N Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRI-TSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63 Query: 64 EAVKEIKKIDANAKVIMCSAMGQKSMVIEAIKAGAKDFIVKPFQEDGVIQAVQKVLG 120 + + IKK + V++ SA I+A + GA D++ KPF +I + + L Sbjct: 64 DLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALA 120
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 61.4 bits (149), Expect = 4e-13 Identities = 25/135 (18%), Positives = 55/135 (40%), Gaps = 10/135 (7%) Query: 5 IAICDDDTYHVESIKEFLCQ-LTKE-HDTVIIEAYSGEELLDKAQNKSINIAFLDIDMAG 62 I + DDD +I+ L Q L++ +D I + L ++ D+ M Sbjct: 6 ILVADDD----AAIRTVLNQALSRAGYDVRI--TSNAATLWRWIAAGDGDLVVTDVVMPD 59 Query: 63 MNGIEVGKEIRKMFPEAIIVFLTGYK--HYALEAFNLESFQYIIKPITHSKFQSLVEKIM 120 N ++ I+K P+ ++ ++ A++A ++ Y+ KP ++ ++ + + Sbjct: 60 ENAFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRAL 119 Query: 121 IRLKEKESYKEQSRY 135 K + S E Sbjct: 120 AEPKRRPSKLEDDSQ 134
>PF06580#Sensor histidine kinase Length = 349 Score = 35.6 bits (82), Expect = 4e-04 Identities = 54/359 (15%), Positives = 130/359 (36%), Gaps = 92/359 (25%) Query: 63 YILVLFTMSYTLSLIFNRSYLNIALIFLYGLALLFLSELIVVYGIALIFNVDPSEMLMLN 122 + + + M L+ + RS++ + + L L I +++ V + + Sbjct: 44 FNIAISLMGLVLTHAY-RSFIKRQGWLKLNMGQIILRVLPACVVIGMVWFVANT-----S 97 Query: 123 TYRILAIILAKFISFMVIHKWTERMPLLESIKNKKQLPLVLMFLFNTIIIYLVFVFYRYL 182 +R+LA I K ++F LPL L +FN +++ ++ Sbjct: 98 IWRLLAFINTKPVAF--------------------TLPLALSIIFNVVVVTFMW------ 131 Query: 183 EGSLAISKILLFSVICAVLLFNWLSYILTRKVVYQEQQEELMKLKVREYENQSL------ 236 ++L F W + ++ E + M +E + +L Sbjct: 132 ----------------SLLYFGWHFFKNYKQ---AEIDQWKMASMAQEAQLMALKAQINP 172 Query: 237 -YLKNAEELIEG-IRSQRHDLNNYIGTLYGLLSLNKIETAKQYIESIEEEFSSVNEIIDI 294 ++ NA I I + +L L+ + + + + S+ +E + V+ + + Sbjct: 173 HFMFNALNNIRALILEDPTKAREMLTSLSELMRYSLRYSNARQV-SLADELTVVDSYLQL 231 Query: 295 GHPIIMVLVDLKREKAR-REKISFDIDIDVP-RNLTIDDIDLSIVLSNVLDNAIEACISS 352 + +++ F+ I+ ++ + +++ +++N I+ I+ Sbjct: 232 -------------ASIQFEDRLQFENQINPAIMDVQV----PPMLVQTLVENGIKHGIAQ 274 Query: 353 NSFNMTIDLKMYVNEGYLIIKIVNTKSPSYSINEESIEQSFTTKPDKSNHGIGLRNIKK 411 I LK + G + +++ NT S + K K + G GL+N+++ Sbjct: 275 LPQGGKILLKGTKDNGTVTLEVENTGSLAL-------------KNTKESTGTGLQNVRE 320
>PF04647#Accessory gene regulator B Length = 212 Score = 118 bits (298), Expect = 9e-36 Identities = 31/162 (19%), Positives = 71/162 (43%), Gaps = 1/162 (0%) Query: 29 FGTEMLIITLAKGIGLFVIACFFGLLIEATIFILAFSSLRMQAGGFHARSFLKCFFITDI 88 +G E+ + T+ + I + ++A GL E +L+ + R +GG H + +C + + Sbjct: 27 YGIEVFLGTVFQIIIILLVAFVIGLAKEVAFCLLSAAVYRRFSGGAHCEKYYRCTLTSLL 86 Query: 89 ITFTSIYIAYIIPTDFILISQIAFLIWTIQLILQFAPIETPNKPLTSHEKRLYKTRSYIV 148 + YIA++I + + + I ++ +L P++ P +++ E+R + Sbjct: 87 VFNVLAYIAHLIDPAYFQLLILIAFITSLLALLFLVPVDNPRNLISNTEQRKTL-KLKTS 145 Query: 149 VIIGTILALALSWTSPHHSIYGLIFSLGFFCEGITLVPLFSK 190 +++ + ++ + L LG + TL L K Sbjct: 146 MVLMVLFGGSIGAYRLYTHQIALAILLGVLWQTFTLTALGHK 187
>FLGMOTORFLIG#Flagellar motor switch protein FliG signature. Length = 344 Score = 29.4 bits (66), Expect = 0.018 Identities = 19/72 (26%), Positives = 32/72 (44%), Gaps = 9/72 (12%) Query: 34 VQKYMSNLSKVERDMLEERLHKPGLTNLSELSVEEQKIADENVKELNNLLWAMVHEGKPV 93 +K N+SK ML+E + G T ++ +QKI +L+ + +G+ V Sbjct: 282 QEKIFKNMSKRAASMLKEDMEFLGPTRRKDVEESQQKIV--------SLIRKLEEQGEIV 333 Query: 94 LIYSTSNDDVYV 105 I +DV V Sbjct: 334 -ISRGGEEDVLV 344
>PF06580#Sensor histidine kinase Length = 349 Score = 34.8 bits (80), Expect = 8e-05 Identities = 20/133 (15%), Positives = 55/133 (41%), Gaps = 32/133 (24%) Query: 4 IEEEFSSVNEIIDIGHPIIMVLVDIKREKAR-REKISFDIEIDVP-RNLTIDDIDLSIVL 61 + +E + V+ + + + +++ F+ +I+ ++ + +++ Sbjct: 218 LADELTVVDSYLQL-------------ASIQFEDRLQFENQINPAIMDVQV----PPMLV 260 Query: 62 SNVLDNAIEACISSNSVNMTIDLKMYVNEGYLIIKIVNTKSPSYFIDEESIEQSFTTKPD 121 +++N I+ I+ I LK + G + +++ NT S + K Sbjct: 261 QTLVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSLAL-------------KNT 307 Query: 122 KSNHGIGLRNIKK 134 K + G GL+N+++ Sbjct: 308 KESTGTGLQNVRE 320
>adhesinb#Adhesin B signature. Length = 310 Score = 31.7 bits (72), Expect = 0.003 Identities = 14/74 (18%), Positives = 23/74 (31%), Gaps = 10/74 (13%) Query: 1 MKKLSIVCMIILGLVLLTACGGNSDVAGDGNQTVRINFPTATTTGTLYPLGAAMANVWNT 60 MKK + +++L V L AC G+ T + + N Sbjct: 1 MKKCRFLVLLLLAFVGLAACSSQKSSTETGSS----KLNVVATNSIIADI------TKNI 50 Query: 61 ELDNVRVSSQASDG 74 D + + S G Sbjct: 51 AGDKINLHSIVPVG 64
>PF06057#Type IV secretory pathway VirJ component Length = 243 Score = 29.8 bits (67), Expect = 0.024 Identities = 20/58 (34%), Positives = 26/58 (44%), Gaps = 12/58 (20%) Query: 221 GTGG-RDLKKEIGGIMMQQGIEALQNDPETGVIVL----ISKPPDEEVAERVLALIAH 273 G GG L K +GGI+ QQG P G L K P ++V + LA+I Sbjct: 59 GDGGWATLDKAVGGILQQQGW------PVVGWSSLKYYWKQKDP-KDVTQDTLAIIDK 109
>PF06580#Sensor histidine kinase Length = 349 Score = 30.6 bits (69), Expect = 0.014 Identities = 14/92 (15%), Positives = 29/92 (31%), Gaps = 13/92 (14%) Query: 81 GIKESNAGGTISQYLAGHDIKALVIEGQPSGKNWWVLVINGDEVKFEVRGDLQGLGNYET 140 GI + GG I +++G + V N + + + G G Sbjct: 271 GIAQLPQGGKI------------LLKGTKDNGTVTLEVENTGSLALKNTKESTGTGLQNV 318 Query: 141 MNRLKQEYDSDCGIMSIGPAGEQGCTIASLAA 172 RL+ Y ++ I + + + + Sbjct: 319 RERLQMLYGTEAQI-KLSEKQGKVNAMVLIPG 349
>GPOSANCHOR#Gram-positive coccus surface protein anchor signature. Length = 539 Score = 47.4 bits (112), Expect = 1e-07 Identities = 40/312 (12%), Positives = 91/312 (29%), Gaps = 9/312 (2%) Query: 369 QTTIKAMISNIANTSQQLASSSE--ELTATSQQSATAADEVAKTIEEIAGSANEQAKDTE 426 T + ++ + T + + +++ + + +E ++ Sbjct: 36 NTNEVSAVATRSQTDTLEKVQERADKFEIENNTLKLKNSDLSFNNKALKDHNDELTEELS 95 Query: 427 NGVLKTDELSKIIEEDLKDMEEINNTIEQLTILKDDGIGIVKELTNKTNNSDQAIKTIYQ 486 N K + K + E ++E+ L + + + K + + Sbjct: 96 NAKEKLRKNDKSLSEKASKIQELEARKADLEKALEGAMNFSTADSAKIKTLEAEKAALAA 155 Query: 487 STVDTNESAERIGEASKIIEGIAEQTNLLALNAAIEAARAGEAGKGFAVVAEE--IRKLA 544 D ++ E S A+ L A AA+EA +A + Sbjct: 156 RKADLEKALEGAMNFSTADS--AKIKTLEAEKAALEARQAELEKALEGAMNFSTADSAKI 213 Query: 545 EQSTVSVNEIDEMLKKLQSNSQSAVNVMETVLSTIKEQVESVSMTEGKFDGIAEQVERVR 604 + + L+ + A+N + IK + E + AE + + Sbjct: 214 KTLEAEKAALAARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEAR---QAELEKALE 270 Query: 605 AVVKKSTDSVNVMNLTKDELANIMQSLAAVAEENAAGTEEASASVEEQTASMEEIASSSE 664 + ST + + E A + A + ++ + + AS E Sbjct: 271 GAMNFSTADSAKIKTLEAEKAALEAEKADLEHQSQVLNANRQSLRRDLDASREAKKQLEA 330 Query: 665 SLARLAEDMQES 676 +L E + S Sbjct: 331 EHQKLEEQNKIS 342
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 205 bits (523), Expect = 6e-62 Identities = 133/555 (23%), Positives = 217/555 (39%), Gaps = 86/555 (15%) Query: 6 SGFNTATSGIFASQRSLDVVGHNIANANTPGYSRQRLEQAASTPMSLYGGKGMLGTGVDT 65 S N A SG+ A+Q +L+ +NI++ N GY+RQ A + +L G G +G GV Sbjct: 2 SLINNAMSGLNAAQAALNTASNNISSYNVAGYTRQTTIMAQANS-TLGAG-GWVGNGVYV 59 Query: 66 VAIKQMRSEFLDFKYRDEVNALGYWETKEYGLEFIESIFNEPSDTSVATVTDELFAGFEE 125 +++ F+ + R + + I+++ + S +S+AT + F + Sbjct: 60 SGVQREYDAFITNQLRAAQTQSSGLTARYEQMSKIDNMLST-STSSLATQMQDFFTSLQT 118 Query: 126 LSKNPESITARTVVRERGIAFTNTMNQTYKQLEKLAKDVNSDINATVSSINSYADQIAEL 185 L N E AR + + N T + L K VN I A+V IN+YA QIA L Sbjct: 119 LVSNAEDPAARQALIGKSEGLVNQFKTTDQYLRDQDKQVNIAIGASVDQINNYAKQIASL 178 Query: 186 NKQIYRFEADGS--SANDLRDRRNLLIDDLSKLVNVEVRDVNDGYGSSKMVVQINGQPLV 243 N QI R G+ S N+L D+R+ L+ +L+++V VEV + G + + NG LV Sbjct: 179 NDQISRLTGVGAGASPNNLLDQRDQLVSELNQIVGVEVSVQDGG---TYNITMANGYSLV 235 Query: 244 NHDQAYKLDATATKSSTFDDEINMTEIKWANGSVVNQDSLKGELGALLTLRD-------- 295 A +L A + + + + N + + G LG +LT R Sbjct: 236 QGSTARQLAAVPSSADPSRTTVAYVDGTAGNIEIPEKLLNTGSLGGILTFRSQDLDQTRN 295 Query: 296 ---------------------GTTKDNKGIPFYIEQLNDFVGSFAKAVNGIH-------- 326 D F I + + K I Sbjct: 296 TLGQLALAFAEAFNTQHKAGFDANGDAGEDFFAIGKPAVLQNTKNKGDVAIGATVTDASA 355 Query: 327 ----EDGLDLDGDEGVAFFTDGNTG----DQITAKNIQISLEID---------------- 362 + + D ++ NT K LE+ Sbjct: 356 VLATDYKISFDNNQWQVTRLASNTTFTVTPDANGKVAFDGLELTFTGTPAVNDSFTLKPV 415 Query: 363 -----------RDPRKIAAATMGELGEPVVGDGSNALRLTELRHAQMSFDNGEFKGTPED 411 D KIA A+ + G+ D N L +L+ + + + D Sbjct: 416 SDAIVNMDVLITDEAKIAMASEEDAGD---SDNRNGQALLDLQSNSKTVGGAK---SFND 469 Query: 412 FMISLIANLGVNTQEATRMASNQSILTNQIDRQRQSISGVSLDEEMANMVRFQHAYNASA 471 SL++++G T ++ Q + Q+ Q+QSISGV+LDEE N+ RFQ Y A+A Sbjct: 470 AYASLVSDIGNKTATLKTSSATQGNVVTQLSNQQQSISGVNLDEEYGNLQRFQQYYLANA 529 Query: 472 RMVTTMDEMIDVIIN 486 +++ T + + D +IN Sbjct: 530 QVLQTANAIFDALIN 544
>FLAGELLIN#Flagellin signature. Length = 507 Score = 84.7 bits (209), Expect = 2e-20 Identities = 42/138 (30%), Positives = 73/138 (52%), Gaps = 1/138 (0%) Query: 1 MRITNNMMISSMMQNLNGNLLRMDQKQLQATTGKRIHKPSDDPIGISRSLKLRSDIKELE 60 I N + NLN + + + ++G RI+ DD G + + + S+IK L Sbjct: 2 QVINTNSLSLLTQNNLNKSQSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGLT 61 Query: 61 QYKKNVDDTISWLETTELAVHNVGAAVERLRELTVQASNGVLTEDETKKIKAEVVELKNQ 120 Q +N +D IS +TTE A++ + ++R+REL+VQA+NG ++ + K I+ E+ + + Sbjct: 62 QASRNANDGISIAQTTEGALNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLEE 121 Query: 121 IISLGNTT-YGGKYVFSG 137 I + N T + G V S Sbjct: 122 IDRVSNQTQFNGVKVLSQ 139 Score = 40.8 bits (95), Expect = 5e-06 Identities = 30/192 (15%), Positives = 58/192 (30%), Gaps = 10/192 (5%) Query: 95 VQASNGVLTEDETKKIKAEVVELKNQIISLGNTTYGGKYVFSGKKTDQKLFNDAGEYNVS 154 NG ++ E V L I+ G + S K + N ++ Sbjct: 292 GNDGNGKVSTTIN----GEKVTLTVADITAGAANVDAATLQSSKNVYTSVVNGQFTFDDK 347 Query: 155 NLSIDHAPDAIDDKIKFNVGMGETIEINVVGFELFGGDEVSHEDDVVGVEGGEQAGIIKM 214 + ++ E + + + + + Sbjct: 348 TKNESAKLSDLEANNAVKG------ESKITVNGAEYTANAAGDKVTLAGKTMFIDKTASG 401 Query: 215 IEDIEAKLEAGDTAGLTDDLQNIDIYYDQYSTIRSEIGAKVNRMELVENRIVDDRLNLME 274 + + + A + L +ID + +RS +GA NR + + + NL Sbjct: 402 VSTLINEDAAAAKKSTANPLASIDSALSKVDAVRSSLGAIQNRFDSAITNLGNTVTNLNS 461 Query: 275 LQSKIEDADVAE 286 +S+IEDAD A Sbjct: 462 ARSRIEDADYAT 473
>PF06580#Sensor histidine kinase Length = 349 Score = 29.1 bits (65), Expect = 0.007 Identities = 9/48 (18%), Positives = 21/48 (43%), Gaps = 2/48 (4%) Query: 100 PENIKEMTANLRAPLVINTKNKKGKQLMLDSEVYHTKHYILEEIQKMQ 147 P +EM +L + + + +Q+ L E+ Y+ ++ +Q Sbjct: 190 PTKAREMLTSLSELMRYSLRYSNARQVSLADELTVVDSYL--QLASIQ 235
>FLAGELLIN#Flagellin signature. Length = 507 Score = 173 bits (440), Expect = 2e-51 Identities = 98/325 (30%), Positives = 148/325 (45%), Gaps = 6/325 (1%) Query: 1 MRINNNLMAMNTHRQLGSAQANGAKSMEKLSSGFRINRAGDDAAGLSISEKMRGQIRGLD 60 IN N +++ T L +Q++ + ++E+LSSG RIN A DDAAG +I+ + I+GL Sbjct: 2 QVINTNSLSLLTQNNLNKSQSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGLT 61 Query: 61 QASRNAQDGISLIQTAEGALNETHSILQRMRELSVQSSNDTNVQEDRDALQAEMDQLATE 120 QASRNA DGIS+ QT EGALNE ++ LQR+RELSVQ++N TN D ++Q E+ Q E Sbjct: 62 QASRNANDGISIAQTTEGALNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLEE 121 Query: 121 ITRIADNTEFNTKNLLGGEFEGKFHIGANEGQNMELKIAAMDADSLKVQGEVYEAQDLDN 180 I R+++ T+FN +L + + K +GAN+G+ + + + +D SL + G Sbjct: 122 IDRVSNQTQFNGVKVLSQDNQMKIQVGANDGETITIDLQKIDVKSLGLDGFNVNGPKEAT 181 Query: 181 VDNVQIQSRTGEDVTVEFAA-----IQVADGAAVTSTTAAWNTDGDVLTVTLAQAAPTST 235 V +++ + + V GA VT TTA D + Q Sbjct: 182 VGDLKSSFKNVTGYDTYAVGANKYRVDVNSGAVVTDTTAPTVPDKVYVNAANGQLTTDDA 241 Query: 236 GSTGLVQASDQDIMNAINAAGGEYGLSAIANGTVSGTAITNGSAGIADVDLNNWELDVEA 295 + V A A AI G T G D N + Sbjct: 242 ENNTAVDLFKTTKSTAGTAEAKA-IAGAIKGGKEGDTFDYKGVTFTIDTKTGNDGNGKVS 300 Query: 296 SAASGIDISSQAKADEAITTINTAL 320 + +G ++ A A Sbjct: 301 TTINGEKVTLTVADITAGAANVDAA 325 Score = 110 bits (275), Expect = 2e-28 Identities = 55/197 (27%), Positives = 84/197 (42%), Gaps = 2/197 (1%) Query: 202 QVADGAAVTSTTAAWNTDGDVLTVTLAQAAPTSTGSTGLVQASDQDIMNAINAAGGEYGL 261 A + AA + ++ T T A D+ G Sbjct: 312 VADITAGAANVDAATLQSSKNVYTSVVNGQFTFDDKTKNESAKLSDLEANNAVKGESKIT 371 Query: 262 SAIANGTVSGTAITNGSAGIADVDLNNWELDVEASAASGIDISSQAKADEAITTINTALE 321 A T + AG ++ + +++ + +I++AL Sbjct: 372 VNGAEYTANAAGDKVTLAGKTMFIDKTASGV--STLINEDAAAAKKSTANPLASIDSALS 429 Query: 322 RVSKERSMLGAVQNRLEHTISNLDNVSENLQASESRVRDVDMAKEMMELTKQNILQQAST 381 +V RS LGA+QNR + I+NL N NL ++ SR+ D D A E+ ++K ILQQA T Sbjct: 430 KVDAVRSSLGAIQNRFDSAITNLGNTVTNLNSARSRIEDADYATEVSNMSKAQILQQAGT 489 Query: 382 AMLAQANQAPQSVLQLL 398 ++LAQANQ PQ+VL LL Sbjct: 490 SVLAQANQVPQNVLSLL 506
>FLAGELLIN#Flagellin signature. Length = 507 Score = 25.8 bits (56), Expect = 0.020 Identities = 8/41 (19%), Positives = 24/41 (58%) Query: 25 LDLIEEKLFQMRELAQRVIDEELSNEEIENINQQVKTLEKQ 65 L+ I L ++REL+ + + S+ ++++I +++ ++ Sbjct: 81 LNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLEE 121
>FLAGELLIN#Flagellin signature. Length = 507 Score = 25.4 bits (55), Expect = 0.018 Identities = 8/38 (21%), Positives = 22/38 (57%) Query: 25 LDLIEEKLFQMRELAQRVIDEELSNEEIENINQQVKTL 62 L+ I L ++REL+ + + S+ ++++I +++ Sbjct: 81 LNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQR 118
>PF05272#Virulence-associated E family protein Length = 892 Score = 32.7 bits (74), Expect = 0.006 Identities = 10/17 (58%), Positives = 11/17 (64%) Query: 25 DGLVILEGPNGHGKSTF 41 D V+LEG G GKST Sbjct: 596 DYSVVLEGTGGIGKSTL 612
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 25.4 bits (55), Expect = 0.040 Identities = 11/46 (23%), Positives = 22/46 (47%), Gaps = 2/46 (4%) Query: 2 QEKKDRKLAVLLAIDEFNHKRGY-SPTVREIAKLVGVKSSSTVQKY 46 QE ++ + +L ++G S ++ EIAK GV + + + Sbjct: 7 QEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGV-TRGAIYWH 51
>MICOLLPTASE#Microbial collagenase metalloprotease (M9) signature. Length = 1104 Score = 27.4 bits (60), Expect = 0.009 Identities = 15/87 (17%), Positives = 32/87 (36%) Query: 14 SQIQLAKQFDITQQTISNYESGVREPSITTLKNLADFFNVSIDYLLERTNIPEPVGVLGR 73 S+ + K + + NY V + +N+ D FN + +N ++ Sbjct: 85 SRARNNKIYTFDELNRMNYSDLVELIKTISYENVPDLFNFNDGSYTFFSNRDRVQAIIYG 144 Query: 74 KDDYEEGLPEEARRQIESFKEFIKQKY 100 +D + + I + EF++ Y Sbjct: 145 LEDSGRTYTADDDKGIPTLVEFLRAGY 171
>BLACTAMASEA#Beta-lactamase class A signature. Length = 286 Score = 29.8 bits (67), Expect = 0.032 Identities = 14/49 (28%), Positives = 24/49 (48%), Gaps = 3/49 (6%) Query: 547 DINIEKLRERIAYISQDIFMFSGTIKENLSLGNKDITLEEMIEAAKQSS 595 D E+L +I Y QD+ +S +++L +T+ E+ AA S Sbjct: 81 DAGDEQLERKIHYRQQDLVDYSPVSEKHL---ADGMTVGELCAAAITMS 126
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 139 bits (352), Expect = 2e-38 Identities = 89/472 (18%), Positives = 168/472 (35%), Gaps = 55/472 (11%) Query: 16 ELLESRPHPFTVIFIYLLIGLLAIAFIWTYIGEIDIVVKANGVVRPNQRISTINNIVPGK 75 EL+E+ + Y ++G L IAFI + +G+++IV ANG + + R I I Sbjct: 47 ELIETPVSRRPRLVAYFIMGFLVIAFILSVLGQVEIVATANGKLTHSGRSKEIKPIENSI 106 Query: 76 VKELYIENGKTVKKDDILYTIDHTELKNKQAFIEEELSRKKTELKNQNIFKQSIIENKNS 135 VKE+ ++ G++V+K D+L + ++ Sbjct: 107 VKEIIVKEGESVRKGDVLLKLTAL----------------------GAEADTLKTQSSLL 144 Query: 136 FNQQEKDQEVHYYKYIKYQAEQGQTKENVNLIISKINTTQTILQNTQTLLTAIENNENKF 195 + E+ +YQ + N + + + + +L + +F Sbjct: 145 QARLEQ---------TRYQILSRSIELNKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQF 195 Query: 196 EDTENEYYIKFLDYSLNLKDLQKEVDKKKIDLEIQEKLHQSGAVSQMDYKNVKDMLEKMQ 255 +N+ Y K LNL + E L + V + + +L K Sbjct: 196 STWQNQKYQK----ELNLDKKRAERL---TVLARINRYENLSRVEKSRLDDFSSLLHKQA 248 Query: 256 LEKKRFEN--STRLSLKTSMEENQRLLNQLEIQLQQIAPGIVEQIENHPDIAAANHRTEN 313 + K + + + + L Q+E ++ E+ + + E Sbjct: 249 IAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAK----EEYQLV----TQLFKNE- 299 Query: 314 IIAINETIKYLEAEINQLQNNLKGIKLDIENSISKAPIDGHINIITDINQGDNIQAGTPI 373 I + ++ I L L + + S+ +AP+ + + +G + + Sbjct: 300 ---ILDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAETL 356 Query: 374 ATIIPYDDSNYTVRIYASNEDIANINIGDKVKYNFMALPYKEYGELTGKITRIATDTKTT 433 I+P DD+ V N+DI IN+G A PY YG L GK+ I D Sbjct: 357 MVIVPEDDT-LEVTALVQNKDIGFINVGQNAIIKVEAFPYTRYGYLVGKVKNINLDAIED 415 Query: 434 QEGNTSYYLVESDIETRALISYKGEEADIKVGMVCEARVVTKTKKILHYLLE 485 Q + ++ S +S + + GM A + T + ++ YLL Sbjct: 416 QRLGLVFNVIIS--IEENCLSTGNKNIPLSSGMAVTAEIKTGMRSVISYLLS 465
>ALARACEMASE#Alanine racemase signature. Length = 356 Score = 27.8 bits (62), Expect = 0.003 Identities = 14/49 (28%), Positives = 21/49 (42%), Gaps = 8/49 (16%) Query: 26 ESATSIDVPYLFLPITRPFPTKGGIIVTPLYGIQPTPKYGIQPLYGIQP 74 SA ++ P RP GII LYG P+ ++ G++P Sbjct: 191 NSAATLWHPEAHFDWVRP-----GII---LYGASPSGQWRDIANTGLRP 231
>SYCDCHAPRONE#Gram-negative bacterial type III secretion SycD chaperone signature. Length = 168 Score = 30.3 bits (68), Expect = 0.010 Identities = 21/126 (16%), Positives = 43/126 (34%), Gaps = 14/126 (11%) Query: 368 SDNKSFQLAQL----------MLEKIIHTDQENEEILNLYGYVSFMLHNYSEAKIINEKL 417 +D + +QLA ML +I + E++ + + + Y +A + + L Sbjct: 6 TDTQEYQLAMESFLKGGGTIAMLNEI--SSDTLEQLYS-LAFNQYQSGKYEDAHKVFQAL 62 Query: 418 LKQRPNDPYVNKGYGLSIAKLGEVEEGIVYLKKAIKLSDENFMDPYYDLAVIYMENNKRE 477 D G G +G+ + I + + + A ++ + Sbjct: 63 CVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAIMDIKEP-RFPFHAAECLLQKGELA 121 Query: 478 EAISTL 483 EA S L Sbjct: 122 EAESGL 127
>PF06580#Sensor histidine kinase Length = 349 Score = 42.5 bits (100), Expect = 2e-06 Identities = 33/184 (17%), Positives = 75/184 (40%), Gaps = 35/184 (19%) Query: 296 LNKCIHIMKQNCYRLLRLINNLIDITKLDFDSFSIKYKNYNVIHILEEI--TQSTVALAE 353 LN ++ ++ + ++ +L ++ + +S++Y N + + +E+ S + LA Sbjct: 179 LNNIRALILEDPTKAREMLTSLSELMR-----YSLRYSNARQVSLADELTVVDSYLQLAS 233 Query: 354 IK-GISITFDTDVEEKIIACDINILERIMLNLISNAIKY----SEVGSDINVMVCGQEES 408 I+ + F+ + I+ + + ++ L+ N IK+ G I + + Sbjct: 234 IQFEDRLQFENQINPAIMDVQVPPM--LVQTLVENGIKHGIAQLPQGGKILLKGTKDNGT 291 Query: 409 LLISVKDTGMGIPENQLSAIFDRFVQIDDSLPKKTEGSGIGLSLVKEFVEKLNGE---IS 465 + + V++TG +N E +G GL V+E ++ L G I Sbjct: 292 VTLEVENTGSLALKNT------------------KESTGTGLQNVRERLQMLYGTEAQIK 333 Query: 466 VKSK 469 + K Sbjct: 334 LSEK 337
>PF06580#Sensor histidine kinase Length = 349 Score = 37.9 bits (88), Expect = 6e-05 Identities = 25/131 (19%), Positives = 54/131 (41%), Gaps = 30/131 (22%) Query: 314 LEFDTDVEEKVLACDSEKIERIMLN-LLSNAVKF----TDIGGKIIVNMTDKGSHIIISV 368 L+F+ + ++ ++ +++ L+ N +K GGKI++ T + + V Sbjct: 240 LQFENQINPAIMDV---QVPPMLVQTLVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEV 296 Query: 369 KDTGIGISPKDLKVIFQRFKQVDKSLTRNSEGSGIGLSLVKS-LVEMHGG--RVYTESQL 425 ++TG +L E +G GL V+ L ++G ++ + Sbjct: 297 ENTG------------------SLALKNTKESTGTGLQNVRERLQMLYGTEAQIKLSEKQ 338 Query: 426 GKGSNFIIELP 436 GK N ++ +P Sbjct: 339 GKV-NAMVLIP 348
>PF05616#Neisseria meningitidis TspB protein Length = 501 Score = 28.6 bits (63), Expect = 0.014 Identities = 16/50 (32%), Positives = 23/50 (46%), Gaps = 3/50 (6%) Query: 25 PAEEPAPTPDPDPVPDQEEPTEDPEDDEAQEPMTYEDGTYTHEEPDADDR 74 P E P P+P+P PD P +P+ D +P T D + P+ R Sbjct: 343 PNENPGTRPNPEPDPDL-NPDANPDTD--GQPGTRPDSPAVPDRPNGRHR 389 Score = 27.0 bits (59), Expect = 0.048 Identities = 15/53 (28%), Positives = 21/53 (39%), Gaps = 2/53 (3%) Query: 25 PAEEPAPTPDPDPVPDQEEPTEDPEDDEAQEPMTYE--DGTYTHEEPDADDRG 75 P P P PDPD PD T+ P + +G + E + +D G Sbjct: 347 PGTRPNPEPDPDLNPDANPDTDGQPGTRPDSPAVPDRPNGRHRKERKEGEDGG 399
>PF03944#delta endotoxin Length = 633 Score = 29.6 bits (66), Expect = 0.018 Identities = 13/47 (27%), Positives = 27/47 (57%) Query: 173 IDPIVAIIVALIIIKTGYDIGKESIEQLLDKSLSSEEMSIIKEILEE 219 +DPIV + + ++ K G +GK + +L + S +++++IL E Sbjct: 50 LDPIVGTVASFLLKKVGSLVGKRILSELRNLIFPSGSTNLMQDILRE 96
>SACTRNSFRASE#Streptothricin acetyltransferase signature. Length = 173 Score = 44.6 bits (105), Expect = 2e-08 Identities = 26/116 (22%), Positives = 52/116 (44%), Gaps = 18/116 (15%) Query: 39 FKNLKFEVRKDKFIKDNDLEIKIDLIKDTEKGLHIAYCISTISKDLIGE----------- 87 + +F K +D+D+++ +++ K + Y + + IG Sbjct: 37 YTEERFSKPYFKQYEDDDMDV--SYVEEEGKAAFLYY----LENNCIGRIKIRSNWNGYA 90 Query: 88 -IDSIFVEKEYRKYGLGDKLMNRALEWLNSKQVKIKIIGVAEGNQNALEFYKRYGF 142 I+ I V K+YRK G+G L+++A+EW ++ + N +A FY ++ F Sbjct: 91 LIEDIAVAKDYRKKGVGTALLHKAIEWAKENHFCGLMLETQDINISACHFYAKHHF 146
>PF05211#Neuraminyllactose-binding hemagglutinin Length = 260 Score = 30.8 bits (69), Expect = 0.004 Identities = 17/92 (18%), Positives = 34/92 (36%), Gaps = 8/92 (8%) Query: 50 YSISLGISLINHIVDQLPRRSERSAALNYRYHAYDVINQRLDMVASTVSGFIQQQGYTVL 109 + S + ++ + L + S + Y N+ + V +Q QGY V+ Sbjct: 45 HPASEKVQALDEKILLLRPAFQYSDNIAKEY-----ENKFKNQTTLKVEQILQNQGYKVI 99 Query: 110 AVPASKQIDDEGICAAFSHKMGASLSGLGWIG 141 V +S D + A + +++ G I Sbjct: 100 NVDSS---DKDDFSFAQKKEGYLAVAMNGEIV 128
>SACTRNSFRASE#Streptothricin acetyltransferase signature. Length = 173 Score = 39.5 bits (92), Expect = 1e-06 Identities = 21/81 (25%), Positives = 31/81 (38%), Gaps = 8/81 (9%) Query: 54 IIIAEYEGKVIGYAGYESN----SLVSFLFVDPSYYQRGIGTKLLTRVVSEVGEKA---- 105 + E IG SN +L+ + V Y ++G+GT LL + + E Sbjct: 67 AFLYYLENNCIGRIKIRSNWNGYALIEDIAVAKDYRKKGVGTALLHKAIEWAKENHFCGL 126 Query: 106 WLLVAKNNVPAIKLYYKHGFR 126 L N+ A Y KH F Sbjct: 127 MLETQDINISACHFYAKHHFI 147
>SACTRNSFRASE#Streptothricin acetyltransferase signature. Length = 173 Score = 30.7 bits (69), Expect = 0.002 Identities = 17/63 (26%), Positives = 26/63 (41%), Gaps = 5/63 (7%) Query: 77 YPWVCSIYIEEKYRGNAYGSILLEQAKIDAKEGGFSHLYLCTNH-----IEYYERYGFQH 131 Y + I + + YR G+ LL +A AKE F L L T +Y ++ F Sbjct: 89 YALIEDIAVAKDYRKKGVGTALLHKAIEWAKENHFCGLMLETQDINISACHFYAKHHFII 148 Query: 132 IGI 134 + Sbjct: 149 GAV 151
>INTIMIN#Intimin signature. Length = 939 Score = 27.7 bits (61), Expect = 0.031 Identities = 13/65 (20%), Positives = 27/65 (41%), Gaps = 4/65 (6%) Query: 38 LPWVDGTKNVEDTKAFIEMTKKQFASNNGFQAGIWYKGSLAGVIGYHNVDWTHKSTSIG- 96 LP+ D K + + +F +N G + ++ G + + D++ +T +G Sbjct: 232 LPFYDSEKMLAFGQVGARYIDSRFTANLGAGQRFFLPENMLGYNVFIDQDFSGDNTRLGI 291 Query: 97 ---YW 98 YW Sbjct: 292 GGEYW 296
>BLACTAMASEA#Beta-lactamase class A signature. Length = 286 Score = 28.6 bits (64), Expect = 0.037 Identities = 9/34 (26%), Positives = 14/34 (41%) Query: 46 DSRFLIASVTKLYVTAVVMQLIGENRIALNDKIS 79 D RF + S K+ + V+ + L KI Sbjct: 59 DERFPMMSTFKVVLCGAVLARVDAGDEQLERKIH 92
>SACTRNSFRASE#Streptothricin acetyltransferase signature. Length = 173 Score = 35.7 bits (82), Expect = 3e-05 Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 3/58 (5%) Query: 90 IMVHKDFQNSGVGTKLMEAIIDIA-DNWLMLIRVELTVFADNEKAIHLYKKFNFQIEG 146 I V KD++ GVGT L+ I+ A +N + +E N A H Y K +F I Sbjct: 95 IAVAKDYRKKGVGTALLHKAIEWAKENHFCGLMLETQ--DINISACHFYAKHHFIIGA 150
>FLAGELLIN#Flagellin signature. Length = 507 Score = 33.5 bits (76), Expect = 0.010 Identities = 23/217 (10%), Positives = 50/217 (23%), Gaps = 2/217 (0%) Query: 1165 DQTSGTVGTKVDVTNNGGTTAFSTNTATATLTVMDVNDAPVLNPTGVTLTGTDENTSVDF 1224 + V+ N TT + N L + A + F Sbjct: 219 TAPTVPDKVYVNAANGQLTTDDAENNTAVDLFKTTKSTAGTAEAKAIAGAIKGGKEGDTF 278 Query: 1225 TVESFIESAITDVDIGAVKGTAITATSGNGVWQYSTDVGATWISIGAVNDESSLLLNRAA 1284 + + T + T + A S + Sbjct: 279 DYKGVTFTIDTKTGNDGNGKVSTTINGEKVTLTVADITAGAANVDAATLQSSKNVYTSVV 338 Query: 1285 LIRYVPDGVNGETASITYRAWDQTSGTVGTKVDVTNNGGTTAFSTNTATATLIVTDVNDA 1344 ++ D ++ + +K+ V T + + T ++ Sbjct: 339 NGQFTFDDKTKNESAKLSDLEANNAVKGESKITVNGAEYTANAAGDKVTLAGKTMFIDKT 398 Query: 1345 PILISGNYSLGNLNITDIGTAIEVDSFIDGAVTDVDN 1381 +S + + + ID A++ VD Sbjct: 399 ASGVST--LINEDAAAAKKSTANPLASIDSALSKVDA 433
>ARGREPRESSOR#Bacterial arginine repressor signature. Length = 149 Score = 27.9 bits (62), Expect = 0.003 Identities = 12/42 (28%), Positives = 20/42 (47%), Gaps = 2/42 (4%) Query: 5 GNRNIIGKNIKRLRELKFITQEQLAARLNIQGIEVDRPMISR 46 G R+I + I + + TQ++L L G V + +SR Sbjct: 4 GQRHIKIREI--ITANEIETQDELVDILKKDGYNVTQATVSR 43
>BLACTAMASEA#Beta-lactamase class A signature. Length = 286 Score = 31.3 bits (71), Expect = 0.028 Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 2/55 (3%) Query: 300 DGITRLSEQETMLYSYLPTDERNYSLPILINTSF--LTTSNRESLHSDSKWNQWL 352 D +TRL ET L LP D R+ + P + + L TS R S S + QW+ Sbjct: 153 DNVTRLDRWETELNEALPGDARDTTTPASMAATLRKLLTSQRLSARSQRQLLQWM 207
>PF05272#Virulence-associated E family protein Length = 892 Score = 30.4 bits (68), Expect = 0.008 Identities = 10/25 (40%), Positives = 14/25 (56%) Query: 41 GPSGAGKSTLLNLLATIDYPTSGDI 65 G G GKSTL+N L +D+ + Sbjct: 603 GTGGIGKSTLINTLVGLDFFSDTHF 627
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 89.9 bits (223), Expect = 6e-23 Identities = 34/136 (25%), Positives = 67/136 (49%), Gaps = 2/136 (1%) Query: 9 KILIIDDEEDILKLLSTVLKREGLDDIYTAGDANSGYALFEKEDPDIILLDIMLPDGDGY 68 IL+ DD+ I +L+ L R G D + +A + + D D+++ D+++PD + + Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYD-VRITSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63 Query: 69 EICKRIRAI-SNVPILFISAKTEEIDRVLGFALGGDDYITKPFSPKEVAYRVKASLRRTN 127 ++ RI+ ++P+L +SA+ + + G DY+ KPF E+ + +L Sbjct: 64 DLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPK 123 Query: 128 QRNEKYQDTIYELGPF 143 +R K +D + P Sbjct: 124 RRPSKLEDDSQDGMPL 139
>MALTOSEBP#Maltose binding protein signature. Length = 396 Score = 50.1 bits (119), Expect = 1e-08 Identities = 74/354 (20%), Positives = 135/354 (38%), Gaps = 28/354 (7%) Query: 84 HYRDLFEKLNGAAQANTLPTITMIYNNRLTAYVMNDFAEDLGPYIYDSEKGMDSAVWEDI 143 H L EK A P I ++R Y + ++ P +K + W+ + Sbjct: 65 HPDKLEEKFPQVAATGDGPDIIFWAHDRFGGYAQSGLLAEITPDKAFQDK-LYPFTWDAV 123 Query: 144 PLGLRNDGMWDGKHYSLPFNKGSYLMFYNVDALEAEGLKVPTTWDQLENAARVLSKDGKT 203 ++GK + P + + YN D L P TW+++ + L GK+ Sbjct: 124 --------RYNGKLIAYPIAVEALSLIYNKDLLP----NPPKTWEEIPALDKELKAKGKS 171 Query: 204 GLVLNQSAGIDFSFWVEQAGGHIYDEE-----LEVPSIDSEGVKVAYEFITGMVEEGIAQ 258 L+ N + GG+ + E ++ +D+ G K F+ +++ Sbjct: 172 ALMFNLQEPYFTWPLIAADGGYAFKYENGKYDIKDVGVDNAGAKAGLTFLVDLIKNKHMN 231 Query: 259 LAGEDNYITGPMSRGESFIGFASSSNLPRMEEASRETGVNWAVAELPSGK-REAALFSGT 317 + + ++GE+ A + N P + VN+ V LP+ K + + F G Sbjct: 232 ADTDYSIAEAAFNKGET----AMTINGPWAWSNIDTSKVNYGVTVLPTFKGQPSKPFVGV 287 Query: 318 DITMFNTSTQEQKDAAWEFIKFWYQTDITTKWGMESGYIPLTYAGAEHPEFKSYLEKDPS 377 N ++ K+ A EF++ + TD G+E+ ++ L KDP Sbjct: 288 LSAGINAAS-PNKELAKEFLENYLLTD----EGLEAVNKDKPLGAVALKSYEEELAKDPR 342 Query: 378 KIPAIGQLSAAYQDPNGLNGYAIHSNMQTALEEILAGVKTIDEALETAQENATR 431 + PN A ++TA+ +G +T+DEAL+ AQ T+ Sbjct: 343 IAATMENAQKGEIMPNIPQMSAFWYAVRTAVINAASGRQTVDEALKDAQTRITK 396
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 70.8 bits (173), Expect = 1e-17 Identities = 28/172 (16%), Positives = 71/172 (41%), Gaps = 9/172 (5%) Query: 1 MRVKDENKKDAILSATIKMINEIGFANVSMSKIAKAAGVSASTIYIYYENKEDMFKKIYI 60 + + + + IL +++ ++ G ++ S+ +IAKAAGV+ IY ++++K D+F +I+ Sbjct: 5 TKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWE 64 Query: 61 DVKTQMLNASMKGIRDTEP-VEQSVLKFCENVLNFARNYEDYFLFIG-------QAGDSP 112 ++ + ++ + + +VL E L + G+ Sbjct: 65 LSESNIGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFVGEMA 124 Query: 113 LVLTVKNQELLKLIQQACSPFERGIKEGILK-NVSPALLSGFCFYPITQLYK 163 +V + L+ + + I+ +L ++ + I+ L + Sbjct: 125 VVQQAQRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYISGLME 176
>NUCEPIMERASE#Nucleotide sugar epimerase signature. Length = 334 Score = 34.0 bits (78), Expect = 2e-05 Identities = 20/77 (25%), Positives = 34/77 (44%), Gaps = 15/77 (19%) Query: 1 MKKKVILITGASSGIGKETALSLARKGHTVIIHGRDAAKTQSVFD--------EILKKTN 52 MK L+TGA+ IG + L GH V+ G D +D E+L + Sbjct: 1 MK---YLVTGAAGFIGFHVSKRLLEAGHQVV--GIDN--LNDYYDVSLKQARLELLAQPG 53 Query: 53 NKNLEMLIADLSLMSEV 69 + ++ +AD M+++ Sbjct: 54 FQFHKIDLADREGMTDL 70
>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein signature. Length = 347 Score = 27.4 bits (61), Expect = 0.003 Identities = 21/60 (35%), Positives = 35/60 (58%), Gaps = 7/60 (11%) Query: 1 MAAYLKENLQLNDENFNLV-DVGGGTFQVLV---NDLVFFDS-RTGNGKFPQNEAILEEI 55 MAA + L +++ ++V D+GGGT +V V N +V+ S R G +F +EAI+ + Sbjct: 145 MAAAIGAGLPVSEATGSMVVDIGGGTTEVAVISLNGVVYSSSVRIGGDRF--DEAIINYV 202
>PF05043#Transcriptional activator Length = 493 Score = 30.3 bits (68), Expect = 0.006 Identities = 23/99 (23%), Positives = 37/99 (37%), Gaps = 14/99 (14%) Query: 58 IARNQERAFVFVTNRLSNNVSNIIHIATYTLVAAVTSVLGSLFLRVLVYSIEGSTNISSF 117 ++ + FV LS SN + +T + L + +I Sbjct: 408 MSNFDQYHAKFVAETLSYYCSNNFELEVWTELELSKESL-----------EDSPYDIIIS 456 Query: 118 NFVIPPIEILMLIFTGFLYMTIIASIAYLVGNLMNINRT 156 NF+IPPIE LI++ S+ YL+ +M I Sbjct: 457 NFIIPPIENKRLIYS---NNINTVSLIYLLNAMMFIRLD 492
>PF06580#Sensor histidine kinase Length = 349 Score = 24.4 bits (53), Expect = 0.016 Identities = 7/26 (26%), Positives = 17/26 (65%) Query: 19 LPAIILYFIIKLAVKHAIKELKRDGK 44 +P +++ +++ +KH I +L + GK Sbjct: 255 VPPMLVQTLVENGIKHGIAQLPQGGK 280
>SECA#SecA protein signature. Length = 901 Score = 29.1 bits (65), Expect = 0.016 Identities = 16/101 (15%), Positives = 33/101 (32%), Gaps = 13/101 (12%) Query: 23 MRKQQKAIYRERHIITASRNLFRLILGVNLIIVYIVAVIRFFTPIYTHVYSLFVPD-YLN 81 Q++AIY +R+ + ++ I V + + + P Sbjct: 652 ANDQRRAIYSQRNELLDVSDVS------ETINSIREDVFKAT------IDAYIPPQSLEE 699 Query: 82 SWYELFWIEKIWSLYELLMEIEVLEAGILLFYLEDLTRFIL 122 W E++ + ++L + I + E L IL Sbjct: 700 MWDIPGLQERLKNDFDLDLPIAEWLDKEPELHEETLRERIL 740
>UREASE#Urea amidohydrolase (urease) protein signature. Length = 570 Score = 34.7 bits (80), Expect = 8e-04 Identities = 47/240 (19%), Positives = 81/240 (33%), Gaps = 70/240 (29%) Query: 4 TILKNAYLIDPTQEVKGWKDLEIIDGKVVKVC--------ENINTI--NADKVYDLKGKL 53 T++ NA ++D VK D+ + DG++ + + I +V +GK+ Sbjct: 70 TVITNALILDHWGIVKA--DIGLKDGRIAAIGKAGNPDMQPGVTIIVGPGTEVIAGEGKI 127 Query: 54 CVPGIIDTHVHLTLDGSNRGYYMLAKAGVTTALDMYGPPEKIYEHIHQYGTGINIACLAA 113 G +D+H+H + +G+T M G GTG Sbjct: 128 VTAGGMDSHIHFI---CPQQIEEALMSGLTC---MLGG-----------GTG-------- 162 Query: 114 QPQNTDNATHCDYDQHSIRKFIHS------------------------EMKRGALGIKLI 149 P + AT C I + I + + GA +KL Sbjct: 163 -PAHGTLATTCTPGPWHIARMIEAADAFPMNLAFAGKGNASLPGALVEMVLGGATSLKL- 220 Query: 150 GGH--YPMSPELTKKFIQIANEEKAYIAFHVGTTNKGSNIEGFKEAIFLAEGNSFHVAHV 207 H + +P + +A+E + H T N+ +E AI +G + H H Sbjct: 221 --HEDWGTTPAAIDCCLSVADEYDVQVMIHTDTLNESGFVEDTIAAI---KGRTIHAYHT 275
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 33.3 bits (76), Expect = 0.002 Identities = 18/84 (21%), Positives = 35/84 (41%), Gaps = 12/84 (14%) Query: 10 ARQLTEEEQSLVWQKTPSHIG-SEAEERIYQEVVR--NWNRGEMKISTILLEGDAGSGKT 66 + + Q +G S A + IY+ + R + T+++ G++G+GK Sbjct: 121 EPKRRPSKLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTD------LTLMITGESGTGKE 174 Query: 67 QLAKAL---SADFNLPYTKVTCFA 87 +A+AL N P+ + A Sbjct: 175 LVARALHDYGKRRNGPFVAINMAA 198
>TCRTETA#Tetracycline resistance protein signature. Length = 399 Score = 39.4 bits (92), Expect = 2e-05 Identities = 31/124 (25%), Positives = 59/124 (47%), Gaps = 9/124 (7%) Query: 45 SAATIGL-FAFLSLLPALIIYPFAGVIGDRMNRKKIMVVTDLISAGVILALGFI-SYWGF 102 A TIG+ A +L +L G + R+ ++ +++ + + L F W Sbjct: 244 DATTIGISLAAFGILHSLAQAMITGPVAARLGERRALMLGMIADGTGYILLAFATRGWMA 303 Query: 103 MNISLLLIVQAVISLLNGLFEPATRGMLPQLVDKEELTQSNSTVASMRSISIMLGPVIGT 162 I +LL G+ PA + ML + VD+E Q ++A++ S++ ++GP++ T Sbjct: 304 FPIMVLLA-------SGGIGMPALQAMLSRQVDEERQGQLQGSLAALTSLTSIVGPLLFT 356 Query: 163 VLYA 166 +YA Sbjct: 357 AIYA 360 Score = 39.4 bits (92), Expect = 2e-05 Identities = 57/342 (16%), Positives = 127/342 (37%), Gaps = 37/342 (10%) Query: 3 IKKKKKILNTNFVLFLLGRMISDLGNSVQMMIMPLYIIDIGGS---AATIGLFAFLSLLP 59 +K + ++ + L +G + M ++P + D+ S A G+ L L Sbjct: 1 MKPNRPLIVILSTVALDA-----VGIGLIMPVLPGLLRDLVHSNDVTAHYGILLALYALM 55 Query: 60 ALIIYPFAGVIGDRMNRKKIMVVTDLISAGVILALGFISYWGFMNISLLLIVQAVISLLN 119 P G + DR R+ +++V+ L A V A+ +L + +++ + Sbjct: 56 QFACAPVLGALSDRFGRRPVLLVS-LAGAAVDYAI-----MATAPFLWVLYIGRIVAGIT 109 Query: 120 GLFEPATRGMLPQLVDKEELTQSNSTVASMRSISIMLGPVIGTVLYANFGITMVF----L 175 G + + D +E + +++ ++ GPV+G ++ F F Sbjct: 110 GATGAVAGAYIADITDGDERARHFGFMSACFGFGMVAGPVLGGLM-GGFSPHAPFFAAAA 168 Query: 176 INGISFLLSGASEMMIRYVHVKRQRTEGMKGIIKDLLEGIQFIMKNKIIRNMCYFFLVIY 235 +NG++FL + ++ + L ++ ++ + ++ Sbjct: 169 LNGLNFLTG-----CFLLPESHKGERRPLRREALNPLASFRWARGMTVV----AALMAVF 219 Query: 236 FVAQ---PIFSVILPLFFKTNLQYSDTQYGYLQTVI-ILGALLGSVVIGVL---FGKEEQ 288 F+ Q + + + +F + + T G IL +L +++ G + G+ Sbjct: 220 FIMQLVGQVPAALWVIFGEDRFHWDATTIGISLAAFGILHSLAQAMITGPVAARLGERRA 279 Query: 289 VTKPFTI-GCGLLLGTMLIFSILLFPKSLAVLGNGTIGYLAL 329 + G G +L + FP + +L +G IG AL Sbjct: 280 LMLGMIADGTGYILLAFATRGWMAFP-IMVLLASGGIGMPAL 320
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 96.8 bits (241), Expect = 2e-25 Identities = 32/132 (24%), Positives = 64/132 (48%), Gaps = 1/132 (0%) Query: 3 KILVVEDEDILREVIMDYLIEEGYQVLEAADGEQALELFQSHSVDLVILDIVLPKIDGWS 62 ILV +D+ +R V+ L GY V ++ + DLV+ D+V+P + + Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64 Query: 63 VCRRIRK-NSNIPIIMLTARSDEDDSLLGYELGADDYLIKPYSPRVLMVKVKRFLEKYSG 121 + RI+K ++P+++++A++ ++ E GA DYL KP+ L+ + R L + Sbjct: 65 LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKR 124 Query: 122 NMDEMLTSASGI 133 ++ + Sbjct: 125 RPSKLEDDSQDG 136
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 91.0 bits (226), Expect = 2e-23 Identities = 28/118 (23%), Positives = 53/118 (44%) Query: 4 ILIVEDDANTTKLICAVLKRGNYNCFTARDGLDALSMMERQYFDLIILDLMMPRMDGYQL 63 IL+ +DDA ++ L R Y+ + + DL++ D++MP + + L Sbjct: 6 ILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFDL 65 Query: 64 CKELRDVGENTPILMITAQQEIKDKHRGFLVGTDDYMTKPFDEQEMLFRIKALLRRAQ 121 ++ + P+L+++AQ + G DY+ KPFD E++ I L + Sbjct: 66 LPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPK 123
>PF06580#Sensor histidine kinase Length = 349 Score = 40.2 bits (94), Expect = 6e-06 Identities = 27/173 (15%), Positives = 64/173 (36%), Gaps = 28/173 (16%) Query: 170 QRLADLSTNVLNLSKVQSTEVIREKEIYALDEQIRQAILILEPKWSTKNLSVDVDLESIN 229 L++L L S + + E+ + + + ++ + L + + Sbjct: 198 TSLSELMRYSLRYSNARQVSL--ADEL----TVVDSYLQLASIQFEDR-LQFENQINPAI 250 Query: 230 INNNAP--LLQQIWVNLLDNAIKFTDNGGKLQVSLRRINSSIRFCLRDNGHGMDEETKQH 287 ++ P L+Q + N + + I GGK+ + + N ++ + + G + TK+ Sbjct: 251 MDVQVPPMLVQTLVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSLALKNTKE- 309 Query: 288 IFDKFYQGDTSHAIIGNGLGLTLVKKIVILCNG---HIEVESSLGKGSAFIVF 337 G GL V++ + + G I++ GK +A ++ Sbjct: 310 ---------------STGTGLQNVRERLQMLYGTEAQIKLSEKQGKVNAMVLI 347
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 94.5 bits (235), Expect = 1e-24 Identities = 31/122 (25%), Positives = 61/122 (50%), Gaps = 1/122 (0%) Query: 2 RILIIEDEIPLAEALSQMLKKNNYTVDLLHDGESGLDYALSDIYDLILLDIMLPKMDGLS 61 IL+ +D+ + L+Q L + Y V + + + + + DL++ D+++P + Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64 Query: 62 ILKEIRQEGIATPVILLTAKGEITDKVMGLDSGADDYLAKPFATEELLARI-RAISRRKG 120 +L I++ PV++++A+ + + GA DYL KPF EL+ I RA++ K Sbjct: 65 LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKR 124 Query: 121 EV 122 Sbjct: 125 RP 126
>HELNAPAPROT#Helicobacter neutrophil-activating protein A family signature. Length = 153 Score = 30.2 bits (68), Expect = 0.003 Identities = 20/80 (25%), Positives = 33/80 (41%), Gaps = 6/80 (7%) Query: 65 KTEELQDNLLKMVDEDAENFLPLSKAYGLPKNTEEEKLEKARVLEEALKIACEVPIKIVR 124 K EEL D+ + VD AE L + G P T +E E A + + + + ++ + Sbjct: 49 KFEELYDHAAETVDTIAERLLAIG---GQPVATVKEYTEHASITDGGNETSASEMVQALV 105 Query: 125 TSYEAIKLHEALVDKGSKLA 144 Y+ I + LA Sbjct: 106 NDYKQI---SSESKFVIGLA 122
>SECA#SecA protein signature. Length = 901 Score = 27.1 bits (60), Expect = 0.027 Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 9/66 (13%) Query: 43 DEAVTPLMISNFFQITKP---SVTAMINELIKKEYLVKAPSVTDG------RSYTVSITD 93 DEA TPL+IS + + V +I LI++E +G +S V++T+ Sbjct: 217 DEARTPLIISGPAEDSSEMYKRVNKIIPHLIRQEKEDSETFQGEGHFSVDEKSRQVNLTE 276 Query: 94 KGQKLV 99 +G L+ Sbjct: 277 RGLVLI 282
>NUCEPIMERASE#Nucleotide sugar epimerase signature. Length = 334 Score = 39.0 bits (91), Expect = 1e-05 Identities = 15/28 (53%), Positives = 19/28 (67%) Query: 1 MKILITGASGNVGRYVVKELLNKGEGVV 28 MK L+TGA+G +G +V K LL G VV Sbjct: 1 MKYLVTGAAGFIGFHVSKRLLEAGHQVV 28
>PF01206#SirA family protein Length = 76 Score = 29.7 bits (67), Expect = 0.004 Identities = 12/54 (22%), Positives = 27/54 (50%), Gaps = 5/54 (9%) Query: 99 GLPCPLPNNLKHIRQKHLMRQTLESSDIANVIFRLANSWEEIVAAARQIGYPLI 152 GL CPLP ++ K + + + ++ V+ S ++ + ++Q G+ L+ Sbjct: 12 GLNCPLP----ILKAKKTLAT-MNAGEVLYVMATDPGSVKDFESFSKQTGHELL 60
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 386 bits (993), Expect = e-130 Identities = 132/392 (33%), Positives = 209/392 (53%), Gaps = 35/392 (8%) Query: 265 RGAVLKVEDVTEIKQVIHERSEALHNLELAQNRLMGEDAAKEAFPEIIGDSEEMRHIRMM 324 +GA + ++ ++I AL + ++L + + ++G S M+ I + Sbjct: 96 KGAYDYLPKPFDLTELIGIIGRALAEPKRRPSKL---EDDSQDGMPLVGRSAAMQEIYRV 152 Query: 325 AAKAAKTSSNVLLLGESGTGKTILAKAIHRAGEKESMAFVQINCGSIPENLLESEMFGYE 384 A+ +T +++ GESGTGK ++A+A+H G++ + FV IN +IP +L+ESE+FG+E Sbjct: 153 LARLMQTDLTLMITGESGTGKELVARALHDYGKRRNGPFVAINMAAIPRDLIESELFGHE 212 Query: 385 KGAFTGANKEGKKGLFEVADGGTLFLDEIGELPSALQVKLLHVIQHRSFYRVGGNEKINV 444 KGAFTGA G FE A+GGTLFLDEIG++P Q +LL V+Q + VGG I Sbjct: 213 KGAFTGAQTR-STGRFEQAEGGTLFLDEIGDMPMDAQTRLLRVLQQGEYTTVGGRTPIRS 271 Query: 445 NVRIIAATNRNLEEEMRQGRFREDLYYRINVLPIWIPPLRQRKDDIQLLVKKLLHRTCQQ 504 +VRI+AATN++L++ + QG FREDLYYR+NV+P+ +PPLR R +DI LV+ + + ++ Sbjct: 272 DVRIVAATNKDLKQSINQGLFREDLYYRLNVVPLRLPPLRDRAEDIPDLVRHFVQQAEKE 331 Query: 505 AGVEEKLLSAEALLKLRKYHWPGNIRELENTLERAMHLSDSRILL--------------- 549 G++ K EAL ++ + WPGN+RELEN + R L ++ Sbjct: 332 -GLDVKRFDQEALELMKAHPWPGNVRELENLVRRLTALYPQDVITREIIENELRSEIPDS 390 Query: 550 ----------SGQMMVKVTDSFVQYQYEEA----PLPTIKEAVRKCEKELINETLKHFKG 595 S + V ++ QY P + + E LI L +G Sbjct: 391 PIEKAAARSGSLSISQAVEENMRQYFASFGDALPPSGLYDRVLAEMEYPLILAALTATRG 450 Query: 596 NRKKAMQQLGIAKTRFYEKIKEYKI-IEDGRR 626 N+ KA LG+ + +KI+E + + R Sbjct: 451 NQIKAADLLGLNRNTLRKKIRELGVSVYRSSR 482
>FbpA_PF05833#Fibronectin-binding protein Length = 577 Score = 29.8 bits (67), Expect = 0.032 Identities = 10/55 (18%), Positives = 23/55 (41%), Gaps = 7/55 (12%) Query: 216 NIITLERNDDYFEGPAILETIVRREIPEHETRYAELLAGNIDLAPPPERELDILN 270 N+ + + D+ I+++I + I Y + G + PP +L+ + Sbjct: 128 NMTLIRKRDNI-----IMDSI--KHITPDINTYRSIYPGIEYVYPPKSPKLNPFD 175
>PF05272#Virulence-associated E family protein Length = 892 Score = 31.6 bits (71), Expect = 0.003 Identities = 16/60 (26%), Positives = 26/60 (43%), Gaps = 5/60 (8%) Query: 9 VTKKF--GGLTAVGNMDLKLEKDSILGLIGPNGAGKTTIFNLITGIYRVTEGDI-IFENK 65 V K G + V M+ + D + L G G GK+T+ N + G+ ++ I K Sbjct: 576 VGKYILMGHVARV--MEPGCKFDYSVVLEGTGGIGKSTLINTLVGLDFFSDTHFDIGTGK 633
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 63.9 bits (155), Expect = 9e-15 Identities = 32/177 (18%), Positives = 60/177 (33%), Gaps = 18/177 (10%) Query: 3 KTKGEITKERIYITAKEMFYNKGYKKTTMKDIADELDISLGNLTYHFKTKDTIVINIFAD 62 K + + T++ I A +F +G T++ +IA ++ G + +HFK K + I+ Sbjct: 6 KQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWEL 65 Query: 63 YLDNIYEFIWDKVD-------SSADAYYKHFFVTIVFYKVILTNPNNKRFFGEIMKTKSF 115 NI E + S H + +T + I F Sbjct: 66 SESNIGELELEYQAKFPGDPLSVLREILIHVL------ESTVTEERRRLLMEIIFHKCEF 119 Query: 116 Y---KLLSDRISNIYQGFIQDYHLRVSPSQYKGILLADFGARR--EVMLSYLEGTIK 167 ++ N+ + +L AD RR +M Y+ G ++ Sbjct: 120 VGEMAVVQQAQRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYISGLME 176
>TCRTETA#Tetracycline resistance protein signature. Length = 399 Score = 36.3 bits (84), Expect = 2e-04 Identities = 15/76 (19%), Positives = 37/76 (48%), Gaps = 3/76 (3%) Query: 268 NLSLITVGMFV---GTLGTFAGSLIAPAAAKRIGKKQTYILSTTITFIAFVLMRLLGQNY 324 + T+G+ + G L + A ++I A R+G+++ +L ++L+ + + Sbjct: 242 HWDATTIGISLAAFGILHSLAQAMITGPVAARLGERRALMLGMIADGTGYILLAFATRGW 301 Query: 325 LIFIGLTAMANIGIIL 340 + F + +A+ GI + Sbjct: 302 MAFPIMVLLASGGIGM 317
>VACCYTOTOXIN#Helicobacter pylori vacuolating cytotoxin signature. Length = 1291 Score = 30.8 bits (69), Expect = 0.001 Identities = 22/81 (27%), Positives = 32/81 (39%), Gaps = 6/81 (7%) Query: 17 EKSVEFYVDLLELRLVGKWDKG----AYLLAGNQWVALNVD--DAVTLETKSDYTHISFN 70 K + Y LL ++ G WD G Y + QW L VD +AV S + + Sbjct: 95 NKEYDLYKSLLSSKIDGGWDWGNAARHYWVKDGQWNKLEVDMQNAVGTYNLSGLINFTGG 154 Query: 71 VLSTDFKKMKDKLESAGVKSF 91 L + +K +L SF Sbjct: 155 DLDVNMQKATLRLGQFNGNSF 175
>SUBTILISIN#Subtilisin serine protease family (S8) signature. Length = 326 Score = 106 bits (265), Expect = 1e-28 Identities = 72/272 (26%), Positives = 120/272 (44%), Gaps = 36/272 (13%) Query: 29 NDKYDVTRNDIPWWYEYNNFSMKVSREDIKRSVIVAVVDTGV--SNENFPYSNIIAGYNA 86 K + N+IP E + V + R V VAV+DTG + + + II G N Sbjct: 12 VIKQEQQVNEIPRGVEMIQ-APAVWNQTRGRGVKVAVLDTGCDADHPDLK-ARIIGGRNF 69 Query: 87 IDGSTN----TKDTHGHGKVLAHLIA-----SPQIGINPYANILPVKV-RKSMLDKPEIV 136 D KD +GHG +A IA + +G+ P A++L +KV K + + + Sbjct: 70 TDDDEGDPEIFKDYNGHGTHVAGTIAATENENGVVGVAPEADLLIIKVLNKQGSGQYDWI 129 Query: 137 SEGIIWAVNQGVDIINLSIGKEPINNKSYEGYREGVEYALKEGKLLIASAGTNG------ 190 +GI +A+ Q VDII++S+G + E V+ A+ L++ +AG G Sbjct: 130 IQGIYYAIEQKVDIISMSLG----GPEDVPELHEAVKKAVASQILVMCAAGNEGDGDDRT 185 Query: 191 NKLFYPAAFEGVISVAGLDRN------LNYRSNIDVED--IDIFAVDTNDKVSS----SF 238 ++L YP + VISV ++ + N + +D+ DI + K ++ S Sbjct: 186 DELGYPGCYNEVISVGAINFDRHASEFSNSNNEVDLVAPGEDILSTVPGGKYATFSGTSM 245 Query: 239 PTAIVSGAVSLIMALDEDLSPQEAMRIILKKA 270 T V+GA++LI L ++ L Sbjct: 246 ATPHVAGALALIKQLANASFERDLTEPELYAQ 277
>TYPE4SSCAGA#Type IV secretion system CagA exotoxin signature. Length = 1147 Score = 30.1 bits (67), Expect = 0.009 Identities = 30/117 (25%), Positives = 47/117 (40%), Gaps = 9/117 (7%) Query: 112 KVTKNNIETLLIKEYSSDTNIIKTTSSLSNKFKALKTNSAANNSMNNSGYNSSIYDSIIN 171 KV N + K + + + + L N K A N N+ S IY S+ N Sbjct: 783 KVDNLNQAVSVAKATGDFSRVEQALADLKNFSKEQLAQQAQKNESLNARKKSEIYQSVKN 842 Query: 172 KMILTPIGNELITEE------EFDSFKKGID-NLFHFLESNQLLI--EPIEVSINQR 219 + T +GN L E F KK ++ L +F +N + EPI +N++ Sbjct: 843 GVNGTLVGNGLSQAEATTLSKNFSDIKKELNAKLGNFNNNNNNGLKNEPIYAKVNKK 899
>SACTRNSFRASE#Streptothricin acetyltransferase signature. Length = 173 Score = 37.2 bits (86), Expect = 9e-06 Identities = 26/103 (25%), Positives = 38/103 (36%), Gaps = 2/103 (1%) Query: 47 YINNWGKSDDLCLVVEIDGKIV-GAVWTRILAGEIKGFGNIDRETPEFAISLYKEYRNQG 105 Y + D VE +GK G IK N + I++ K+YR +G Sbjct: 46 YFKQYEDDDMDVSYVEEEGKAAFLYYLENNCIGRIKIRSNWNGYALIEDIAVAKDYRKKG 105 Query: 106 IGTDIMKQMIYHLKTRGYKQTSLAVQKENY-AVKMYQNIGFKI 147 +GT ++ + I K + L Q N A Y F I Sbjct: 106 VGTALLHKAIEWAKENHFCGLMLETQDINISACHFYAKHHFII 148
>INTIMIN#Intimin signature. Length = 939 Score = 27.0 bits (59), Expect = 0.027 Identities = 8/35 (22%), Positives = 13/35 (37%), Gaps = 2/35 (5%) Query: 87 QEDFKEGWVDGVKFLYNHDPTNHFERVGELLGATY 121 Q F + G + D + R+G +G Y Sbjct: 263 QRFFLPENMLGYNVFIDQDFSGDNTRLG--IGGEY 295
>PF06580#Sensor histidine kinase Length = 349 Score = 33.3 bits (76), Expect = 2e-04 Identities = 15/58 (25%), Positives = 24/58 (41%), Gaps = 2/58 (3%) Query: 31 QLDPTIEEIADIKTAVSEAVTNSIIHGYENSM--GVVTLTCTIVDNELEIIVEDQGRG 86 Q++P I ++ V V N I HG G + L T + + + VE+ G Sbjct: 245 QINPAIMDVQVPPMLVQTLVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSL 302
>SACTRNSFRASE#Streptothricin acetyltransferase signature. Length = 173 Score = 41.9 bits (98), Expect = 1e-07 Identities = 29/132 (21%), Positives = 56/132 (42%), Gaps = 9/132 (6%) Query: 3 KIVEASEKTIDSLTKLAIDLWPDNEYEDLKNEYFSLLKSENHKVFLCIVDDLPIAFIQLS 62 +++ A E + + T+ +YED + S ++ E FL +++ I I++ Sbjct: 25 RMIPAFENGVWTYTEERFSKPYFKQYED-DDMDVSYVEEEGKAAFLYYLENNCIGRIKIR 83 Query: 63 IRSDYVEGSESNPVGYVEGIFVNPNLRRQGISKELMIKGEEWVKEKGCKQIGSDIEYDND 122 S N +E I V + R++G+ L+ K EW KE + + + N Sbjct: 84 --------SNWNGYALIEDIAVAKDYRKKGVGTALLHKAIEWAKENHFCGLMLETQDINI 135 Query: 123 TSYHFHMNIGFK 134 ++ HF+ F Sbjct: 136 SACHFYAKHHFI 147
>GPOSANCHOR#Gram-positive coccus surface protein anchor signature. Length = 539 Score = 31.2 bits (70), Expect = 0.003 Identities = 6/64 (9%), Positives = 17/64 (26%) Query: 24 QATVDEKNLKVEELQNQIEKHDQKIKELEEKNNSYEIKVKNLEEERDSYKRFIDKAIKYL 83 + ++ +I+ + + LE + E ++ + I Sbjct: 231 EKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMNFSTADSAKIKTLEAEK 290 Query: 84 DDDE 87 E Sbjct: 291 AALE 294
>SACTRNSFRASE#Streptothricin acetyltransferase signature. Length = 173 Score = 41.1 bits (96), Expect = 4e-07 Identities = 21/89 (23%), Positives = 38/89 (42%) Query: 41 GKVFVANYSGDIVGEYVLINTRPETIEIVNIAIKEEYQGKGLGKLLLKDAVNRASMHGAK 100 F+ + +G + + I +IA+ ++Y+ KG+G LL A+ A + Sbjct: 65 KAAFLYYLENNCIGRIKIRSNWNGYALIEDIAVAKDYRKKGVGTALLHKAIEWAKENHFC 124 Query: 101 VLEIGTANSSIFQLALYQKVGFRITRIDR 129 L + T + +I Y K F I +D Sbjct: 125 GLMLETQDINISACHFYAKHHFIIGAVDT 153
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 94.9 bits (236), Expect = 1e-24 Identities = 32/122 (26%), Positives = 61/122 (50%), Gaps = 1/122 (0%) Query: 4 KLLVVDDEPLLVKGLRYSLEQDGYEILSASDGEEALDKFNKGSFDLIILDLMLPKIDGLE 63 +LV DD+ + L +L + GY++ S+ G DL++ D+++P + + Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64 Query: 64 VCQTIRQT-SQTPIIMLTAKGEDMTKILGLEYGADDYMTKPFNILELKARIKAVLRRAQS 122 + I++ P+++++A+ MT I E GA DY+ KPF++ EL I L + Sbjct: 65 LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKR 124 Query: 123 KE 124 + Sbjct: 125 RP 126
>PF06580#Sensor histidine kinase Length = 349 Score = 40.2 bits (94), Expect = 1e-05 Identities = 14/97 (14%), Positives = 36/97 (37%), Gaps = 21/97 (21%) Query: 346 NIIYNAVKYTEDGGKVVITLYREGNRAIIKIADNGIGISEEELPYIFERFYRVDSARSRK 405 N I + + GGK+++ ++ +++ + G + Sbjct: 266 NGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSLALKNT------------------ 307 Query: 406 TGGSGLGLS-ISEQIIHLH--QGTIEVESKEHKGTTV 439 +G GL + E++ L+ + I++ K+ K + Sbjct: 308 KESTGTGLQNVRERLQMLYGTEAQIKLSEKQGKVNAM 344
>ALARACEMASE#Alanine racemase signature. Length = 356 Score = 40.5 bits (95), Expect = 7e-06 Identities = 48/275 (17%), Positives = 95/275 (34%), Gaps = 46/275 (16%) Query: 9 KVTIDLAKLRHNARVMTE-----------KCNEYGIAIAGVTKVFGGRPEIAQAMIDGGI 57 + ++DL L+ N ++ + K N YG I I A+ G Sbjct: 6 QASLDLQALKQNLSIVRQAATHARVWSVVKANAYGHGIE----------RIWSAI--GAT 53 Query: 58 QYLADSRVENLKKMKDLSLPKILLRLPMISRVDDV---VKYCDISLNSEVETIIALSQAA 114 A +E +++ +L L D+ ++ + + AL A Sbjct: 54 DGFALLNLEEAITLRERGWKGPILMLEGFFHAQDLEIYDQHRLTTCVHSNWQLKALQNAR 113 Query: 115 EKQHKTHKIILMVDLGDLREGIFDSQALKLALDEIKNLKGIKVVGIGTNLTCYGGVIPDE 174 K I L V+ G R G + L +++ + + + + ++ + Sbjct: 114 LK--APLDIYLKVNSGMNRLGFQPDRVLT-VWQQLRAMANVGEMTLMSHFAE-----AEH 165 Query: 175 ENLGRLIAYASEIEAVLGTKLEIISGGNSSSIYMVQEGRMLEEVNLLRLGEAIVLGTES- 233 + G A A +A G + S NS++ E + +R G I+L S Sbjct: 166 PD-GISGAMARIEQAAEGLECR-RSLSNSAATLWHPEAHF----DWVRPG--IILYGASP 217 Query: 234 --AYGNVIPGTHQDIFQLEAEIIEIKE-KPSIPIG 265 + ++ + + L +EII ++ K +G Sbjct: 218 SGQWRDIANTGLRPVMTLSSEIIGVQTLKAGERVG 252
>SUBTILISIN#Subtilisin serine protease family (S8) signature. Length = 326 Score = 64.1 bits (156), Expect = 5e-13 Identities = 51/288 (17%), Positives = 98/288 (34%), Gaps = 67/288 (23%) Query: 258 IVGILDSGI--------GRIPHLKPWLLDEKFCPYPEDEIDNKHGTATAGILLYSDE--- 306 V +LD+G RI + + D++ P + N HGT AG + ++ Sbjct: 44 KVAVLDTGCDADHPDLKARIIGGRNFTDDDEGDPEIFKD-YNGHGTHVAGTIAATENENG 102 Query: 307 ---LEKSAQTGLYGCRILDATVFPKINEEQKLDQDELLINIKDAIKRHHKEVKIWNLSIG 363 + A L ++L+ + D ++ I AI++ V I ++S+G Sbjct: 103 VVGVAPEAD--LLIIKVLNKQGSGQY--------DWIIQGIYYAIEQK---VDIISMSLG 149 Query: 364 TRTECKNDRFSDFGKALDELEDKYNIIIFKSVGNCKSFLNGKPKSRISVSADSVRSIVVG 423 + + +A+ + I++ + GN + + + V I VG Sbjct: 150 G-----PEDVPELHEAVKKAVAS-QILVMCAAGNEGDGDDRTDELGYPGCYNEV--ISVG 201 Query: 424 SIAHKKQRYDLAEINHPSPFTRTGRGPAHIIKPDVVHFGGNAGVKDNNMTTTGVKTFSPT 483 +I + + + + D+V G + + P Sbjct: 202 AINFDRHASEFSN-----------SNN----EVDLVAPG------------EDILSTVPG 234 Query: 484 GKVSSLIGTSFSTPKVTAIAAGLYQELDE----DFDPLLLKGLIIHSA 527 GK ++ GTS +TP V A + Q + D L +I Sbjct: 235 GKYATFSGTSMATPHVAGALALIKQLANASFERDLTEPELYAQLIKRT 282
>BONTOXILYSIN#Bontoxilysin signature. Length = 1196 Score = 27.9 bits (62), Expect = 0.002 Identities = 10/46 (21%), Positives = 19/46 (41%), Gaps = 4/46 (8%) Query: 13 DMLGHQMKDFIDGVLERAEEDRKLDHI----NISISNHNGALQMDY 54 D L Q+ FI+ ++ I IS+ N N ++ ++ Sbjct: 970 DRLKDQLLIFINDKNVANVSIDQILSIYSTNIISLVNKNNSIYVEE 1015
>CHANLCOLICIN#Channel forming colicin signature. Length = 522 Score = 29.3 bits (65), Expect = 0.003 Identities = 12/46 (26%), Positives = 22/46 (47%), Gaps = 1/46 (2%) Query: 47 SIVIGIFSILVGVLFPLVGTTVGIVGLLVAIKGGSILNKKKRKIGI 92 +V +FS+L G + G + + G+L + + LN +GI Sbjct: 478 YVVALLFSLLAGTTLGIWGIAI-VTGILCSYIDKNKLNTINEVLGI 522
>BCTERIALGSPH#Bacterial general secretion pathway protein H signature. Length = 170 Score = 38.4 bits (89), Expect = 3e-06 Identities = 20/68 (29%), Positives = 35/68 (51%), Gaps = 7/68 (10%) Query: 5 EKGFTLIEIIITL---SIIAIMGAMAFPSYRGFYNEIALKTTAQEIESALHLAQQRSIDE 61 ++GFTL+E+++ L + A M +AFP+ R + + T E+ L QQR + Sbjct: 3 QRGFTLLEMMLILLLMGVSAGMVLLAFPASR----DDSAAQTLARFEAQLRFVQQRGLQT 58 Query: 62 SREFCVEL 69 + F V + Sbjct: 59 GQFFGVSV 66
>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature. Length = 1541 Score = 35.4 bits (81), Expect = 8e-04 Identities = 37/243 (15%), Positives = 76/243 (31%), Gaps = 13/243 (5%) Query: 282 EHELQSGIKDPDQ-ETKDEIKELQIKLRELQPEINSEIRIIESLEKNIDKNRKTLEKLRT 340 E E ++ D T + I+ + EI + T Sbjct: 984 EVEKRNQTVDTTNITTPNNIQADVPSVPSNNEEIARVDEAPVPPPAPATPSETTETVAEN 1043 Query: 341 DYKEEAARELNIDDSIKACPTCKRSFPEDEIESKITEMEENFKAHQVDRLKKLREEGQSI 400 +E E N D+ + + E + + ++ N + ++V + +E Q+ Sbjct: 1044 SKQESKTVEKNEQDATETTAQNREVAKEAK-----SNVKANTQTNEVAQSGSETKETQTT 1098 Query: 401 SKEVEGYQEELEQAKEKLDHLQNQAE---RLSVTIRKKESLLGTKEKTDINSLLADNQEY 457 + E+ E+AK + + Q + ++S + E++ E N + +E Sbjct: 1099 ETKETATVEKEEKAKVETEKTQEVPKVTSQVSPKQEQSETVQPQAEPARENDPTVNIKEP 1158 Query: 458 QELIKKINEIENEIK----NRDHDTTIKDLRRKKEEMEIQLKEKEKELHQEEINQETKEK 513 Q + E K N + T + + Q +N E+ K Sbjct: 1159 QSQTNTTADTEQPAKETSSNVEQPVTESTTVNTGNSVVENPENTTPATTQPTVNSESSNK 1218 Query: 514 IKV 516 K Sbjct: 1219 PKN 1221
>BLACTAMASEA#Beta-lactamase class A signature. Length = 286 Score = 33.6 bits (77), Expect = 0.001 Identities = 28/123 (22%), Positives = 49/123 (39%), Gaps = 16/123 (13%) Query: 44 ILMDVETGRVLAGQNFHEKMPMASTTKILTGLLAVENLP-----LDKLISVNPKAVGVEG 98 I MD+ +GR L E+ PM ST K++ + + L++ I + + V+ Sbjct: 43 IEMDLASGRTLTAWRADERFPMMSTFKVVLCGAVLARVDAGDEQLERKIHYRQQDL-VDY 101 Query: 99 SSI---YLESNERVKSIDLIYGLMLRSGNDAAEAIAYEISGSIEDFATLMNQRAKEIGAN 155 S + +L V +L + S N AA + + G + ++IG N Sbjct: 102 SPVSEKHLADGMTVG--ELCAAAITMSDNSAANLLLATVGG-----PAGLTAFLRQIGDN 154 Query: 156 NTN 158 T Sbjct: 155 VTR 157
>FLGHOOKFLIK#Flagellar hook-length control protein signature. Length = 375 Score = 38.3 bits (88), Expect = 5e-05 Identities = 24/104 (23%), Positives = 47/104 (45%), Gaps = 5/104 (4%) Query: 348 QFQLQPENLGKVSVKVSFDSGEVIAKVYAQSIQVKEIIEANLNQLRDALTEQGLAIGQLD 407 + +L P++LG+V + + D + ++ + V+ +EA L LR L E G+ +GQ + Sbjct: 260 ELRLHPQDLGEVQISLKVDDNQAQIQMVSPHQHVRAALEAALPVLRTQLAESGIQLGQSN 319 Query: 408 VSVGQDSREAFQQFEQWGLGKATKKNKGQNVNYGGNIDLAKVLP 451 + S E+F +Q + + + G D +P Sbjct: 320 I-----SGESFSGQQQAASQQQQSQRTANHEPLAGEDDDTLPVP 358
>FLGFLIH#Flagellar assembly protein FliH signature. Length = 228 Score = 34.8 bits (79), Expect = 2e-04 Identities = 38/198 (19%), Positives = 84/198 (42%), Gaps = 11/198 (5%) Query: 56 EQVQIIKETEEKHKQMIDETNIEVKRLMTEAEEEKKSIFEAAESEGFQRGLQLGKESGYE 115 + II+E E +Q + + ++ +A + + +G+Q GL G E G Sbjct: 28 PEETIIEEAEPSLEQQLAQLQMQAHEQGYQAGIAEGR--QQGHKQGYQEGLAQGLEQGLA 85 Query: 116 ETKI----IIEEAKLIKQEVQQEKTKMVKDIESEVIHLVIDAVKKIIDIQMEEDDGLIIN 171 E K I + + E Q + I S ++ + ++A +++I D+ +I Sbjct: 86 EAKSQQAPIHARMQQLVSEFQTTLDALDSVIASRLMQMALEAARQVIGQTPTVDNSALIK 145 Query: 172 IVKKGLDK-CAYTERLIIRTNPADFALLQSAKNRIYMMTEGVDEIEVKNDPALKAGSIII 230 +++ L + ++ + +R +P D + + T + ++ DP L G + Sbjct: 146 QIQQLLQQEPLFSGKPQLRVHPDDLQRVDD----MLGATLSLHGWRLRGDPTLHPGGCKV 201 Query: 231 ETSSGTIDSSVETQIRQI 248 G +D+SV T+ +++ Sbjct: 202 SADEGDLDASVATRWQEL 219
>FLGMOTORFLIG#Flagellar motor switch protein FliG signature. Length = 344 Score = 381 bits (979), Expect = e-134 Identities = 195/331 (58%), Positives = 267/331 (80%) Query: 9 ELTGREKAAILLISLGPEYSAQIFKHLTDEEIEELTLEIANMRRVSPLEKEKVLAEFHEV 68 LTG++KAAILL+S+G E S+++FK+L+ EEIE LT EIA + ++ K+ VL EF E+ Sbjct: 14 ALTGKQKAAILLVSIGSEISSKVFKYLSQEEIESLTFEIAKLETITSELKDNVLLEFKEL 73 Query: 69 CIAQEYISEGGINYAKDVLEKALGSQKAMDIINKLTASLQVKPFDFARKADPNQLLSFIQ 128 +AQE+I +GGI+YA+++LEK+LG+QKA+DIIN L ++LQ +PF+F R+ADP +L+FIQ Sbjct: 74 MMAQEFIQKGGIDYARELLEKSLGTQKAVDIINNLGSALQSRPFEFVRRADPANILNFIQ 133 Query: 129 NEHPQTIALILAYLSSTQSAQILSALPQAKQSEVARRIATMDRTSPDIIKEVEMVLERKL 188 EHPQTIALIL+YL +++ ILS+LP Q+ VARRIA MDRTSP++++EVE VLE+KL Sbjct: 134 QEHPQTIALILSYLDPQKASFILSSLPTEVQTNVARRIALMDRTSPEVVREVERVLEKKL 193 Query: 189 SSLVNQDYTSTGGIQAIVDILNSVDRGTEKNIMDTLEMQDAELAEEIRKRMFVFEDIISL 248 +SL ++DYTS GG+ +V+I+N DR TEK I+++LE +D ELAEEI+K+MFVFEDI+ L Sbjct: 194 ASLSSEDYTSAGGVDNVVEIINMADRKTEKFIIESLEEEDPELAEEIKKKMFVFEDIVLL 253 Query: 249 DSTSIQRFIREIDNKELAIALKGATEEVSDVIYGNMSKRMAEMIKEDMEFMGPVRLRDVE 308 D SIQR +REID +ELA ALK V + I+ NMSKR A M+KEDMEF+GP R +DVE Sbjct: 254 DDRSIQRVLREIDGQELAKALKSVDIPVQEKIFKNMSKRAASMLKEDMEFLGPTRRKDVE 313 Query: 309 EAQQKIVNIIRKLEEAGEIIIARGGGDEIIV 339 E+QQKIV++IRKLEE GEI+I+RGG ++++V Sbjct: 314 ESQQKIVSLIRKLEEQGEIVISRGGEEDVLV 344
>FLGMRINGFLIF#Flagellar M-ring protein signature. Length = 559 Score = 183 bits (466), Expect = 2e-53 Identities = 119/555 (21%), Positives = 219/555 (39%), Gaps = 62/555 (11%) Query: 14 EYVQGLDKNKKIKIGLSALFILISLTGIIYFFSRPDYVVLYNNLNPEESGSVMETLQGSN 73 E++ L N +I + ++ + + ++ + PDY L++NL+ ++ G+++ L N Sbjct: 14 EWLNRLRANPRIPLIVAGSAAVAIVVAMVLWAKTPDYRTLFSNLSDQDGGAIVAQLTQMN 73 Query: 74 IRADFGDTSGTILVRKQDEKRAQVVVATQGLPTARFSYEDAFSGNSWMMTSEERAQRILI 133 I F + SG I V ++ +A QGLP + + ++ Sbjct: 74 IPYRFANGSGAIEVPADKVHELRLRLAQQGLPKGGAVGFELLDQEKFGISQFSEQVNYQR 133 Query: 134 AQQNYLASTMEEIPGVSKAVVNLTIPERTGFMMADNNANAKASVWLDISSNANLESGSIK 193 A + LA T+E + V A V+L +P+ + F+ + ASV + + L+ G I Sbjct: 134 ALEGELARTIETLGPVKSARVHLAMPKPSLFVREQK--SPSASVTVTLEPGRALDEGQIS 191 Query: 194 GIAILVSNAVQGLEPENVTIHGPDGRVLNQEAGSDSSLLGASDQMNLQQAVQKDLEKSIT 253 + LVS+AV GL P NVT+ G +L Q + S Q+ V+ +++ I Sbjct: 192 AVVHLVSSAVAGLPPGNVTLVDQSGHLLTQ--SNTSGRDLNDAQLKFANDVESRIQRRIE 249 Query: 254 DFLSSVYGHGNVVVMAGVRLGFDSNVTELVEFAPPIEGQETGIIRSMHELTHTAIDGPGG 313 LS + G+GNV +L F + ++P + + + ++ G G Sbjct: 250 AILSPIVGNGNVHAQVTAQLDFANKEQTEEHYSPNGDASKATLRSRQLNISEQVGAGYPG 309 Query: 314 GIPGV---------------DPNVGDIPQNVEDDEYL-------SRYDEASQTINYEINE 351 G+PG P QN R + ++T NYE++ Sbjct: 310 GVPGALSNQPAPPNEAPIATPPTNQQNAQNTPQTSTSTNSNSAGPRSTQRNETSNYEVDR 369 Query: 352 LRQKIVRAHGQVHDISVAVYVNKSTLADGD---LSDQERRELINIVSAAAGLDTR---VV 405 + G + +SVAV VN TLADG L+ + +++ ++ A G + + Sbjct: 370 TIRHTKMNVGDIERLSVAVVVNYKTLADGKPLPLTADQMKQIEDLTREAMGFSDKRGDTL 429 Query: 406 QVGVQEFNDSLADQWQLAMDGNLAAGEGGQPWW---LIGLLATLILGAAYIVINKVRK-- 460 V F+ + G Q + L L+L A+I+ K + Sbjct: 430 NVVNSPFS-------AVDNTGGELPFWQQQSFIDQLLAAGRWLLVLVVAWILWRKAVRPQ 482 Query: 461 --NRSQEEEILVQDVMIPDELEEI----------------NLDLSGSQVKQQIEKLVNKK 502 R +E + + + E EE N L + Q+I ++ + Sbjct: 483 LTRRVEEAKAAQEQAQVRQETEEAVEVRLSKDEQLQQRRANQRLGAEVMSQRIREMSDND 542 Query: 503 PDAVAQMLKNWINEE 517 P VA +++ W++ + Sbjct: 543 PRVVALVIRQWMSND 557
>FLGHOOKFLIE#Flagellar hook-basal body complex protein FliE signature. Length = 103 Score = 56.6 bits (136), Expect = 4e-14 Identities = 25/81 (30%), Positives = 42/81 (51%), Gaps = 1/81 (1%) Query: 22 QKESNNSQTTFNDLFKNAINEANILDQMAQNDSVKLATGELD-NIHEAMITAQKADVSLQ 80 Q+ +F A++ + A+ + K GE +++ M QKA VS+Q Sbjct: 23 QESLPQPTISFAGQLHAALDRISDTQTAARTQAEKFTLGEPGVALNDVMTDMQKASVSMQ 82 Query: 81 FIMQVRNKVLDAYREIMRMQI 101 +QVRNK++ AY+E+M MQ+ Sbjct: 83 MGIQVRNKLVAAYQEVMSMQV 103
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 30.3 bits (68), Expect = 0.002 Identities = 14/42 (33%), Positives = 21/42 (50%), Gaps = 6/42 (14%) Query: 7 INTSASGLTAERFRMDTISKNIANANTTRTPNGSPYKRQVVL 48 IN + SGL A + ++T S NI++ N Y RQ + Sbjct: 4 INNAMSGLNAAQAALNTASNNISSYNVA------GYTRQTTI 39 Score = 28.0 bits (62), Expect = 0.015 Identities = 7/31 (22%), Positives = 13/31 (41%) Query: 108 NVDIVVEMANMISATRAYEANTTALNATKSM 138 V++ E N+ + Y AN L ++ Sbjct: 508 GVNLDEEYGNLQRFQQYYLANAQVLQTANAI 538
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 26.8 bits (59), Expect = 0.036 Identities = 11/37 (29%), Positives = 18/37 (48%) Query: 7 SNINLLNSAMSASWVRNEAISNNIANANTPNFKKSTV 43 S IN S ++A+ SNNI++ N + + T Sbjct: 2 SLINNAMSGLNAAQAALNTASNNISSYNVAGYTRQTT 38
>cloacin#Cloacin signature. Length = 551 Score = 27.8 bits (61), Expect = 0.007 Identities = 11/26 (42%), Positives = 17/26 (65%) Query: 18 KYEDDKKKLEEDKLNKEKNLIRRKVE 43 K ++DKK+ E+ LN EKN R+ + Sbjct: 433 KKKEDKKRSAENNLNDEKNKPRKGFK 458
>BICOMPNTOXIN#Staphylococcal bi-component toxin signature. Length = 315 Score = 24.9 bits (54), Expect = 0.044 Identities = 11/60 (18%), Positives = 23/60 (38%), Gaps = 8/60 (13%) Query: 18 IAYLRSIGIYQEKVTTT---ETGKKAYWFKNNRELQQHIQDYKGDWELQEFIKALRKIKG 74 I Y R++ + +T + + N + + Y+ +W+ E K+KG Sbjct: 259 ITYGRNMDVTHAIKRSTHYGNSYLDGHRVHNAFVNRNYTVKYEVNWKTHEI-----KVKG 313
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 30.2 bits (68), Expect = 0.006 Identities = 14/62 (22%), Positives = 20/62 (32%), Gaps = 20/62 (32%) Query: 62 DVPLLMIAMMTFFINARHIFYGIGFVAKFRKMGWKYPYMVLTLTDETYSVFCSIEYPENI 121 D+P L RH FV + K G V E + + +P N+ Sbjct: 316 DIPDL----------VRH------FVQQAEKEGLD----VKRFDQEALELMKAHPWPGNV 355 Query: 122 DE 123 E Sbjct: 356 RE 357
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 80.3 bits (198), Expect = 1e-19 Identities = 31/126 (24%), Positives = 61/126 (48%), Gaps = 7/126 (5%) Query: 2 IKVLLVEDDTLVAKIILYYLEQAETYEVIWAKTGSEAY-ANARDKFDVILLDILLPDVNG 60 +L+ +DD + ++ L +A Y+V + + A D+++ D+++PD N Sbjct: 4 ATILVADDDAAIRTVLNQALSRAG-YDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENA 62 Query: 61 LDLCSRLTE-WHDCPIIFISCLDCSDTIVQALERGGDDFIVKPFDNKILEARIKANLRRA 119 DL R+ + D P++ +S + T ++A E+G D++ KPFD + + RA Sbjct: 63 FDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLT----ELIGIIGRA 118 Query: 120 NKSPNK 125 P + Sbjct: 119 LAEPKR 124
>PF06580#Sensor histidine kinase Length = 349 Score = 33.3 bits (76), Expect = 0.002 Identities = 23/106 (21%), Positives = 39/106 (36%), Gaps = 24/106 (22%) Query: 495 FQNLLLNAIYY----TKPNGKVSVSLKKEENTAIISFTDTGIGISPQDIDKIFDRYYRIS 550 Q L+ N I + GK+ + K+ T + +TG ++ Sbjct: 260 VQTLVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTG----------------SLA 303 Query: 551 NKEKHQSTGLGLSIAQEIIQQHQG---SIGVNSELGFGTTFTVHLP 593 K +STG GL +E +Q G I ++ + G V +P Sbjct: 304 LKNTKESTGTGLQNVRERLQMLYGTEAQIKLSEKQG-KVNAMVLIP 348
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 64.6 bits (157), Expect = 4e-15 Identities = 24/177 (13%), Positives = 59/177 (33%), Gaps = 14/177 (7%) Query: 15 TRQALIESAMDLLFKYGVKKVTIDDICSDCGLSKGAFYHNFPTKDHIVVLSVNAGLDKYI 74 TRQ +++ A+ L + GV ++ +I G+++GA Y +F K + Sbjct: 12 TRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWELSESNIG 71 Query: 75 DQYFARDS--SKSVAEQLIDLNMCVFKYFKHIGKEMTR----------ASYEGQIRSKVE 122 + + L ++ + V + + E + + + Sbjct: 72 ELELEYQAKFPGDPLSVLREILIHVLESTVT-EERRRLLMEIIFHKCEFVGEMAVVQQAQ 130 Query: 123 VRIPGRTYVDTLTSLVQQSFEKNSFSTNLNEDETYMLCIATFTGMLMKWCTQDDAMD 179 + +Y D + ++ E +L ++ +G++ W + D Sbjct: 131 RNLCLESY-DRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYISGLMENWLFAPQSFD 186
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 34.8 bits (80), Expect = 6e-04 Identities = 20/128 (15%), Positives = 38/128 (29%), Gaps = 16/128 (12%) Query: 247 FDSVFEELKTMGAVKEQGFNE-----EDITDRYRNVEAEAENLQVQETQLRKLFEKA--- 298 F + KE ++ + R E + + + L K Sbjct: 191 IKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYENLSRVEKSRLDDFSSLLHKQAIA 250 Query: 299 -----EKIEDLMRIENELARIRLQINQLRSQLKSYDQRVNFATIDL---TLTEIDSQRIN 350 E+ + NEL + Q+ Q+ S++ S + T L ++ N Sbjct: 251 KHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDN 310 Query: 351 IQSIDEGL 358 I + L Sbjct: 311 IGLLTLEL 318
>PF06580#Sensor histidine kinase Length = 349 Score = 42.2 bits (99), Expect = 3e-06 Identities = 18/91 (19%), Positives = 36/91 (39%), Gaps = 9/91 (9%) Query: 377 IVQEALSNAIKH-----SEANRITIDIKTTLNTVGATIKDDGKGFGLQQIPKGGHYGLVS 431 +VQ + N IKH + +I + TV +++ G L+ + GL + Sbjct: 259 LVQTLVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSL-ALKNTKESTGTGLQN 317 Query: 432 MKERAANVNG---LLDIKSNEKGTRVTITIP 459 ++ER + G + + + + IP Sbjct: 318 VRERLQMLYGTEAQIKLSEKQGKVNAMVLIP 348
>YERSSTKINASE#Yersinia serine/threonine protein kinase signature. Length = 732 Score = 32.0 bits (72), Expect = 0.006 Identities = 19/53 (35%), Positives = 30/53 (56%), Gaps = 4/53 (7%) Query: 341 EHGYIFYRHNIEGVFEYVTKSVEDVLGYTVDEFMDNFE----KFITDSPINEE 389 E+GY +R I GV T+ + D+LG + D D+ E +F++D I+EE Sbjct: 364 ENGYPIHRPGIAGVETAYTRFITDILGVSADSRPDSNEARLHEFLSDGTIDEE 416
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 84.1 bits (208), Expect = 5e-21 Identities = 30/124 (24%), Positives = 59/124 (47%), Gaps = 1/124 (0%) Query: 6 KLLIIEDDKYILNFISLSLKTSGYAFETARTGLEGMSLFYSHHPDIILLDLGLPDIDGID 65 +L+ +DD I ++ +L +GY + D+++ D+ +PD + D Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64 Query: 66 VIKSIRMI-SQVPILIVSARGQENEKIAALDEGADDYITKPFHMGELMARIRVVQRKLKK 124 ++ I+ +P+L++SA+ I A ++GA DY+ KPF + EL+ I + K+ Sbjct: 65 LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKR 124 Query: 125 AMQP 128 Sbjct: 125 RPSK 128
>PF06580#Sensor histidine kinase Length = 349 Score = 41.4 bits (97), Expect = 4e-06 Identities = 14/69 (20%), Positives = 27/69 (39%), Gaps = 8/69 (11%) Query: 338 MPDEIVTVLIDGKLIVQVLINLLDNAIKH----TEDHCSIFVNVYIEDDMAVFEVADNGD 393 + I+ V + ++VQ L+ +N IKH I + ++ EV + G Sbjct: 246 INPAIMDVQVP-PMLVQTLV---ENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGS 301 Query: 394 GIDESIHNS 402 ++ S Sbjct: 302 LALKNTKES 310
>SACTRNSFRASE#Streptothricin acetyltransferase signature. Length = 173 Score = 28.8 bits (64), Expect = 0.007 Identities = 15/61 (24%), Positives = 26/61 (42%), Gaps = 12/61 (19%) Query: 81 LVLSPICVYPDYFNRGIARSMMEKAFQIAKKMGYKAVFL---------CGDPTFYQKVGF 131 ++ I V DY +G+ +++ KA + AK+ + + L C FY K F Sbjct: 90 ALIEDIAVAKDYRKKGVGTALLHKAIEWAKENHFCGLMLETQDINISAC---HFYAKHHF 146 Query: 132 R 132 Sbjct: 147 I 147
>ANTHRAXTOXNA#Anthrax toxin LF subunit signature. Length = 800 Score = 30.9 bits (69), Expect = 0.014 Identities = 18/84 (21%), Positives = 31/84 (36%), Gaps = 12/84 (14%) Query: 241 YESSQLALRLMKDQNKKKEEKVKDLQAFIARFSANASKSKQATSRKKLLEKITIDDIEPS 300 Y S + ++NK ++EK KD + + + + LL+KI D +E Sbjct: 38 YTESDIKRNHKTEKNKTEKEKFKDSINNLVKTEFTNETLDKIQQTQDLLKKIPKDVLE-- 95 Query: 301 TRRYPFVGFTPLREVGNDILIVDG 324 E+G +I D Sbjct: 96 ----------IYSELGGEIYFTDI 109
>TONBPROTEIN#Gram-negative bacterial tonB protein signature. Length = 239 Score = 31.5 bits (71), Expect = 0.004 Identities = 18/64 (28%), Positives = 28/64 (43%), Gaps = 1/64 (1%) Query: 122 TPNETQQPMYQQQEELPQRQVDEDATQPGEEAPEEAPRLEEKPTLPPNERQQPQTGQQVD 181 TP + + P Q P + + +P E P+EAP + EKP P + +P Q Sbjct: 51 TPADLEPPQAVQPPPEPVVEPEP-EPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKVQEQ 109 Query: 182 PEPQ 185 P+ Sbjct: 110 PKRD 113
>FbpA_PF05833#Fibronectin-binding protein Length = 577 Score = 29.8 bits (67), Expect = 0.005 Identities = 16/78 (20%), Positives = 31/78 (39%), Gaps = 5/78 (6%) Query: 57 FFDQITKQLSKLVDVRQIEELKHEESDYREMVLIKIKAEEKDRTSILEQLEAYKGKIISV 116 + + ++ + +IEE+K E + + KI +K +TS + G I V Sbjct: 413 YLYSVLTNINNADNYDEIEEIKKELIETGYIKFKKIYKSKKSKTSKPMHFISKDGIDIYV 472 Query: 117 A-----TEYLTVEMTGDQ 129 +YLT++ Sbjct: 473 GKNNIQNDYLTLKFANKH 490
>GPOSANCHOR#Gram-positive coccus surface protein anchor signature. Length = 539 Score = 28.9 bits (64), Expect = 0.039 Identities = 27/151 (17%), Positives = 60/151 (39%), Gaps = 8/151 (5%) Query: 226 KRLSKEKQ----DLQEIAAKLECCESELDELKGFYQEAEAQLEKIKIDTGKVSLEELEGE 281 ++L ++ + Q + L+ +++ +EA ++L ++ K++ E E + Sbjct: 368 QKLEEQNKISEASRQSLRRDLDASREAKKQVEKALEEANSKLAALE----KLNKELEESK 423 Query: 282 KSKDIEEDELISHEEAQTKPTEDGEKIKARRNRRKRSIKQTNKSYLPMNPERDNSRRRWY 341 K + E+ EL + EA+ K ++ +A + R+ K ++ P + Sbjct: 424 KLTEKEKAELQAKLEAEAKALKEKLAKQAEELAKLRAGKASDSQTPDAKPGNKAVPGKGQ 483 Query: 342 QQLPRTLTYPGKGPVHQFERPRPDTQSAELP 372 T K P+ + +R P T P Sbjct: 484 APQAGTKPNQNKAPMKETKRQLPSTGETANP 514
>BLACTAMASEA#Beta-lactamase class A signature. Length = 286 Score = 34.8 bits (80), Expect = 2e-04 Identities = 23/121 (19%), Positives = 45/121 (37%), Gaps = 5/121 (4%) Query: 9 NARAAILFKASPNNKVLFQKHATKRLPIASITKLMTMLVLLDGIDAGKIKWTDKVEMSPA 68 + R ++ + + L A +R P+ S K++ +L +DAG + K+ Sbjct: 37 SGRVGMIEMDLASGRTLTAWRADERFPMMSTFKVVLCGAVLARVDAGDEQLERKIHYRQQ 96 Query: 69 AASLYGSKIHLKPGEKLPVGDMFKSMIIASANDAAIALAEHLSGTMDNFIDKMNQKAKTL 128 Y + + VG++ + I S N AA L + G + + + Sbjct: 97 DLVDYSPVSEKHLADGMTVGELCAAAITMSDNSAANLLLATVGG-----PAGLTAFLRQI 151 Query: 129 G 129 G Sbjct: 152 G 152
>NEISSPPORIN#Neisseria sp. porin signature. Length = 348 Score = 28.8 bits (64), Expect = 0.040 Identities = 13/35 (37%), Positives = 16/35 (45%), Gaps = 5/35 (14%) Query: 136 FNKWEIYEHLSDYQNISP-----HLPLSVLYDSPD 165 N WE + + IS H LSV YDSP+ Sbjct: 123 VNAWESGKFTGNVLEISGMAQREHRYLSVRYDSPE 157
>TYPE4SSCAGX#Type IV secretion system CagX conjugation protein signature. Length = 522 Score = 25.9 bits (56), Expect = 0.025 Identities = 16/48 (33%), Positives = 25/48 (52%) Query: 13 QEKFQLGDAKQVIYIIKQVAEDHVKQRIYDCIGLHTLKIEVIPASEKV 60 QE+ Q KQ+ + K+ AE+ V+QR D I + T K + P + Sbjct: 221 QEQAQANALKQIEELNKKQAEEAVRQRAKDKISIKTDKSQKSPEDNSI 268
>RTXTOXINA#Gram-negative bacterial RTX toxin determinant A family signature. Length = 1024 Score = 32.2 bits (73), Expect = 0.009 Identities = 29/106 (27%), Positives = 37/106 (34%) Query: 239 GEDGEDGVTGVTGPTGATGPTGEDGATGATGPTGATGPTGDDGATGATGPTGATGPTGED 298 G DG+D + G G G G D +G G G G+D G G G G+D Sbjct: 742 GADGDDLIEGNDGNDRLYGDKGNDTLSGGNGDDQLYGGDGNDKLIGVAGNNYLNGGDGDD 801 Query: 299 GEDGATGATGPTGATGPTGEDGATGATGPTGATGPTGEDGEDGATG 344 + G G D G+ G G G+D G G Sbjct: 802 EFQVQGNSLAKNVLFGGKGNDKLYGSEGADLLDGGEGDDLLKGGYG 847 Score = 31.1 bits (70), Expect = 0.026 Identities = 29/106 (27%), Positives = 34/106 (32%) Query: 221 GEDGATGATGPTGATGPTGEDGEDGVTGVTGPTGATGPTGEDGATGATGPTGATGPTGDD 280 G DG G G G+ G D ++G G G G D G G G GDD Sbjct: 742 GADGDDLIEGNDGNDRLYGDKGNDTLSGGNGDDQLYGGDGNDKLIGVAGNNYLNGGDGDD 801 Query: 281 GATGATGPTGATGPTGEDGEDGATGATGPTGATGPTGEDGATGATG 326 G G D G+ G G G+D G G Sbjct: 802 EFQVQGNSLAKNVLFGGKGNDKLYGSEGADLLDGGEGDDLLKGGYG 847
>PHPHTRNFRASE#Phosphoenolpyruvate-protein phosphotransferase signature. Length = 572 Score = 30.1 bits (68), Expect = 0.014 Identities = 15/65 (23%), Positives = 26/65 (40%), Gaps = 6/65 (9%) Query: 283 TSLAALEAMACGKPVIAGLAGGLSD------IVLHGYNGYLIKPSVENLVTAIEELVKDK 336 TS +A+ + + P + G +++ G G +I E V A EE Sbjct: 188 TSHSAIMSRSLEIPAVVGTKEVTEKIQHGDMVIVDGIEGIVIVNPTEEEVKAYEEKRAAF 247 Query: 337 KKRNQ 341 +K+ Q Sbjct: 248 EKQKQ 252
>adhesinb#Adhesin B signature. Length = 310 Score = 107 bits (268), Expect = 3e-31 Identities = 34/127 (26%), Positives = 59/127 (46%), Gaps = 4/127 (3%) Query: 2 IFLMMFTLLAVVVAGCSPSSQDDSNDKYQVVATRTMLADLVSVIGGEYVTVTGLMGPGID 61 + L++ + + SS + + K VVAT +++AD+ I G+ + + ++ G D Sbjct: 7 LVLLLLAFVGLAACSSQKSSTETGSSKLNVVATNSIIADITKNIAGDKINLHSIVPVGQD 66 Query: 62 PHLYNASAGDVNTIQSADLLVYNGLQLESKLGEVFQRM--KSQKIPNANYIIEENNI--I 117 PH Y DV ADL+ YNG+ LE+ F ++ ++K N +Y + I Sbjct: 67 PHEYEPLPEDVKKTSQADLIFYNGINLETGGNAWFTKLVENAKKKENKDYYAVSEGVDVI 126 Query: 118 KLTEQGR 124 L Q Sbjct: 127 YLEGQSE 133
>PF01206#SirA family protein Length = 76 Score = 56.7 bits (137), Expect = 5e-15 Identities = 14/68 (20%), Positives = 36/68 (52%), Gaps = 2/68 (2%) Query: 5 VDARGRSCPEPVVMTKQAVENY-SGETIQVLVDAIVAVENIKRFASNQGFKVNVLENDED 63 +DA G +CP P++ K+ + +GE + V+ +V++ + F+ G ++ + ++ Sbjct: 8 LDATGLNCPLPILKAKKTLATMNAGEVLYVMATDPGSVKDFESFSKQTGHELLEQKEEDG 67 Query: 64 -YEILIEK 70 Y +++ Sbjct: 68 TYHFRLKR 75
>PF05272#Virulence-associated E family protein Length = 892 Score = 30.0 bits (67), Expect = 0.011 Identities = 11/30 (36%), Positives = 15/30 (50%) Query: 47 GPSGSGKTTLLNALATIDRPTDGQIFIKEH 76 G G GK+TL+N L +D +D I Sbjct: 603 GTGGIGKSTLINTLVGLDFFSDTHFDIGTG 632
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 69.5 bits (170), Expect = 6e-16 Identities = 33/129 (25%), Positives = 56/129 (43%), Gaps = 5/129 (3%) Query: 3 KIMIIEDDITIAESLSAYIEKYNYEVFIVRQLEKIMDEFNEYKPDLILLDVNLPIYDGFF 62 I++ +DD I L+ + + Y+V I + DL++ DV +P + F Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64 Query: 63 WCREIRNI-SSLPIIFISARTGDLEQIYAMDNGADDYIVKPFVLDVVIAKINANIRRAYG 121 I+ LP++ +SA+ + I A + GA DY+ KPF L +I I RA Sbjct: 65 LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELI----GIIGRALA 120 Query: 122 DYSNLTKER 130 + + Sbjct: 121 EPKRRPSKL 129
>cdtoxina#Cytolethal distending toxin A signature. Length = 258 Score = 30.8 bits (69), Expect = 0.002 Identities = 11/32 (34%), Positives = 15/32 (46%) Query: 1 MKHHRIKVFLVVILIMGLLAGCQTNKETNSEQ 32 M + R +F+ ILI LL GC + K Sbjct: 1 MANKRTPIFIAGILIPILLNGCSSGKNKAYLD 32
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 63.7 bits (155), Expect = 8e-14 Identities = 21/123 (17%), Positives = 50/123 (40%), Gaps = 7/123 (5%) Query: 2 STVLIVEDNLEQLCFLKDILEESQEDITIFTATSVKQAYHLALSHNINLFFIDIGLPDGS 61 +T+L+ +D+ L L + + ++ + + + +L D+ +PD + Sbjct: 4 ATILVADDDAAIRTVLNQALS--RAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDEN 61 Query: 62 GLELAKNLRAIQKYELTWVVFLTTYTQYILKAFKQIHC--YDYIVKPYKKEDIIAITKKL 119 +L ++ + V+ ++ + A K YDY+ KP+ ++I I + Sbjct: 62 AFDLLPRIKKARPD--LPVLVMSAQNT-FMTAIKASEKGAYDYLPKPFDLTELIGIIGRA 118 Query: 120 LNT 122 L Sbjct: 119 LAE 121
>PF06580#Sensor histidine kinase Length = 349 Score = 29.8 bits (67), Expect = 0.018 Identities = 50/340 (14%), Positives = 115/340 (33%), Gaps = 52/340 (15%) Query: 114 SIPYIAFILIHTTSFVVISILCWIL--PIRKFYIQYKFTLERYFPILLVFILNIYFLNSL 171 + Y + L + IS++ +L R F + + I+L + + + Sbjct: 31 ASLYGSPKLHSMIFNIAISLMGLVLTHAYRSFIKRQGWLKLNMGQIILRVLPACVVIGMV 90 Query: 172 MYS--------YDFMDAIP-AFMIALLTAIIIFSFLQVMV----------EDREEKILIR 212 + F++ P AF + L +II + + ++ I Sbjct: 91 WFVANTSIWRLLAFINTKPVAFTLPLALSIIFNVVVVTFMWSLLYFGWHFFKNYKQAEID 150 Query: 213 SYEQQKSLVLPLIEEIRSK--QHDFKNHITTIYGFSQQSNSNISQNIQTYIENLNKHLKD 270 ++ + ++++ H N + I + + + + + E + L+ Sbjct: 151 QWKMASMAQEAQLMALKAQINPHFMFNALNNIRALILEDPTKAREMLTSLSELMRYSLRY 210 Query: 271 VD---IFFHIENNVISGILYSKLCEAESRYID-LHYEIPPYEIPFPLTDYEYVA-ILGNV 325 + + E V+ Y +L ++ D L +E +I + D + ++ + Sbjct: 211 SNARQVSLADELTVVD--SYLQLASI--QFEDRLQFEN---QINPAIMDVQVPPMLVQTL 263 Query: 326 FDNAFEAPMKSEDKMKRIIFKLIDDGNSSVLEIWNNGTPINSKDMSDLFRKGYSTKKNKS 385 +N + + + +I+ K D + LE+ N G+ + K K Sbjct: 264 VENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSL--------------ALKNTKE 309 Query: 386 QRGYGLYNV-KRIVDKYNGN--IEILTQNNLTGFRICFPS 422 G GL NV +R+ Y I++ + + P Sbjct: 310 STGTGLQNVRERLQMLYGTEAQIKLSEKQGKVNAMVLIPG 349
>BONTOXILYSIN#Bontoxilysin signature. Length = 1196 Score = 29.5 bits (66), Expect = 0.012 Identities = 10/52 (19%), Positives = 21/52 (40%), Gaps = 6/52 (11%) Query: 55 ITQHPTRRKIALVLMLISYVGTAVFIGIIFSALRTNESFVYFFAYAGVVILL 106 I + + ++ + G A+ I T+ SFV + +G + L+ Sbjct: 573 INLTQEIDSMCGINEVVLWFGKALNIL------NTSNSFVEEYQDSGAISLI 618
>TCRTETA#Tetracycline resistance protein signature. Length = 399 Score = 31.3 bits (71), Expect = 0.006 Identities = 8/44 (18%), Positives = 25/44 (56%) Query: 115 SPSVTACIPQIVSKEKLASANGIIQQVGAIVNLIGPIIAGILYS 158 P++ A + + V +E+ G + + ++ +++GP++ +Y+ Sbjct: 317 MPALQAMLSRQVDEERQGQLQGSLAALTSLTSIVGPLLFTAIYA 360
>FERRIBNDNGPP#Ferrichrome-binding periplasmic protein signature. Length = 296 Score = 34.2 bits (78), Expect = 5e-04 Identities = 48/255 (18%), Positives = 97/255 (38%), Gaps = 27/255 (10%) Query: 55 NPEKIVDLS-GNSDILSILGYKVIGTANSDAYDYKKFPSYLEDTLQGATILGYSMQDTMD 113 +P +IV L ++L LG G A D +Y+ + S E L +++ ++ + Sbjct: 34 DPNRIVALEWLPVELLLALGIVPYGVA--DTINYRLWVS--EPPLP-DSVIDVGLRTEPN 88 Query: 114 VEAIMNLTPDLIIISTVQEKMYDQLNNIAPTVMI-----QLEALDWKKDVKALGKVFNKE 168 +E + + P ++ S + L IAP + +K + + + N + Sbjct: 89 LELLTEMKPSFMVWSAGYGPSPEMLARIAPGRGFNFSDGKQPLAMARKSLTEMADLLNLQ 148 Query: 169 EAANDWLENYN-----IKAIEIGDQIKETYGAETSYLSFLASGGQFYVFDGAGVGSTLYQ 223 AA L Y +K + GA L+ L VF + + Sbjct: 149 SAAETHLAQYEDFIRSMKPRFVKR------GARPLLLTTLIDPRHMLVFGPNSLFQEILD 202 Query: 224 DMGLSKPEGMPEQSDI-SLPVVTYEGLASIKS-DYI-FVIATDEDLKVLKENAIWNSLTP 280 + G+ P +++ V+ + LA+ K D + F +D+ L +W ++ Sbjct: 203 EYGI--PNAWQGETNFWGSTAVSIDRLAAYKDVDVLCFDHDNSKDMDALMATPLWQAMPF 260 Query: 281 VKEGKVIELDASPYF 295 V+ G+ + A ++ Sbjct: 261 VRAGRFQRVPAVWFY 275
>PF06580#Sensor histidine kinase Length = 349 Score = 181 bits (462), Expect = 2e-54 Identities = 65/217 (29%), Positives = 111/217 (51%), Gaps = 11/217 (5%) Query: 340 FVENQKTLEYIASSAMDKAETNEISFLQAQINPHFLNNTLSVIGAMIKRDPEGARELIGN 399 F +N K E A+ ++ L+AQINPHF+ N L+ I A+I DP ARE++ + Sbjct: 140 FFKNYKQAEIDQWKMASMAQEAQLMALKAQINPHFMFNALNNIRALILEDPTKAREMLTS 199 Query: 400 LGEYLRNSCYFDHTSPMVLLEEELEAVNTYVAIEKTRFGNRLNFHI-VCSHLPKFHIPRL 458 L E +R S + + + V L +EL V++Y+ + +F +RL F + + +P + Sbjct: 200 LSELMRYSLRYSN-ARQVSLADELTVVDSYLQLASIQFEDRLQFENQINPAIMDVQVPPM 258 Query: 459 ILQPLVENAIRHSILRKADGGNVWLTITRRANKIFFEVKDDGVGIAEEKLLRLTAKEDQG 518 ++Q LVEN I+H I + GG + L T+ + EV++ G + KE G Sbjct: 259 LVQTLVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSLALKNT------KESTG 312 Query: 519 IGITNIHKRLIKYYKK--GLKIESRKGEGTSVKFSIP 553 G+ N+ +RL Y +K+ ++G+ ++ IP Sbjct: 313 TGLQNVRERLQMLYGTEAQIKLSEKQGKVNAM-VLIP 348
>TCRTETA#Tetracycline resistance protein signature. Length = 399 Score = 45.2 bits (107), Expect = 3e-07 Identities = 65/381 (17%), Positives = 137/381 (35%), Gaps = 29/381 (7%) Query: 4 LRGNRWTILIVSIIMNICIGAAYAWSVFQTPLVELLGSTTAEVSLAFTLSLALVPVSMMI 63 ++ NR I+I+S + +G V L +L+ S V+ + + LAL + Sbjct: 1 MKPNRPLIVILSTVALDAVGIGLIMPVLPGLLRDLVHSND--VTAHYGILLALYALMQFA 58 Query: 64 F----GRFQDKKGPRMITLLGSVIFGAGIYLTGLTNSVMMLYLTYGVLGGL--GIGAVYG 117 G D+ G R + L+ + + +LY+ ++ G+ GAV G Sbjct: 59 CAPVLGALSDRFGRRPVLLVSLAGAAVDYAIMATAPFLWVLYIGR-IVAGITGATGAVAG 117 Query: 118 CTVANTVKWFPDKRGLAGGLVAAGFGSGAVILAPLAEGLINRYDVLTTFKLMGIIFFILI 177 +A+ D+R G ++A FG G ++ P+ GL+ + F + + Sbjct: 118 AYIADITD--GDERARHFGFMSACFGFG-MVAGPVLGGLMGGFSPHAPFFAAAALNGLNF 174 Query: 178 ALCSSIIKSPQPGWKPKGWEPANSKSKTSINSGLDLSPEEMMKTGTFYILWVIYIIGAVS 237 ++ G + + ++N M L ++ I + Sbjct: 175 LTGCFLLPESHKGER-------RPLRREALNPLASFRWARGMT--VVAALMAVFFIMQLV 225 Query: 238 GLMIIGHASPIAQGQIGLTSSVAAICVSILALANTFGRIF-WGIVSDRIGRYNTMALMFA 296 G + + + ++ I ++ + ++ + G V+ R+G + L Sbjct: 226 GQVPAALWVIFGEDRFHWDATTIGISLAAFGILHSLAQAMITGPVAARLGERRALMLGMI 285 Query: 297 VSASMLLVLNIADNIVLFIISTFGIALSFGGFLGIMPSVTA---DKFGAKSLGMNYGIIF 353 + ++L A + + L+ GG MP++ A + + G G + Sbjct: 286 ADGTGYILLAFATRGWMAFPIM--VLLASGGI--GMPALQAMLSRQVDEERQGQLQGSLA 341 Query: 354 TAYGVAAVVGPRIAAVAVEAS 374 + ++VGP + AS Sbjct: 342 ALTSLTSIVGPLLFTAIYAAS 362
>SECA#SecA protein signature. Length = 901 Score = 28.3 bits (63), Expect = 0.050 Identities = 23/107 (21%), Positives = 36/107 (33%), Gaps = 20/107 (18%) Query: 172 DVLDLYQRPYDSNKPVVCMDEQPIQLIRETRTPLPLEPGKPERHDYEYERNGTANAFMFT 231 + QR +DE LI E RTPL + G E Y+R + Sbjct: 194 SPEERVQRKLH----YALVDEVDSILIDEARTPLIIS-GPAEDSSEMYKRVNKIIPHLIR 248 Query: 232 EPLGC---------------NRSVHITETSAKEIFEVEKLKALADKG 263 + +R V++TE I E+ + + D+G Sbjct: 249 QEKEDSETFQGEGHFSVDEKSRQVNLTERGLVLIEELLVKEGIMDEG 295
>ABC2TRNSPORT#ABC-2 type transport system membrane protein signature. Length = 262 Score = 40.7 bits (95), Expect = 3e-06 Identities = 27/119 (22%), Positives = 49/119 (41%), Gaps = 16/119 (13%) Query: 131 RYVIAGSVVFTVGHFIGFRPAAGILAIIACIAFMTIFAWCLSWLFTYISLSMKTAAAASS 190 + +AG+ + V +G+ +L + IA + SL M A A S Sbjct: 124 KAALAGAGIGVVAAALGYTQWLSLLYALPVIALTG---------LAFASLGMVVTALAPS 174 Query: 191 TSILIMF------PLIFLSNAFVPVETMPSGLQFFVDKINPLTKAVAAIREMLIYGTIG 243 I + P++FLS A PV+ +P Q + PL+ ++ IR +++ + Sbjct: 175 YDYFIFYQTLVITPILFLSGAVFPVDQLPIVFQTAA-RFLPLSHSIDLIRPIMLGHPVV 232
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 27.1 bits (60), Expect = 0.020 Identities = 7/26 (26%), Positives = 16/26 (61%) Query: 68 RFLENNSNIVLIGNSGVGKTHLATSI 93 R ++ + +++ G SG GK +A ++ Sbjct: 155 RLMQTDLTLMITGESGTGKELVARAL 180
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 78.3 bits (193), Expect = 5e-19 Identities = 30/135 (22%), Positives = 60/135 (44%), Gaps = 1/135 (0%) Query: 5 IFIIEDDSLLLEALKEGLSQWSYEVSNPSDFSHIMEAFVEHHPHLVIIDIQLPKFDGFHW 64 I + +DD+ + L + LS+ Y+V S+ + + LV+ D+ +P + F Sbjct: 6 ILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFDL 65 Query: 65 CRAIRAV-SKVPIIFLSSRDHPMDMVMAMNLGADDYVQKPFNMDVLLAKVQAILRRTYTY 123 I+ +P++ +S+++ M + A GA DY+ KPF++ L+ + L Sbjct: 66 LPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKRR 125 Query: 124 EEVSSDVIEWNQALI 138 D + L+ Sbjct: 126 PSKLEDDSQDGMPLV 140
>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature. Length = 1541 Score = 31.6 bits (71), Expect = 0.002 Identities = 35/155 (22%), Positives = 61/155 (39%), Gaps = 4/155 (2%) Query: 5 KKLQEKFRKRLYKPEDANKSEIIKERDLQANEESSDPQDSVSLSDEKVTRLDAVPKRRID 64 K R LY PE +++ + ++ SV ++E++ R+D P Sbjct: 970 KLRNVNGRYDLYNPEVEKRNQTVDTTNITTPNNIQADVPSVPSNNEEIARVDEAPVPPPA 1029 Query: 65 DRQNYKKTDQKIKQKKKFSTEGRYKQKQHSIKRTLQNKR--KPSKLKKYENKASQKVDQR 122 + T+ + K+ S K +Q + + T QN+ K +K N + +V Q Sbjct: 1030 PATPSETTETVAENSKQESKTVE-KNEQDATETTAQNREVAKEAKSNVKANTQTNEVAQS 1088 Query: 123 TSNSKGTAGVMDKDKVKTQFGSEKRTLNKHKTQKA 157 S +K T K+ T EK + KTQ+ Sbjct: 1089 GSETKETQTTETKET-ATVEKEEKAKVETEKTQEV 1122
>RTXTOXINC#Gram-negative bacterial RTX toxin-activating protein C signature. Length = 170 Score = 31.0 bits (70), Expect = 0.001 Identities = 17/45 (37%), Positives = 21/45 (46%), Gaps = 5/45 (11%) Query: 40 HLVADNYRNVIDGGQYKICINEDCDVVYYS-----LDNEIKFLKD 79 L A N I QY + +D V Y S L+NEIK+L D Sbjct: 29 SLFAINVLPAIQANQYVLLTRDDYPVAYCSWANLSLENEIKYLND 73
>cloacin#Cloacin signature. Length = 551 Score = 30.1 bits (67), Expect = 0.036 Identities = 17/91 (18%), Positives = 36/91 (39%), Gaps = 7/91 (7%) Query: 45 DKSIKAITARNEVLNKEIDAQKSKVSTLEAALKNAAESFGENDKRTK-------AWQIQL 97 +++ + + E K + S+ S L+AA K A++ E + + Sbjct: 331 NQANEDVARNQERQAKAVQVYNSRKSELDAANKTLADAIAEIKQFNRFAHDPMAGGHRMW 390 Query: 98 NNANADLNKMEKELDDNNKALDAASDGFDDA 128 A + + ++++ A DAA+ DA Sbjct: 391 QMAGLKAQRAQTDVNNKQAAFDAAAKEKSDA 421
>PYOCINKILLER#Pyocin S killer protein signature. Length = 617 Score = 28.2 bits (62), Expect = 0.009 Identities = 22/73 (30%), Positives = 35/73 (47%), Gaps = 8/73 (10%) Query: 40 RDPASNKRYGRSWK-RIRDRYIKAHPLCEECDRNG-RIKAAEEVHHILPLSKGGG-NETS 96 DP +K++ +RD P E ++ G RIK E+HH + ++ GGG Sbjct: 545 NDPELSKQFNPGSLAVMRDGGA---PYVRESEQAGGRIKI--EIHHKVRVADGGGVYNMG 599 Query: 97 NLMALCKSCHSKI 109 NL+A+ H +I Sbjct: 600 NLVAVTPKRHIEI 612
>PF05272#Virulence-associated E family protein Length = 892 Score = 405 bits (1041), Expect = e-131 Identities = 109/346 (31%), Positives = 169/346 (48%), Gaps = 19/346 (5%) Query: 337 EAEVDFTDSGDDWKSRLRYQPRSSLLENSVYNLNLILNNDPDFKN-FAYNELSNRIQVTG 395 + E F + DD +RLR + R LL+ L L + P A++EL + Sbjct: 424 DGEDPFGEWLDDEVARLRLRGRW-LLKPRRAALIEALRSAPALAGCVAFDELREQPVAVR 482 Query: 396 PLPWERPEGNVFWRDADTAQLKSIMDIRYLPF--SSRNHDVAFTKVADDRRFHPIRDYLD 453 PW + G DAD +L ++ Y S++ + A AD R HP RD++ Sbjct: 483 AFPWRKAPGP--LEDADVLRLADYVETTYGTGEASAQTTEQAINVAADMNRVHPFRDWVK 540 Query: 454 SLPAWDGVKRVEDVFIKYLQADDT-------EYIRTVTRKTFAAAVARIYVPGIKFDCVP 506 + WD V R+E + L Y++ V + VAR+ PG KFD Sbjct: 541 AQQ-WDEVPRLEKWLVHVLGKTPDDYKPRRLRYLQLVGKYILMGHVARVMEPGCKFDYSV 599 Query: 507 VLDGDQGIGKSTIVKDLVTAEYYSETLSLTDMDDKSGAEKLQGFWVVEIGELAGMKKADI 566 VL+G GIGKST++ LV +++S+T K E++ G E+ E+ ++AD Sbjct: 600 VLEGTGGIGKSTLINTLVGLDFFSDTH-FDIGTGKDSYEQIAGIVAYELSEMTAFRRADA 658 Query: 567 EKVKAFLSTSDDKYRPSYGRVVESHPRQCIVIATVNGERGYLRDITGNRRFWIIKVHQKK 626 E VKAF S+ D+YR +YGR V+ HPRQ ++ T N +R YL DITGNRRFW + V + Sbjct: 659 EAVKAFFSSRKDRYRGAYGRYVQDHPRQVVIWCTTN-KRQYLFDITGNRRFWPVLVPGRA 717 Query: 627 QKKTWNFSEEYRQQFWAEAKEIWNSGEKLYLEGDILEEAEKAQKGA 672 +++R Q +AEA ++ +GE+ + + E + ++ Sbjct: 718 NLVWL---QKFRGQLFAEALHLYLAGERYFPSPEDEEIYFRPEQEL 760
>INTIMIN#Intimin signature. Length = 939 Score = 26.6 bits (58), Expect = 0.008 Identities = 15/39 (38%), Positives = 23/39 (58%), Gaps = 1/39 (2%) Query: 14 FYNMSDFLR-GQSSKLITGLSDEDRTAFVLKNGKPVAVL 51 F N ++ + G SKL+T S ++R + LK G+ VA L Sbjct: 38 FANGENYFKLGSDSKLLTHNSYQNRLFYTLKTGETVADL 76
>PF04647#Accessory gene regulator B Length = 212 Score = 86.4 bits (214), Expect = 3e-23 Identities = 35/161 (21%), Positives = 64/161 (39%), Gaps = 7/161 (4%) Query: 37 KMKYAMKVIWNEGVKFIVLLLFFVVLDQLPSFLFSLSILLSIRVFSGGLHFQSGLLCFMV 96 +++Y ++V + I++LL V+ F L R FSGG H + C + Sbjct: 24 EIRYGIEVFLGTVFQIIIILLVAFVIGLAKEVAFCLLSAAVYRRFSGGAHCEKYYRCTLT 83 Query: 97 SLGFF----SLAVLILPHFFPMTLHIAPILTLLSAIVIYYHSPKPSIFRPIFNKKRKRTL 152 SL F +A LI P +F + + I + S + + + P + I N ++++TL Sbjct: 84 SLLVFNVLAYIAHLIDPAYFQL---LILIAFITSLLALLFLVPVDNPRNLISNTEQRKTL 140 Query: 153 KYLSLFSTLLWFFLLFRFVLPNNQNFFECGIWTISLQAFQL 193 K + ++ F + + Q F L Sbjct: 141 KLKTSMVLMVLFGGSIGAYRLYTHQIALAILLGVLWQTFTL 181
>ALARACEMASE#Alanine racemase signature. Length = 356 Score = 349 bits (896), Expect = e-121 Identities = 111/375 (29%), Positives = 182/375 (48%), Gaps = 22/375 (5%) Query: 6 LTRPTWAEINLDHLKHNIREVKKVINKDTLLCAVVKANGYGHGVMTIAKTLLDHGADRLA 65 +TRP A ++L LK N+ V++ + +VVKAN YGHG+ I + D A Sbjct: 1 MTRPIQASLDLQALKQNLSIVRQAA-THARVWSVVKANAYGHGIERIWSAIGA--TDGFA 57 Query: 66 VATLSEAIELRQGGYQDIPILVL-GYTPETQGQVILDYNVIQTIYTYEQAKALAKIGKEQ 124 + L EAI LR+ G++ PIL+L G+ ++ + + +++ Q KAL Sbjct: 58 LLNLEEAITLRERGWKG-PILMLEGFFHAQDLEIYDQHRLTTCVHSNWQLKALQNA--RL 114 Query: 125 KKSMTIHLKIDTGMSRLGFNCSQKTIEEIKQIIELEYINVEGIYTHFAVADEKNKDYTKF 184 K + I+LK+++GM+RLGF + + +Q+ + + + +HFA A+ + D Sbjct: 115 KAPLDIYLKVNSGMNRLGFQPDR-VLTVWQQLRAMANVGEMTLMSHFAEAE--HPDGISG 171 Query: 185 QFNCFMELTEELKKEGYQIPIRHVSNSAAIIDLPDMNLDMVRAGIMLYGLYPSPDVNHEA 244 + E L+ R +SNSAA + P+ + D VR GI+LYG PS A Sbjct: 172 AMARIEQAAEGLECR------RSLSNSAATLWHPEAHFDWVRPGIILYGASPSGQWRDIA 225 Query: 245 -VQLKQVMELKTRVAHVKNVLPQQGVSYGLTYKTKGEEKIITLPIGYADGFTRMLTDKAE 303 L+ VM L + + V+ + + V YG Y + E++I + GYADG+ R Sbjct: 226 NTGLRPVMTLSSEIIGVQTLKAGERVGYGGRYTARDEQRIGIVAAGYADGYPRHAPTGTP 285 Query: 304 LILKGEKRPIVGRICMDQCMADATGI-EIEQGDVVTLFSNDPASGCSIDDIARKLNTINY 362 +++ G + VG + MD D T + G V L+ + IDD+A T+ Y Sbjct: 286 VLVDGVRTMTVGTVSMDMLAVDLTPCPQAGIGTPVELWGKEI----KIDDVAAAAGTVGY 341 Query: 363 EIVCMVGRRVPRAYL 377 E++C + RVP + Sbjct: 342 ELMCALALRVPVVTV 356
>ENTSNTHTASED#Enterobactin synthetase component D signature. Length = 234 Score = 28.1 bits (62), Expect = 0.007 Identities = 24/89 (26%), Positives = 39/89 (43%), Gaps = 9/89 (10%) Query: 3 KGIGIDIIEIERIARALEKNPRFKERLFTLEENRGFIEKGGHPASIAG--VFAAKEAVVK 60 + IGIDI +I A E P + + R ++ P +A F+AKE+V K Sbjct: 102 QRIGIDIEKIMSQHTATELAPSIID-----SDERQILQASLLPFPLALTLAFSAKESVYK 156 Query: 61 ALGTGISNMKWKDIEVLKDSAGKPYIKLH 89 A ++ + +V +A +I LH Sbjct: 157 AFSDRVTLPGFNSAKVTSLTAT--HISLH 183
>PF05272#Virulence-associated E family protein Length = 892 Score = 30.4 bits (68), Expect = 0.013 Identities = 10/27 (37%), Positives = 15/27 (55%) Query: 54 GPNGAGKTTMIKCICGLLFFEEGEISV 80 G G GK+T+I + GL FF + + Sbjct: 603 GTGGIGKSTLINTLVGLDFFSDTHFDI 629
>GPOSANCHOR#Gram-positive coccus surface protein anchor signature. Length = 539 Score = 40.4 bits (94), Expect = 4e-05 Identities = 47/337 (13%), Positives = 106/337 (31%), Gaps = 10/337 (2%) Query: 669 EIELIKVIKEREAYTNNKTKTEAEIEKHKEGINSNNTLLTKLNIEIQKDSESHETLINKI 728 L KV + + + + + + +L E+ E + Sbjct: 49 TDTLEKVQERADKFEIENNTLKLKNSDLSFNNKALKDHNDELTEELSNAKEKLRKNDKSL 108 Query: 729 QKLRKNSNEISSSIEKLKEGLKIENIVVEYNQMKGLDKERWKKEKELKDLREIVEIENHQ 788 + E+ + L++ L+ K K L+ + + Sbjct: 109 SEKASKIQELEARKADLEKALE---------GAMNFSTADSAKIKTLEAEKAALAARKAD 159 Query: 789 REALEEGLHSLNLEIAKNKQQLDGNKQHLNMSIEKI-KKLVEDNNPKTYRVTLENRMKEV 847 E EG + + + + L+ K L ++ K L N T ++ Sbjct: 160 LEKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMNFSTADSAKIKTLEAE 219 Query: 848 EETEKNLKVRVEKGSALQQKMVEEKAIAENNRVNLESEYSLKKQELEKMTQDQGFNSLEE 907 + K +EK + ++ ++ ELEK + S + Sbjct: 220 KAALAARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMNFSTAD 279 Query: 908 IEKYVIIEEELERLEKQIITYDDDVKNINHNIGRINKALEGNCLTQEMWEQIQALLTEKK 967 K +E E LE + + + +N N + + L+ + ++ E L E+ Sbjct: 280 SAKIKTLEAEKAALEAEKADLEHQSQVLNANRQSLRRDLDASREAKKQLEAEHQKLEEQN 339 Query: 968 QVQEKMSKEIGESQQIVKDVKVKLENIKELKKKEKKI 1004 ++ E + + ++ K +LE + +++ KI Sbjct: 340 KISEASRQSLRRDLDASREAKKQLEAEHQKLEEQNKI 376 Score = 37.7 bits (87), Expect = 3e-04 Identities = 49/299 (16%), Positives = 102/299 (34%), Gaps = 8/299 (2%) Query: 709 KLNIEIQKDSESHETLINKIQKLRKNSNEISSSIEKLKEGLKIENIVVEYNQMKGLDKER 768 K+ K + TL K L N+ + ++L E ++ N + + E+ Sbjct: 54 KVQERADKFEIENNTLKLKNSDLSFNNKALKDHNDELTE--ELSNAKEKLRKNDKSLSEK 111 Query: 769 WKKEKELKDLREIVEIENHQREALEEGLHSLNLEIAKNKQQLDGNKQHLNMSIEKIKKLV 828 K +EL+ + +E + + K L K L ++E Sbjct: 112 ASKIQELEARKADLEKALEGAMNFSTADSAKIKTLEAEKAALAARKADLEKALEGAMNFS 171 Query: 829 EDNNPKTYRVTLENRMKEVEETEKNLKVRVEKGSALQQKMVEEKAIAENNRVNLESEYSL 888 ++ K TLE +E + L+ +E + E + L + Sbjct: 172 TADSAK--IKTLEAEKAALEARQAELEKALEGAMNFSTADSAKIKTLEAEKAALAAR--- 226 Query: 889 KKQELEKMTQDQGFNSLEEIEKYVIIEEELERLEKQIITYDDDVKNINHNIGRINKALEG 948 K +LEK + S + K +E E LE + + ++ + + ++ Sbjct: 227 -KADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMNFSTADSAKIKT 285 Query: 949 NCLTQEMWEQIQALLTEKKQVQEKMSKEIGESQQIVKDVKVKLENIKELKKKEKKITHK 1007 + E +A L + QV + + ++ K +LE + +++ KI+ Sbjct: 286 LEAEKAALEAEKADLEHQSQVLNANRQSLRRDLDASREAKKQLEAEHQKLEEQNKISEA 344 Score = 37.0 bits (85), Expect = 5e-04 Identities = 43/297 (14%), Positives = 99/297 (33%), Gaps = 7/297 (2%) Query: 609 NELGKSETKLLELKEEKTKIDISLAQVDKEGDMKKTSLEEIEK-----LVGNQSLEDFRK 663 L + +K+ EL+ K ++ +L ++ +E LE + Sbjct: 106 KSLSEKASKIQELEARKADLEKALEGAMNFSTADSAKIKTLEAEKAALAARKADLEKALE 165 Query: 664 EVDGLEIELIKVIKEREAYTNNKTKTEAEIEKHKEGINSNNTLLTKLNIEIQKDSESHET 723 IK EA +AE+EK EG + +T + ++ + + Sbjct: 166 GAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMNFSTADSAKIKTLEAEKAALAA 225 Query: 724 LINKIQKLRKNSNEISSSIEKLKEGLKIENIVVEYNQMKGLDKERWKKEKELKDLREIVE 783 ++K + S+ + K + L+K ++ Sbjct: 226 RKADLEKALE-GAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMNFSTADSAKIK 284 Query: 784 IENHQREALEEGLHSLNLEIAKNKQQLDGNKQHLNMSIEKIKKLVEDNNP-KTYRVTLEN 842 ++ ALE L + ++ L+ S E K+L ++ + E Sbjct: 285 TLEAEKAALEAEKADLEHQSQVLNANRQSLRRDLDASREAKKQLEAEHQKLEEQNKISEA 344 Query: 843 RMKEVEETEKNLKVRVEKGSALQQKMVEEKAIAENNRVNLESEYSLKKQELEKMTQD 899 + + + ++ A QK+ E+ I+E +R +L + ++ +++ + Sbjct: 345 SRQSLRRDLDASREAKKQLEAEHQKLEEQNKISEASRQSLRRDLDASREAKKQVEKA 401 Score = 35.8 bits (82), Expect = 0.001 Identities = 43/277 (15%), Positives = 80/277 (28%), Gaps = 9/277 (3%) Query: 442 ENETMLVALSKVIEENKIKLKEKTQIKEGLEAGLSTFVEAQKHLEQSPLKEENIVFTNKM 501 EN T+ + S + NK ++ E L + K L + K + + Sbjct: 65 ENNTLKLKNSDLSFNNKALKDHNDELTEELSNAKEKLRKNDKSLSEKASKIQELEARKAD 124 Query: 502 ELEKRKQQLITLRDHTTQRSTLVKVLEALLRDKTQLENNKEAYITKIREAESGFETLKVE 561 + + + + + TL AL K LE E + + +TL+ E Sbjct: 125 LEKALEGAMNFSTADSAKIKTLEAEKAALAARKADLEKALEGAMNFSTADSAKIKTLEAE 184 Query: 562 VKKIEMESVAANLAQHLHQGDSCPVCGSKEHPHPAEGKAEALLIEKNNELGKSETKLLEL 621 +E A S EA E L Sbjct: 185 KAALEARQAELEKALEGAMNFS-------TADSAKIKTLEAEKAALAARKADLEKALEGA 237 Query: 622 KEEKTKIDISLAQVDKEGDMKKTSLEEIEKLV--GNQSLEDFRKEVDGLEIELIKVIKER 679 T + ++ E + E+EK + ++ LE E + E+ Sbjct: 238 MNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMNFSTADSAKIKTLEAEKAALEAEK 297 Query: 680 EAYTNNKTKTEAEIEKHKEGINSNNTLLTKLNIEIQK 716 + A + + ++++ +L E QK Sbjct: 298 ADLEHQSQVLNANRQSLRRDLDASREAKKQLEAEHQK 334 Score = 35.4 bits (81), Expect = 0.001 Identities = 60/357 (16%), Positives = 126/357 (35%), Gaps = 26/357 (7%) Query: 296 KTIEEKINENKINLEKLETDLPRVNEKLKEVQENHQKSLVYKEEQFPSLIAKVESCKQAE 355 +E E EKL + ++EK ++QE + ++ ++ + + Sbjct: 85 DHNDELTEELSNAKEKLRKNDKSLSEKASKIQELEARKADLEKALEGAMNFSTADSAKIK 144 Query: 356 EMEEQNQLLIKEIKALEELYAYHYKESQEKAKGLEKLKVKRIEGKEKITEIEKYLEAIYI 415 +E + L LE+ S + ++ L+ ++ + + E+EK LE Sbjct: 145 TLEAEKAALAARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMN 204 Query: 416 ESHIREGLEQGYSLEKDMERVLLEKKENETMLVALSKVIEENKIKLKEKTQIKEGLEAGL 475 S + LE + + K + E L + K+K K LEA Sbjct: 205 FSTADSAKIKT--LEAEKAALAARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEA-- 260 Query: 476 STFVEAQKHLEQSPLKEENIVFTNKMELEKRKQQLITLRDHTTQRSTLVKVLEALLRDKT 535 Q+ L++ N + K + +++ L L Sbjct: 261 ----------RQAELEKALEGAMNFSTADSAKIK-----TLEAEKAALEAEKADLEHQSQ 305 Query: 536 QLENNKEAYITKIREAESGFETLKVEVKKIEMESVAANLAQHLHQGDSCPVCGSKEHPHP 595 L N+++ + + + L+ E +K+E ++ + ++ Q + S+E Sbjct: 306 VLNANRQSLRRDLDASREAKKQLEAEHQKLEEQNKISEASR---QSLRRDLDASRE---- 358 Query: 596 AEGKAEALLIEKNNELGKSETKLLELKEEKTKIDISLAQVDKEGDMKKTSLEEIEKL 652 A+ + EA + + SE L+ + + QV+K + + L +EKL Sbjct: 359 AKKQLEAEHQKLEEQNKISEASRQSLRRDLDASREAKKQVEKALEEANSKLAALEKL 415
>PF06580#Sensor histidine kinase Length = 349 Score = 34.1 bits (78), Expect = 8e-04 Identities = 21/144 (14%), Positives = 53/144 (36%), Gaps = 9/144 (6%) Query: 5 FKSIFFLFVLTQTITNRQVTYLDVVGILVMVILNIVREKYINSKWLLVVEFGIILMFVQL 64 F S++ L I N ++ + G+++ ++ K + G I++ V Sbjct: 30 FASLYGSPKLHSMIFNIAISLM---GLVLTHAYRSFIKRQGWLKLNM----GQIILRVLP 82 Query: 65 NPYFIIFYGMLTHDLIFKEIYWGLLPSVALGVYFLTGNDLYNYILIIFLCS-FFAYISKE 123 I + + I++ + + VA + ++N +++ F+ S + Sbjct: 83 ACVVIGMVWFVANTSIWRLLAFINTKPVAFTLPLALSI-IFNVVVVTFMWSLLYFGWHFF 141 Query: 124 LTYKERNLRKAYDSERKFTYELEA 147 YK+ + + + +L A Sbjct: 142 KNYKQAEIDQWKMASMAQEAQLMA 165
>ABC2TRNSPORT#ABC-2 type transport system membrane protein signature. Length = 262 Score = 56.1 bits (135), Expect = 4e-11 Identities = 20/108 (18%), Positives = 54/108 (50%) Query: 252 GPSVINLFVILLVFSIVCIALGLAISSMVKDVHQLGVLSTFIVTPMVMLGGSFWPREIMP 311 S++ ++ + + +LG+ ++++ T ++TP++ L G+ +P + +P Sbjct: 144 WLSLLYALPVIALTGLAFASLGMVVTALAPSYDYFIFYQTLVITPILFLSGAVFPVDQLP 203 Query: 312 EALQRVSTFVPTTWALEGATKVLYGDPLSSMTQEIFILMLFAVVFFLL 359 Q + F+P + +++ ++ G P+ + Q + L ++ V+ F L Sbjct: 204 IVFQTAARFLPLSHSIDLIRPIMLGHPVVDVCQHVGALCIYIVIPFFL 251
>ABC2TRNSPORT#ABC-2 type transport system membrane protein signature. Length = 262 Score = 38.8 bits (90), Expect = 2e-05 Identities = 36/195 (18%), Positives = 75/195 (38%), Gaps = 3/195 (1%) Query: 200 YYAVTMLVMILMYGAEYGS--GAIAEIKFQSKGSRLIAAPIRRYEIYIGSTLGVALTLFI 257 + A M+ M A + + A ++ Q ++ +R +I +G A + Sbjct: 68 FLAAGMVATSAMTAATFETIYAAFGRMEGQRTWEAMLYTQLRLGDIVLGEMAWAATKAAL 127 Query: 258 QSVVLILFTKYVYHVNWGDNLYIILFTCLTLSIFATGLGIVGCLLSGSSKVASSVTNILV 317 + + + + W LY + LT FA+ LG+V L+ S +++ Sbjct: 128 AGAGIGVVAAALGYTQWLSLLYALPVIALTGLAFAS-LGMVVTALAPSYDYFIFYQTLVI 186 Query: 318 VIFTFVAGGYMPLDQQGGLLGIMRGLSPNHYAQRAIFNTIYSGNMEQVKSSIGIMWLMIL 377 F++G P+DQ + P ++ I + + V +G + + I+ Sbjct: 187 TPILFLSGAVFPVDQLPIVFQTAARFLPLSHSIDLIRPIMLGHPVVDVCQHVGALCIYIV 246 Query: 378 AVFTISIVKGRRKVI 392 F +S RR+++ Sbjct: 247 IPFFLSTALLRRRLL 261
>SACTRNSFRASE#Streptothricin acetyltransferase signature. Length = 173 Score = 47.2 bits (112), Expect = 8e-10 Identities = 17/98 (17%), Positives = 40/98 (40%), Gaps = 14/98 (14%) Query: 6 HVFRDNNHCIAYVAINEKQSPEYSQIVWSTDGRKVLVIHRLSVHPEFQGKGIARKFIDFI 65 ++ N+CI + I W+ +I ++V +++ KG+ + Sbjct: 68 FLYYLENNCIGRIKIRSN---------WN----GYALIEDIAVAKDYRKKGVGTALLHKA 114 Query: 66 EDFAIKNQYSCIRLDAYSENTAALRLYDRMGYQRLGQV 103 ++A +N + + L+ N +A Y + + +G V Sbjct: 115 IEWAKENHFCGLMLETQDINISACHFYAKHHF-IIGAV 151
>adhesinb#Adhesin B signature. Length = 310 Score = 29.4 bits (66), Expect = 0.018 Identities = 13/67 (19%), Positives = 29/67 (43%), Gaps = 14/67 (20%) Query: 229 PEDLAEMINLVKEYGIDMVNVSSGAVVPAKIKPYPGYQIPFSETIKKQTNLPTIAGGLIT 288 P+ + ++ +++ + + V S V + +T+ K TN+P I Sbjct: 234 PDQIKTLVEKLRKTKVPSLFVESS--VDDR----------PMKTVSKDTNIPI--YAKIF 279 Query: 289 TATMAEE 295 T ++AE+ Sbjct: 280 TDSVAEK 286
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 422 bits (1087), Expect = e-147 Identities = 130/370 (35%), Positives = 203/370 (54%), Gaps = 34/370 (9%) Query: 126 DAVKSMEEELAFYKEELKKVMGNSHTFDSIIGSSEEIKWAKKLASKVANTKSNVLLLGES 185 + + + LA K K+ +S ++G S ++ ++ +++ T +++ GES Sbjct: 110 ELIGIIGRALAEPKRRPSKLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTDLTLMITGES 169 Query: 186 GTGKELFAQAIHNHSPRADFPLIKINCAAIPDELLESELFGYEEGAFTGAKKGGKPGKFE 245 GTGKEL A+A+H++ R + P + IN AAIP +L+ESELFG+E+GAFTGA+ G+FE Sbjct: 170 GTGKELVARALHDYGKRRNGPFVAINMAAIPRDLIESELFGHEKGAFTGAQTRST-GRFE 228 Query: 246 LANKSSIFLDEIGDMPVSMQAKLLRVIQEKEIERVGGIKTYPIDVRIIAATNQDLEEMVK 305 A ++FLDEIGDMP+ Q +LLRV+Q+ E VGG DVRI+AATN+DL++ + Sbjct: 229 QAEGGTLFLDEIGDMPMDAQTRLLRVLQQGEYTTVGGRTPIRSDVRIVAATNKDLKQSIN 288 Query: 306 NKEFREDLYYRLNVINIKIPPLRDRKGDVTVIADYLLKKLSSEMGTSVTEISLAALEALQ 365 FREDLYYRLNV+ +++PPLRDR D+ + + +++ E G V ALE ++ Sbjct: 289 QGLFREDLYYRLNVVPLRLPPLRDRAEDIPDLVRHFVQQAEKE-GLDVKRFDQEALELMK 347 Query: 366 AYHWPGNIRELENVIERALNLMDMEGVIMAYHLPYFVRKSIKENKTNNH----------- 414 A+ WPGN+RELEN++ R L + VI + +R I ++ Sbjct: 348 AHPWPGNVRELENLVRRLTALYP-QDVITREIIENELRSEIPDSPIEKAAARSGSLSISQ 406 Query: 415 --------------------ESLRVITEAVEKKVIEECLVKTRGNKFQTAKLLDISRTSL 454 + +E +I L TRGN+ + A LL ++R +L Sbjct: 407 AVEENMRQYFASFGDALPPSGLYDRVLAEMEYPLILAALTATRGNQIKAADLLGLNRNTL 466 Query: 455 YEKIKKYGLE 464 +KI++ G+ Sbjct: 467 RKKIRELGVS 476
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 36.7 bits (85), Expect = 1e-05 Identities = 14/47 (29%), Positives = 26/47 (55%), Gaps = 1/47 (2%) Query: 56 VAGATK-VESPMPGNIWKIQVKEGQEVKNGQVLIILEAMKMENEIVA 101 +G +K ++ + +I VKEG+ V+ G VL+ L A+ E + + Sbjct: 92 HSGRSKEIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLK 138 Score = 27.5 bits (61), Expect = 0.016 Identities = 13/30 (43%), Positives = 15/30 (50%) Query: 98 EIVAPCDGTVAAIHVSEGASVNGGDALVSL 127 EI + V I V EG SV GD L+ L Sbjct: 98 EIKPIENSIVKEIIVKEGESVRKGDVLLKL 127 Score = 26.7 bits (59), Expect = 0.028 Identities = 12/57 (21%), Positives = 20/57 (35%), Gaps = 8/57 (14%) Query: 72 KIQVKEGQEVKNGQVLIILEAMKMENEIVAPCDGTVAAIHV-SEGASVNGGDALVSL 127 I + + KN + I AP V + V +EG V + L+ + Sbjct: 310 NIGLLTLELAKNEERQQASV-------IRAPVSVKVQQLKVHTEGGVVTTAETLMVI 359
>SECA#SecA protein signature. Length = 901 Score = 29.1 bits (65), Expect = 0.027 Identities = 10/34 (29%), Positives = 14/34 (41%) Query: 271 NRVLRDQESREEIKDLAASVVNRSIDPYRASQRL 304 N +L + E I + V +ID Y Q L Sbjct: 664 NELLDVSDVSETINSIREDVFKATIDAYIPPQSL 697
>YERSSTKINASE#Yersinia serine/threonine protein kinase signature. Length = 732 Score = 36.3 bits (83), Expect = 1e-04 Identities = 24/83 (28%), Positives = 36/83 (43%) Query: 129 FGEKGYILGDLKPENIMIDENKKEIRFIDLGGVVNIGGGIKEFTPLYDQASWGIGERKAT 188 + G + D+KP N++ D E IDLG G K FT + G+G A+ Sbjct: 261 LAKAGVVHNDIKPGNVVFDRASGEPVVIDLGLHSRSGEQPKGFTESFKAPELGVGNLGAS 320 Query: 189 EAYLCFSLTMILVQLLIGQKLNP 211 E F + L+ + G + NP Sbjct: 321 EKSDVFLVVSTLLHCIEGFEKNP 343
>SUBTILISIN#Subtilisin serine protease family (S8) signature. Length = 326 Score = 32.1 bits (73), Expect = 0.003 Identities = 12/51 (23%), Positives = 24/51 (47%), Gaps = 1/51 (1%) Query: 4 RFLAKRYWNTMTTPMGAVVDLAKQYSDVINLSLGDPDYV-TNQEVIQRAFE 53 + L K+ + + +Q D+I++SLG P+ V E +++A Sbjct: 116 KVLNKQGSGQYDWIIQGIYYAIEQKVDIISMSLGGPEDVPELHEAVKKAVA 166
>UREASE#Urea amidohydrolase (urease) protein signature. Length = 570 Score = 55.9 bits (135), Expect = 2e-10 Identities = 34/131 (25%), Positives = 57/131 (43%), Gaps = 28/131 (21%) Query: 20 LVLKNAQILNVFSHEIISGDIAIDQGKIVGI---GNYNGLENIDL-----------EGKV 65 V+ NA IL+ + I+ DI + G+I I GN + + + EGK+ Sbjct: 70 TVITNALILDHWG--IVKADIGLKDGRIAAIGKAGNPDMQPGVTIIVGPGTEVIAGEGKI 127 Query: 66 VVPGLIDGHVHMESAMVTPGQFARAIVPRGTTTIVAD---PHEIANVCGI-PG---IEYM 118 V G +D H+H + P Q A++ G T ++ P PG I M Sbjct: 128 VTAGGMDSHIH----FICPQQIEEALM-SGLTCMLGGGTGPAHGTLATTCTPGPWHIARM 182 Query: 119 LKASEGMPLNV 129 ++A++ P+N+ Sbjct: 183 IEAADAFPMNL 193
>UREASE#Urea amidohydrolase (urease) protein signature. Length = 570 Score = 33.6 bits (77), Expect = 0.002 Identities = 18/67 (26%), Positives = 28/67 (41%), Gaps = 11/67 (16%) Query: 10 TIVTMNDKREIFQGDVLIDGNRIEAIA-----------SHIDAEADEIIEAEGRVVIPGF 58 T + D I + D+ + RI AI + I E+I EG++V G Sbjct: 73 TNALILDHWGIVKADIGLKDGRIAAIGKAGNPDMQPGVTIIVGPGTEVIAGEGKIVTAGG 132 Query: 59 IQTHIHL 65 + +HIH Sbjct: 133 MDSHIHF 139 Score = 30.9 bits (70), Expect = 0.012 Identities = 14/27 (51%), Positives = 19/27 (70%) Query: 347 TLGGAEAMGMQDELGSLEPGKKADLAI 373 T+ A A G+ E+GSLE GK+ADL + Sbjct: 410 TINPAIAHGLSHEIGSLEVGKRADLVL 436
>UREASE#Urea amidohydrolase (urease) protein signature. Length = 570 Score = 49.7 bits (119), Expect = 2e-08 Identities = 33/113 (29%), Positives = 48/113 (42%), Gaps = 21/113 (18%) Query: 44 MYQADIAIKDKYILMVGDAGK---------LIGPDTLVVDVRGKFLSPGFMDSHMHFESS 94 + +ADI +KD I +G AG ++GP T V+ GK ++ G MDSH+HF Sbjct: 83 IVKADIGLKDGRIAAIGKAGNPDMQPGVTIIVGPGTEVIAGEGKIVTAGGMDSHIHFICP 142 Query: 95 MLTITEFSRLSIPSGTTTLVAD---PHEIGNAL----GPIGMKAMAEEASVVP 140 ++ SG T ++ P A GP + M E A P Sbjct: 143 QQIEE-----ALMSGLTCMLGGGTGPAHGTLATTCTPGPWHIARMIEAADAFP 190
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 25.6 bits (56), Expect = 0.034 Identities = 9/53 (16%), Positives = 21/53 (39%) Query: 38 GEPLVAVDTIGAGIGEIVLYARGTAARYAANRLQSPIDASIVGIIDHIDIPGD 90 G+ L+ + +GA + + AR R Q + + + + +P + Sbjct: 121 GDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELKLPDE 173
>PF05704#Capsular polysaccharide synthesis protein Length = 307 Score = 27.9 bits (62), Expect = 0.042 Identities = 9/58 (15%), Positives = 20/58 (34%), Gaps = 13/58 (22%) Query: 122 IQDEFIPRLLWQCLWKGK---PLLVNLEQLLCYRGMAPQQP-----FL-EEMMKEYIE 170 IQ+ + ++ C +G P +V C + + KE+++ Sbjct: 62 IQEPMRQKYIFICWLQGIEKAPYIVQ----QCVASVKKNSGDFKVIIIDGNNYKEWVD 115
>ISCHRISMTASE#Isochorismatase signature. Length = 312 Score = 63.5 bits (154), Expect = 3e-14 Identities = 40/168 (23%), Positives = 74/168 (44%), Gaps = 18/168 (10%) Query: 5 AILVIDMLNDFVGEKAPLRCPGGETIIPDLQKIFEWVRGREGDDIHLVHIQEAHRKNDAD 64 +L+ DM N FV + + +++K+ I +V+ + +N D Sbjct: 32 VLLIHDMQNYFV-DAFTAGASPVTELSANIRKLKNQCVQ---LGIPVVYTAQPGSQNPDD 87 Query: 65 FRVRPLHAVKGTWG---------SDFIPELYPQEDEYIVQKRRHSGFAHTDLDLYLKEEG 115 R L + WG I EL P++D+ ++ K R+S F T+L +++EG Sbjct: 88 ---RAL--LTDFWGPGLNSGPYEEKIITELAPEDDDLVLTKWRYSAFKRTNLLEMMRKEG 142 Query: 116 IDTVVLTGVWTNVCVRSTATDALANAYKVITLSDGTASKTEEMHEYGL 163 D +++TG++ ++ TA +A K + D A + E H+ L Sbjct: 143 RDQLIITGIYAHIGCLVTACEAFMEDIKAFFVGDAVADFSLEKHQMAL 190
>UREASE#Urea amidohydrolase (urease) protein signature. Length = 570 Score = 29.3 bits (66), Expect = 0.035 Identities = 22/75 (29%), Positives = 32/75 (42%), Gaps = 12/75 (16%) Query: 4 DVIVKNARIPQGDDTIVTNILVKDEKIAGF-----------LTDIEGVEFDKTIDAEGHL 52 D ++ NA I + +I +KD +IA +T I G + I EG + Sbjct: 69 DTVITNALILDHWGIVKADIGLKDGRIAAIGKAGNPDMQPGVTIIVGPGTE-VIAGEGKI 127 Query: 53 TIPGCFDSHTHFMDP 67 G DSH HF+ P Sbjct: 128 VTAGGMDSHIHFICP 142
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 395 bits (1017), Expect = e-134 Identities = 128/346 (36%), Positives = 185/346 (53%), Gaps = 37/346 (10%) Query: 275 KFDDIIGESQLFNEVKIQGEKAAQSSSTVLIQGESGTGKELFARAIHFHSQRCKKPFIPI 334 ++G S E+ + Q+ T++I GESGTGKEL ARA+H + +R PF+ I Sbjct: 135 DGMPLVGRSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVARALHDYGKRRNGPFVAI 194 Query: 335 NCAAIPEQLLESELFGYEEGAFTGAKRGGKSGKFELANGGTIFLDEIGDMPLHLQTKLLR 394 N AAIP L+ESELFG+E+GAFTGA+ G+FE A GGT+FLDEIGDMP+ QT+LLR Sbjct: 195 NMAAIPRDLIESELFGHEKGAFTGAQTRST-GRFEQAEGGTLFLDEIGDMPMDAQTRLLR 253 Query: 395 VLQEQVIEKVGGKDFIPIDARIIAATNKDLENRVLEGEFRQDLFYRINVIPLHIPPLRQR 454 VLQ+ VGG+ I D RI+AATNKDL+ + +G FR+DL+YR+NV+PL +PPLR R Sbjct: 254 VLQQGEYTTVGGRTPIRSDVRIVAATNKDLKQSINQGLFREDLYYRLNVVPLRLPPLRDR 313 Query: 455 GEDLMILVSYLLNKCNEKLGKYIQEVHPGVFDVFMSYQWPGNVRELENTIEYAVNMCSGS 514 ED+ LV + + + K G ++ ++ ++ WPGNVRELEN + + Sbjct: 314 AEDIPDLVRHFVQQAE-KEGLDVKRFDQEALELMKAHPWPGNVRELENLVRRLTALYPQD 372 Query: 515 IIMERDLPKRLSRRQTESKDESFRGIT--------------------------------S 542 +I + L +S E + Sbjct: 373 VITREIIENELRSEIPDSPIEKAAARSGSLSISQAVEENMRQYFASFGDALPPSGLYDRV 432 Query: 543 IQELERKEMIKAIAYFGNTKQAITMAATALGIGRATLYRKLKIYGI 588 + E+E ++ A+ + AA LG+ R TL +K++ G+ Sbjct: 433 LAEMEYPLILAALTATRGNQIK---AADLLGLNRNTLRKKIRELGV 475
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 68.9 bits (168), Expect = 1e-16 Identities = 31/194 (15%), Positives = 84/194 (43%), Gaps = 5/194 (2%) Query: 11 DEKRERIIGVAIEEFSKNSFDNASISKVAERANIAKGSLYQYFEDKKDLYKFMIDIATQK 70 E R+ I+ VA+ FS+ + S+ ++A+ A + +G++Y +F+DK DL+ + +++ Sbjct: 10 QETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWELSESN 69 Query: 71 KMHYLKDCLEEM--DELRFFELIKKLYVRGILFAKENPQLVGIANHFLKENDVKFKEEIL 128 + + D L I + + + L+ I H + + Sbjct: 70 IGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFVGEMAVVQQA 129 Query: 129 GMGLEKSN-QFLEQLIEERKQRGEINPEIDTKFGAHMI-STLNTSIVDYLLNDIRYEEMI 186 L + +EQ ++ + + ++ T+ A ++ ++ + ++L + ++ Sbjct: 130 QRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYISGLMENWLFAPQSF-DLK 188 Query: 187 QDERRLLEMVDKML 200 ++ R + ++ +M Sbjct: 189 KEARDYVAILLEMY 202
>FbpA_PF05833#Fibronectin-binding protein Length = 577 Score = 27.9 bits (62), Expect = 0.045 Identities = 11/49 (22%), Positives = 18/49 (36%), Gaps = 1/49 (2%) Query: 6 LDQLDTLITEVLEEEMNAIDITDEEIEQQWLKLQEKSKKKKIPIKTNYK 54 L + T I + +I E IE ++K ++ K KK Sbjct: 414 LYSVLTNI-NNADNYDEIEEIKKELIETGYIKFKKIYKSKKSKTSKPMH 461
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 79.5 bits (196), Expect = 8e-19 Identities = 22/124 (17%), Positives = 58/124 (46%), Gaps = 1/124 (0%) Query: 1 MKKNKVMIVDDSSFLRNIISDILQQSGFEIVGQAGSKEEALEVYDKTNPDIVTMDIAMPG 60 M +++ DD + +R +++ L ++G+++ + + D+V D+ MP Sbjct: 1 MTGATILVADDDAAIRTVLNQALSRAGYDVRI-TSNAATLWRWIAAGDGDLVVTDVVMPD 59 Query: 61 ADGFECVKALFEKNQDLKIIMISSMQDEELLTKAEKMKISGFIQKPFEEEDLISVVKGIM 120 + F+ + + + DL ++++S+ KA + ++ KPF+ +LI ++ + Sbjct: 60 ENAFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRAL 119 Query: 121 EAEE 124 + Sbjct: 120 AEPK 123
>NUCEPIMERASE#Nucleotide sugar epimerase signature. Length = 334 Score = 93.3 bits (232), Expect = 7e-23 Identities = 55/300 (18%), Positives = 116/300 (38%), Gaps = 49/300 (16%) Query: 288 VLITGGGGSIGSELCRQIATFNPKKLLILDNYENNAYDIQNELRRKYPEL----NLEVLI 343 L+TG G IG + +++ +++ +DN N+ YD+ L++ EL + Sbjct: 3 YLVTGAAGFIGFHVSKRLLE-AGHQVVGIDNL-NDYYDVS--LKQARLELLAQPGFQFHK 58 Query: 344 ASVRERDRIEEIFGQYLPEVIFHAAAHKHVPLMEANPQEAIKNNIFGTKNVAECADQFGA 403 + +R+ + ++F E +F + V NP +N+ G N+ E Sbjct: 59 IDLADREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFLNILEGCRHNKI 118 Query: 404 KRFVLIST---------------DKAVNPTNIMGATKRVAEMLIQSIDLTSKTEFVAVRF 448 + + S+ D +P ++ ATK+ E++ + +RF Sbjct: 119 QHLLYASSSSVYGLNRKMPFSTDDSVDHPVSLYAATKKANELMAHTYSHLYGLPATGLRF 178 Query: 449 GNVLGSNGS---VIPLFKRQIAEGGPVTV-THPEVTRYFMTIPEAVQLVIQA-------- 496 V G G + F + + EG + V + ++ R F I + + +I+ Sbjct: 179 FTVYGPWGRPDMALFKFTKAMLEGKSIDVYNYGKMKRDFTYIDDIAEAIIRLQDVIPHAD 238 Query: 497 ----------GSMASGGEIFVLDMGEPVKIIDLARNLIRLSGMEPDVDMDIKVVGLRPGE 546 + + ++ + PV+++D + L G+E +M + L+PG+ Sbjct: 239 TQWTVETGTPAASIAPYRVYNIGNSSPVELMDYIQALEDALGIEAKKNM----LPLQPGD 294
>TONBPROTEIN#Gram-negative bacterial tonB protein signature. Length = 239 Score = 30.3 bits (68), Expect = 0.007 Identities = 16/66 (24%), Positives = 27/66 (40%), Gaps = 1/66 (1%) Query: 91 ESEEEGEPSEETSQNTEKLEEQEQIQEQESEKPIVEATPKQEEKPKTQEIIEDKDAKEEV 150 E + +P E E E +E+ I + PK + KPK + ++ + K +V Sbjct: 56 EPPQAVQPPPEPVVEPEPEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKVQ-EQPKRDV 114 Query: 151 APTASS 156 P S Sbjct: 115 KPVESR 120
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 59.6 bits (144), Expect = 2e-13 Identities = 21/70 (30%), Positives = 34/70 (48%), Gaps = 3/70 (4%) Query: 1 MARITEPEKMEN---IKKAVMGAIIEHGYTGMSIASISERAGVSPGYLYRHYSSKEELVQ 57 MAR T+ E E I + + G + S+ I++ AGV+ G +Y H+ K +L Sbjct: 1 MARKTKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFS 60 Query: 58 ELVDSQMSKI 67 E+ + S I Sbjct: 61 EIWELSESNI 70
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 56.0 bits (135), Expect = 1e-10 Identities = 41/274 (14%), Positives = 92/274 (33%), Gaps = 53/274 (19%) Query: 73 LVNEGDVVKEGQPIATMEQGDYLIRVKASQAELEAARLQIETE-IPAKTNQAKAQYELTK 131 V+E +V++ I + + Q EL + + E + A+ N+ + + K Sbjct: 178 NVSEEEVLRLTSLIKEQFS---TWQNQKYQKELNLDKKRAERLTVLARINRYENLSRVEK 234 Query: 132 IKYDRVKALFEQGAVSQSQLDEISTKLIVDENTYNQAVDAKEVAETKLQMAEASLDL--- 188 + D +L + A+++ + E K + E V ++ + + ++ A + Sbjct: 235 SRLDDFSSLLHKQAIAKHAVLEQENKYV--EAVNELRVYKSQLEQIESEILSAKEEYQLV 292 Query: 189 ----------------------------ANANISDTTIYSPIDGVILQKIVAS--GETTS 218 + I +P+ + Q V + G T+ Sbjct: 293 TQLFKNEILDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTT 352 Query: 219 GGHPIVVIGEVNKVWAEIGVSDEYINALRIGQKSDV----YIYGIDKTVEGIIDEIA--F 272 +V++ E + + V ++ I + +GQ + + + Y + G + I Sbjct: 353 AETLMVIVPEDDTLEVTALVQNKDIGFINVGQNAIIKVEAFPYTRYGYLVGKVKNINLDA 412 Query: 273 LADTKT-------RTFPVKILL-NNPNGELKPGM 298 + D + + L N N L GM Sbjct: 413 IEDQRLGLVFNVIISIEENCLSTGNKNIPLSSGM 446
>ACRIFLAVINRP#Acriflavin resistance protein family signature. Length = 1034 Score = 509 bits (1313), Expect = e-166 Identities = 207/1051 (19%), Positives = 452/1051 (43%), Gaps = 52/1051 (4%) Query: 1 MIKWSVNHKSIIMLFVVLTLIVGGFLYGAMERQENPTVAAPVAVIKIIYPGATPEDIEKL 60 M + + + ++ ++ G + + PT+A P + YPGA + ++ Sbjct: 1 MANFFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDT 60 Query: 61 IIKPVEDEMNRISDIKTIESFALDSIGIVKVTLKDLSDGKIDEAWNEVKSGLDTVKPLLP 120 + + +E MN I ++ + S + DS G V +TL S D A +V++ L PLLP Sbjct: 61 VTQVIEQNMNGIDNLMYMSSTS-DSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLP 119 Query: 121 PDAHEPTMETD-LASSYGIIIGLTSQDYTYQN--LSEVANK-LRDELITDPGVKAIDIDG 176 + + + + +SSY ++ G S + +S+ ++D L GV + + G Sbjct: 120 QEVQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFG 179 Query: 177 EINDQIHINLDMIKLEQYTVSPTDIATAIKARNINIPGGNLVMDQVK------IPVQVSG 230 + I LD L +Y ++P D+ +K +N I G L + Sbjct: 180 A-QYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQT 238 Query: 231 EYKDIEEIKNTIVAVSTETGAPIYLKNVADVVRIQEKKEIFASVNNEKALLIGVEYMDGQ 290 +K+ EE + V+++ G+ + LK+VA V E + A +N + A +G++ G Sbjct: 239 RFKNPEEFGKVTLRVNSD-GSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGA 297 Query: 291 NIVAIGERLNTILDEFSMNQLYENMELITLTDQANFTKDAINLFEKNLLSAILLVVMVVV 350 N + + + L E + M+++ D F + +I+ K L AI+LV +V+ Sbjct: 298 NALDTAKAIKAKLAELQ-PFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVMY 356 Query: 351 VTMG-LRSAIVVSLPIPIVIVMVFIFMYLSGIPLHQVSIASLIISLSLLVANGIVVNDNI 409 + + +R+ ++ ++ +P+V++ F + G ++ +++ +++++ LLV + IVV +N+ Sbjct: 357 LFLQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENV 416 Query: 410 -NVYLEKGHDRLTACTKGIQEVKIPILTSTLTTVASFIPLAMMQGVSGKFVKSLPVLVSV 468 V +E A K + +++ ++ + A FIP+A G +G + + + Sbjct: 417 ERVMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVS 476 Query: 469 ALIGSYITALTVIPALGYKLLKVKEKDTEGKGIKTKIAKVLKVDGFSAYILNLYGRLLKG 528 A+ S + AL + PAL LLK + + K + + +N Y + Sbjct: 477 AMALSVLVALILTPALCATLLKPVSAEHH----ENKGGFFGWFNTTFDHSVNHYTNSVGK 532 Query: 529 ALKIPVLVILFFVGTLIASLWVIPSLGVQLFPPVERDQYVIDVTTQDGSDVEKTEKAAIM 588 L +L + + + + L P ++ ++ + G+ E+T+K Sbjct: 533 ILGSTGRYLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQ 592 Query: 589 IGDLLKEDVTINDFAYKVGDGMLQYYVTFIPNDPASNKVQFLI------NGDRDEVSRIE 642 + D ++ N + +G +F + + NGD + + Sbjct: 593 VTDYYLKNEKANVESVFTVNGF-----SFSGQAQNAGMAFVSLKPWEERNGDENSAEAVI 647 Query: 643 KELSTKVPGVSIN---------IRQLENAAPVTYPVQVRVSGQEISELRRIAEEIKDITH 693 ++ + I +L A + + + +G L + ++ + Sbjct: 648 HRAKMELGKIRDGFVIPFNMPAIVELGTATGFDFELIDQ-AGLGHDALTQARNQLLGMAA 706 Query: 694 DVPG-IKSIEDNYGYDSYKLNIRVNEEKANLVGVTNYDIASTVRMAVNGLTVSELKEEDI 752 P + S+ N D+ + + V++EKA +GV+ DI T+ A+ G V++ + Sbjct: 707 QHPASLVSVRPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGR 766 Query: 753 EKDAIPIILKIPDEKKQDRDVLNNIFITSQITDKNIPINQIAEIETETSLNKIVRRNGGR 812 K + ++ + + + ++ +++ S + +P + ++ R NG Sbjct: 767 VKK---LYVQADAKFRMLPEDVDKLYVRSA-NGEMVPFSAFTTSHWVYGSPRLERYNGLP 822 Query: 813 TITVGIFVESRYNSNEISKSVEELLKDYKLPDGYTIEFGGESEERSDAFDSMKVPAILAI 872 ++ + +S + +E L KLP G ++ G S + + + ++ Sbjct: 823 SMEIQGEAAPGTSSGDAMALMENLAS--KLPAGIGYDWTGMSYQERLSGNQAPALVAISF 880 Query: 873 VIIYLILVIQFGNLKEPLIIMGTIPLSFIGIIWGLKWMGYPIGFMALLGAISLMGVVVNN 932 V+++L L + + P+ +M +PL +G++ ++G ++ +G+ N Sbjct: 881 VVVFLCLAALYESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKN 940 Query: 933 GIVLLDFIK-LLVKEKDDVKEAIIEACKTRMRPIMIGMITTVISLIPLALSGGA---LWA 988 I++++F K L+ KE V EA + A + R+RPI++ + ++ ++PLA+S GA Sbjct: 941 AILIVEFAKDLMEKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQN 1000 Query: 989 PMATSIIFGMLVSSVLTLLVIPCAYFVIQGK 1019 + ++ GM+ +++L + +P + VI+ Sbjct: 1001 AVGIGVMGGMVSATLLAIFFVPVFFVVIRRC 1031
>OMPADOMAIN#OMPA domain signature. Length = 346 Score = 84.2 bits (208), Expect = 1e-20 Identities = 35/145 (24%), Positives = 65/145 (44%), Gaps = 24/145 (16%) Query: 167 NIVIDEELVFDLNSYQIKPAGRQVLDELAMAFENILRDPEVRVNIDAINIQGHTDDIGSA 226 + + +++F+ N +KP G+ LD+L N + ++ + G+TD IGS Sbjct: 214 HFTLKSDVLFNFNKATLKPEGQAALDQLYSQLSN------LDPKDGSVVVLGYTDRIGSD 267 Query: 227 EYNRNLSANRSVEVVNYLLNSNPTLENRYASYFMASAYSKFRPIASNATEANR------- 279 YN+ LS R+ VV+YL++ A A + P+ N + + Sbjct: 268 AYNQGLSERRAQSVVDYLISKGIP-----ADKISARGMGESNPVTGNTCDNVKQRAALID 322 Query: 280 --AQNRRIEISIILKDSNIQEVINE 302 A +RR+EI + I++V+ + Sbjct: 323 CLAPDRRVEIEV----KGIKDVVTQ 343
>PF06580#Sensor histidine kinase Length = 349 Score = 36.0 bits (83), Expect = 4e-04 Identities = 22/136 (16%), Positives = 56/136 (41%), Gaps = 19/136 (13%) Query: 433 ISDIESY--INEIKALNNIDIKFDLTGDDELLSIAQKKAMYRIICEGIGNAVRHGNAQ-- 488 ++ ++SY + I+ + + + + + ++ + + + + E N ++HG AQ Sbjct: 222 LTVVDSYLQLASIQFEDRLQFENQI--NPAIMDVQVPPMLVQTLVE---NGIKHGIAQLP 276 Query: 489 ---NIEVSIISRRQGMSLIINDDGKGFNMRGIDKSERFGLGVKNIYH---LTHSLNGTIK 542 I + ++L + + G + E G G++N+ + + IK Sbjct: 277 QGGKILLKGTKDNGTVTLEVENTGSLAL---KNTKESTGTGLQNVRERLQMLYGTEAQIK 333 Query: 543 FESQIGKGTRINIVIP 558 + GK + ++IP Sbjct: 334 LSEKQGKVNAM-VLIP 348
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 58.7 bits (142), Expect = 2e-12 Identities = 15/114 (13%), Positives = 47/114 (41%), Gaps = 2/114 (1%) Query: 2 RILIVDDHPLVRKGIASILFLEKDVHEIKEAENIEEAIDMMAKFSPEITLIDLNLGRQDG 61 IL+ DD +R + L ++++ N +A ++ + D+ + ++ Sbjct: 5 TILVADDDAAIRTVLNQALSRAG--YDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENA 62 Query: 62 LEIVNKARAKGMATKFIVLTSSSKREDFLRAREAGVDGYILKEAFAEDILYALR 115 +++ + + +V+++ + ++A E G Y+ K +++ + Sbjct: 63 FDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIG 116
>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature. Length = 1541 Score = 28.5 bits (63), Expect = 0.031 Identities = 31/173 (17%), Positives = 66/173 (38%), Gaps = 1/173 (0%) Query: 95 TNTTPQENASSKDDIVEENSQTEEEDLVDNVISQNDVEVETSESDESNETSESDESNETS 154 T T EN+ + VE+N Q E N + + + ++NE ++S + + Sbjct: 1036 TTETVAENSKQESKTVEKNEQDATETTAQNREVAKEAKSNVKANTQTNEVAQSGSETKET 1095 Query: 155 ESDESNETSGSDESNEASGSDESNETSGSDESNETSGSDESNETSGSDESNETSGSDESN 214 ++ E+ ET+ ++ +A E + S + ++S E + + Sbjct: 1096 QTTETKETATVEKEEKAKVETEKTQEVPKVTSQVSPKQEQSETVQPQAEPARENDPTVNI 1155 Query: 215 ETSESDESNETSGSDESNETSESDESNETSESDESNETSGSNESNETSESDES 267 + +S + + ETS + E +ES N + E+ E + + Sbjct: 1156 KEPQSQTNTTADTEQPAKETSSNVEQ-PVTESTTVNTGNSVVENPENTTPATT 1207
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 93.0 bits (231), Expect = 6e-24 Identities = 29/131 (22%), Positives = 61/131 (46%), Gaps = 1/131 (0%) Query: 1 MKDKKILLVEDDENISKIIKLYLEKEGFVVSCCYDGIVACETFLKNKYDLVLLDLMLPGL 60 M IL+ +DD I ++ L + G+ V + DLV+ D+++P Sbjct: 1 MTGATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDE 60 Query: 61 DGYQVCQKIRET-SYTPIIMLTAKGDLEEKVKGLHIGADDYVTKPFEIHELLARIHAMLR 119 + + + +I++ P+++++A+ +K GA DY+ KPF++ EL+ I L Sbjct: 61 NAFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALA 120 Query: 120 RIEQDHEEVNR 130 ++ ++ Sbjct: 121 EPKRRPSKLED 131
>ADHESNFAMILY#Adhesin family signature. Length = 309 Score = 27.9 bits (62), Expect = 0.016 Identities = 11/26 (42%), Positives = 16/26 (61%) Query: 8 KKLLFIGVLAVSMVTLAACGGGAEDS 33 KKL + VL +S + L AC G +D+ Sbjct: 2 KKLGTLLVLFLSAIILVACASGKKDT 27
>PRPHPHLPASEC#Prokaryotic zinc-dependent phospholipase C signature. Length = 398 Score = 54.6 bits (131), Expect = 8e-11 Identities = 40/152 (26%), Positives = 63/152 (41%), Gaps = 25/152 (16%) Query: 58 HKFINIQALKILRNDGYAEE-------YNFFSSYILDINKGAVWADQDFKS----SNHFY 106 H I Q + IL ND E + ++ G+ + D D + +HF+ Sbjct: 39 HAMIVTQGVSILENDLSKNEPESVRKNLEILKENMHELQLGSTYPDYDKNAYDLYQDHFW 98 Query: 107 NP------YKKKGLYGRRSAMELG----VDYYFQAIGLWREGAFNESLFYLGAALHIIQD 156 +P K Y S + G + A W+ G + ++ FYLG A+H D Sbjct: 99 DPDTDNNFSKDNSWYLAYSIPDTGESQIRKFSALARYEWQRGNYKQATFYLGEAMHYFGD 158 Query: 157 MTIPQHA-NIRLLDS--HRQYETFV-KRTYQY 184 + P H N+ +DS H ++ETF +R QY Sbjct: 159 IDTPYHPANVTAVDSAGHVKFETFAEERKEQY 190
>SOPEPROTEIN#Salmonella type III secretion SopE effector protein signature. Length = 239 Score = 32.0 bits (72), Expect = 0.004 Identities = 28/101 (27%), Positives = 41/101 (40%), Gaps = 8/101 (7%) Query: 218 LGTAALPLFLPVIIIGGIRLGIFTPTEAGAVAIIYSLILGAVYREMKFSHIITGLKETIT 277 +G AA LP G + +FTP+ AGA I LI A K+ + + + Sbjct: 143 IGEAAKNAGLP----GTTKNDVFTPSGAGANPFITPLISSA---NSKYPRMFINQHQQAS 195 Query: 278 STASIMLIVGAASAFAWVLTREQIPQQMTGLIVSMISNKYV 318 I+ A + PQQ LI+ I+NKY+ Sbjct: 196 FKIYAEKIIMTEVAPLFNECAMPTPQQFQ-LILENIANKYI 235
>FLGMRINGFLIF#Flagellar M-ring protein signature. Length = 559 Score = 185 bits (470), Expect = 5e-54 Identities = 119/555 (21%), Positives = 219/555 (39%), Gaps = 62/555 (11%) Query: 14 EYIQGLDKNKKIKIGLSALFILISLTGIIYFFSRPDYVVLYNNLNPEESGSVMETLQGSN 73 E++ L N +I + ++ + + ++ + PDY L++NL+ ++ G+++ L N Sbjct: 14 EWLNRLRANPRIPLIVAGSAAVAIVVAMVLWAKTPDYRTLFSNLSDQDGGAIVAQLTQMN 73 Query: 74 IRADFGDTSGTILVRKQDEKRAQVVVATQGLPTARFSYEDAFSGNSWMMTSEERAQRILI 133 I F + SG I V ++ +A QGLP + + ++ Sbjct: 74 IPYRFANGSGAIEVPADKVHELRLRLAQQGLPKGGAVGFELLDQEKFGISQFSEQVNYQR 133 Query: 134 AQQNYLASTMEEIPGVSKAVVNLTIPERTGFMMADNNANAKASVWLDISSNANLESGSIK 193 A + LA T+E + V A V+L +P+ + F+ + ASV + + L+ G I Sbjct: 134 ALEGELARTIETLGPVKSARVHLAMPKPSLFVREQK--SPSASVTVTLEPGRALDEGQIS 191 Query: 194 GIAILVSNAVQGLEPENVTIHGPDGRVLNQEAGSDSSLLGASDQMNLQQAVQKDLEKSIT 253 + LVS+AV GL P NVT+ G +L Q + S Q+ V+ +++ I Sbjct: 192 AVVHLVSSAVAGLPPGNVTLVDQSGHLLTQ--SNTSGRDLNDAQLKFANDVESRIQRRIE 249 Query: 254 DFLSSVYGHGNVVVMAGVRLGFDSNVTELVEFAPPIEGQETGIIRSMHELTHTAIDGPGG 313 LS + G+GNV +L F + ++P + + + ++ G G Sbjct: 250 AILSPIVGNGNVHAQVTAQLDFANKEQTEEHYSPNGDASKATLRSRQLNISEQVGAGYPG 309 Query: 314 GIPGV---------------DPNVGDIPQNVEDDEYL-------SRYDEASQTINYEINE 351 G+PG P QN R + ++T NYE++ Sbjct: 310 GVPGALSNQPAPPNEAPIATPPTNQQNAQNTPQTSTSTNSNSAGPRSTQRNETSNYEVDR 369 Query: 352 LRQKIVKAHGQVHDISVAVYVNKSTLADGD---LSDQERRELINIVSAAAGLDTR---VV 405 + G + +SVAV VN TLADG L+ + +++ ++ A G + + Sbjct: 370 TIRHTKMNVGDIERLSVAVVVNYKTLADGKPLPLTADQMKQIEDLTREAMGFSDKRGDTL 429 Query: 406 QVGVQEFNDSLADQWQLAMDGNLAAGEGGQPWW---LIGLLATLILGAAYIVINKVRK-- 460 V F+ + G Q + L L+L A+I+ K + Sbjct: 430 NVVNSPFS-------AVDNTGGELPFWQQQSFIDQLLAAGRWLLVLVVAWILWRKAVRPQ 482 Query: 461 --NRSQEEEILVQDVMIPDELEEI----------------NLDLSGSQVKQQIEKLVNKK 502 R +E + + + E EE N L + Q+I ++ + Sbjct: 483 LTRRVEEAKAAQEQAQVRQETEEAVEVRLSKDEQLQQRRANQRLGAEVMSQRIREMSDND 542 Query: 503 PDAVAQMLKNWINEE 517 P VA +++ W++ + Sbjct: 543 PRVVALVIRQWMSND 557
>FLGMOTORFLIG#Flagellar motor switch protein FliG signature. Length = 344 Score = 382 bits (982), Expect = e-135 Identities = 196/331 (59%), Positives = 267/331 (80%) Query: 9 ELTGREKAAILLISLGPEYSAQIFKHLTDEEIEELTLEIANMRRVSPLEKEKVLAEFHEV 68 LTG++KAAILL+S+G E S+++FK+L+ EEIE LT EIA + ++ K+ VL EF E+ Sbjct: 14 ALTGKQKAAILLVSIGSEISSKVFKYLSQEEIESLTFEIAKLETITSELKDNVLLEFKEL 73 Query: 69 CIAQEYISEGGINYAKDVLEKALGSQKAMDIINKLTASLQVKPFDFARKADPNQLLSFIQ 128 +AQE+I +GGI+YA+++LEK+LG+QKA+DIIN L ++LQ +PF+F R+ADP +L+FIQ Sbjct: 74 MMAQEFIQKGGIDYARELLEKSLGTQKAVDIINNLGSALQSRPFEFVRRADPANILNFIQ 133 Query: 129 NEHPQTIALILAYLSSTQSAQILSALPQAKQSEVARRIATMDRTSPDIIKEVEMVLERKL 188 EHPQTIALIL+YL +++ ILS+LP Q+ VARRIA MDRTSP++++EVE VLE+KL Sbjct: 134 QEHPQTIALILSYLDPQKASFILSSLPTEVQTNVARRIALMDRTSPEVVREVERVLEKKL 193 Query: 189 SSLVNQDYTSTGGIQAIVDILNSVDRGTEKNIMDTLEMQDAELAEEIRKRMFVFEDIISL 248 +SL ++DYTS GG+ +V+I+N DR TEK I+++LE +D ELAEEI+K+MFVFEDI+ L Sbjct: 194 ASLSSEDYTSAGGVDNVVEIINMADRKTEKFIIESLEEEDPELAEEIKKKMFVFEDIVLL 253 Query: 249 DSTSIQRFIREIDNKELAIALKGATEEVSDVIYGNMSKRMAEMIKEDMEFMGPVRLRDVE 308 D SIQR +REID +ELA ALK V + I+ NMSKR A M+KEDMEF+GP R +DVE Sbjct: 254 DDRSIQRVLREIDGQELAKALKSVDIPVQEKIFKNMSKRAASMLKEDMEFLGPTRRKDVE 313 Query: 309 EAQQKIVNIIRKLEEAGEIIIARGGGDEVIV 339 E+QQKIV++IRKLEE GEI+I+RGG ++V+V Sbjct: 314 ESQQKIVSLIRKLEEQGEIVISRGGEEDVLV 344
>FLGMOTORFLIM#Flagellar motor switch protein FliM signature. Length = 344 Score = 286 bits (733), Expect = 1e-97 Identities = 121/321 (37%), Positives = 212/321 (66%), Gaps = 1/321 (0%) Query: 1 MSDVLSQNEIDDLFQALNSGEVEIDEMKDEKIEKKIKSYDFKSPKKLAKDQLRTLQIIHD 60 M++VLSQ+EID L A++SG+ I++ + +KI YDF+ P K +K+Q+RTL ++H+ Sbjct: 1 MTEVLSQDEIDQLLTAISSGDASIEDARPISDTRKITLYDFRRPDKFSKEQMRTLSLMHE 60 Query: 61 NFSGMLNTFLAGYLRTYVQAEVLTVEELSYYEFSNSVVNPAVLSIINFTPLEGQIIVDIS 120 F+ + T L+ LR+ V V +V++L+Y EF S+ P+ L++I PL+G ++++ Sbjct: 61 TFARLTTTSLSAQLRSMVHVHVASVDQLTYEEFIRSIPTPSTLAVITMDPLKGNAVLEVD 120 Query: 121 PSISFTLIERILGGMGKETEEIRPFTEIETTLIKNLMRQVINLMIDPWENVIELQPKLDK 180 PSI+F++I+R+ GG G+ + R T+IE ++++ ++ +++ + + W VI+L+P+L + Sbjct: 121 PSITFSIIDRLFGGTGQAAKVQRDLTDIENSVMEGVIVRILANVRESWTQVIDLRPRLGQ 180 Query: 181 IETNSQFAQIVSPNDTVALITLNLKIGDVEGMMNICIPHIVIEPILDKLSTKLWFSNSSK 240 IETN QFAQIV P++ V L+TL K+G+ EGMMN CIP+I IEPI+ KLS++ WFS+ + Sbjct: 181 IETNPQFAQIVPPSEMVVLVTLETKVGEEEGMMNFCIPYITIEPIISKLSSQFWFSSVRR 240 Query: 241 PVTERDKKALQKRVEKSAVDITAQLGSTCVTVKDFLELQMGDVIML-DNPVDKELQILVG 299 T + L+ ++ +D+ A++GS ++V+D L L++GD+I L D V + +G Sbjct: 241 SSTTQYMGVLRDKLSTVDMDVVAEVGSLRLSVRDILGLRVGDIIRLHDTHVGDPFVLSIG 300 Query: 300 DKIRYRGLPGTSKNKLAVKVT 320 ++ ++ PG K+A ++ Sbjct: 301 NRKKFLCQPGVVGKKIAAQIL 321
>FLGMOTORFLIN#Flagellar motor switch protein FliN signature. Length = 137 Score = 94.2 bits (234), Expect = 8e-28 Identities = 39/97 (40%), Positives = 60/97 (61%) Query: 47 FQAFEQVSSKGVPENISTIQDVPLSVTVELGRTVKKISEVLEFGPGTIIEVEKLVGEHVD 106 FQ G ++I I D+P+ +TVELGRT I E+L G+++ ++ L GE +D Sbjct: 39 FQQLGGGDVSGAMQDIDLIMDIPVKLTVELGRTRMTIKELLRLTQGSVVALDGLAGEPLD 98 Query: 107 ILVNGQYVAKGEVVVIDENYGTRITEIAKVGNRLSKI 143 IL+NG +A+GEVVV+ + YG RIT+I R+ ++ Sbjct: 99 ILINGYLIAQGEVVVVADKYGVRITDIITPSERMRRL 135
>SECA#SecA protein signature. Length = 901 Score = 1145 bits (2964), Expect = 0.0 Identities = 443/925 (47%), Positives = 600/925 (64%), Gaps = 63/925 (6%) Query: 1 MKRLFEKVFGSESEREIKKIDKLADRVEALDEEYKKLSDQALQSKTAELKGRLSQGEALD 60 + +L KVFGS ++R ++++ K+ + + A++ E +KLSD+ L+ KTAE + RL +GE L+ Sbjct: 2 LIKLLTKVFGSRNDRTLRRMRKVVNIINAMEPEMEKLSDEELKGKTAEFRARLEKGEVLE 61 Query: 61 DILPEAFATMREAAWRVLGMKHYRVQIYGAIILHQGRISEMKTGEGKTLMATLPVYLNAL 120 +++PEAFA +REA+ RV GM+H+ VQ+ G ++L++ I+EM+TGEGKTL ATLP YLNAL Sbjct: 62 NLIPEAFAVVREASKRVFGMRHFDVQLLGGMVLNERCIAEMRTGEGKTLTATLPAYLNAL 121 Query: 121 AGKGVHVVTVNDYLAQRDCEWMGKLYEFLGLSVGVIVHGITIEQRRAAYNADVTYGTNNE 180 GKGVHVVTVNDYLAQRD E L+EFLGL+VG+ + G+ +R AY AD+TYGTNNE Sbjct: 122 TGKGVHVVTVNDYLAQRDAENNRPLFEFLGLTVGINLPGMPAPAKREAYAADITYGTNNE 181 Query: 181 FGFDYLRDNMVIYQKDMVQREQNYAIVDEVDSILIDEARTPLIISGQGEKSTKLYHIVDQ 240 +GFDYLRDNM ++ VQR+ +YA+VDEVDSILIDEARTPLIISG E S+++Y V++ Sbjct: 182 YGFDYLRDNMAFSPEERVQRKLHYALVDEVDSILIDEARTPLIISGPAEDSSEMYKRVNK 241 Query: 241 FVKTLK-----------IEDDVSLDEKANSVTLTEDGGTKAEKAFGI-------ENLADM 282 + L E S+DEK+ V LTE G E+ E+L Sbjct: 242 IIPHLIRQEKEDSETFQGEGHFSVDEKSRQVNLTERGLVLIEELLVKEGIMDEGESLYSP 301 Query: 283 NNMELSHHINQALKARNLMRLDKDYVVKDGEIIIVDDFTGRLMFGRRYSDGLHQAIEAKE 342 N+ L HH+ AL+A L D DY+VKDGE+IIVD+ TGR M GRR+SDGLHQA+EAKE Sbjct: 302 ANIMLMHHVTAALRAHALFTRDVDYIVKDGEVIIVDEHTGRTMQGRRWSDGLHQAVEAKE 361 Query: 343 GLQIQRESKTLATITFQNYFRMYRKLSGMTGTAKTEEDEFRAIYNMDVVEIPTNRVIVRD 402 G+QIQ E++TLA+ITFQNYFR+Y KL+GMTGTA TE EF +IY +D V +PTNR ++R Sbjct: 362 GVQIQNENQTLASITFQNYFRLYEKLAGMTGTADTEAFEFSSIYKLDTVVVPTNRPMIRK 421 Query: 403 DQADGVYKGEQGKFEALAKDIEGRYKKGQPVLVGTISIEKSEELATLLKRKGIPCEVLNA 462 D D VY E K +A+ +DI+ R KGQPVLVGTISIEKSE ++ L + GI VLNA Sbjct: 422 DLPDLVYMTEAEKIQAIIEDIKERTAKGQPVLVGTISIEKSELVSNELTKAGIKHNVLNA 481 Query: 463 KHHEREAEIVAQAGRKGIITIATNMAGRGTDIILGGNPEFLAKREMKKRGYADELIANAT 522 K H EA IVAQAG +TIATNMAGRGTDI+LGG+ + Sbjct: 482 KFHANEAAIVAQAGYPAAVTIATNMAGRGTDIVLGGSWQA-------------------- 521 Query: 523 SHHETDDEELQAARKVYNDLLEKFKKETEQEHKDVIEAGGLHIIGTERHESRRIDNQLRG 582 E+ A + +EK K + + H V+EAGGLHIIGTERHESRRIDNQLRG Sbjct: 522 --------EVAALENPTAEQIEKIKADWQVRHDAVLEAGGLHIIGTERHESRRIDNQLRG 573 Query: 583 RAGRQGDPGSSKFYISLEDDLMRLFGGDKMLSIVEKMGLEDDEAIEHGMLSRSIENAQKK 642 R+GRQGD GSS+FY+S+ED LMR+F D++ ++ K+G++ EAIEH ++++I NAQ+K Sbjct: 574 RSGRQGDAGSSRFYLSMEDALMRIFASDRVSGMMRKLGMKPGEAIEHPWVTKAIANAQRK 633 Query: 643 VEGRNFGIRKHVLQYDDVMNKQREVIYGERKKVLAGESLKDHVLNMARNIINEAVAIYTA 702 VE RNF IRK +L+YDDV N QR IY +R ++L + + + ++ ++ + Y Sbjct: 634 VESRNFDIRKQLLEYDDVANDQRRAIYSQRNELLDVSDVSETINSIREDVFKATIDAYIP 693 Query: 703 DAKYPEEWDLVGLGEYLAGIYMQRATLS--FDNIEELTVETLQEQIYETSEKLYEAKEEE 760 E WD+ GL E L + ++ D EL ETL+E+I S ++Y+ KEE Sbjct: 694 PQSLEEMWDIPGLQERLKNDFDLDLPIAEWLDKEPELHEETLRERILAQSIEVYQRKEEV 753 Query: 761 IEAERMRELERIIVLQVIDTKWMDHIDAMDQLRQGIGLRAIGQIDPVRAYQVEGFDMFNA 820 + AE MR E+ ++LQ +D+ W +H+ AMD LRQGI LR Q DP + Y+ E F MF A Sbjct: 754 VGAEMMRHFEKGVMLQTLDSLWKEHLAAMDYLRQGIHLRGYAQKDPKQEYKRESFSMFAA 813 Query: 821 MINSIQEDTVKYLFNVEPQAKVERKQV-------------AKPIEASHGDGNRKKAPVVK 867 M+ S++ + + L V+ + E +++ + + D A + Sbjct: 814 MLESLKYEVISTLSKVQVRMPEEVEELEQQRRMEAERLAQMQQLSHQDDDSAAAAALAAQ 873 Query: 868 --EKEAGRNDPCPCGSGKKYKKCCG 890 E++ GRNDPCPCGSGKKYK+C G Sbjct: 874 TGERKVGRNDPCPCGSGKKYKQCHG 898
>PF01540#Adhesin lipoprotein Length = 475 Score = 31.6 bits (71), Expect = 0.020 Identities = 21/76 (27%), Positives = 38/76 (50%), Gaps = 3/76 (3%) Query: 853 ELAGNQQEEIKEIHHKMQDLLQEISSQVKSGKVQNERPYE---KIAELIKELEGKQHLLD 909 E A ++Q+++ + + K+ D +I K +E+ IA I +LEGK+ +D Sbjct: 100 ENAKSEQQKVDQANKKIADENLKIKEGAKELLKLSEKIQSFADTIALTITKLEGKKFQID 159 Query: 910 EQTKGRLQQTSDKLLE 925 E K +L T + L + Sbjct: 160 ETFKKQLISTIELLNK 175
>TYPE3IMSPROT#Type III secretion system inner membrane S protein family signature. Length = 354 Score = 68.6 bits (168), Expect = 2e-17 Identities = 22/81 (27%), Positives = 34/81 (41%), Gaps = 1/81 (1%) Query: 10 AIALQYDVERDHAPRITAAGQGMMAERILERAEENDVAIYHDERLVKELI-EFKVGTEIP 68 AI + Y P +T + + + AEE V I L + L + V IP Sbjct: 268 AIGILYKRGETPLPLVTFKYTDAQVQTVRKIAEEEGVPILQRIPLARALYWDALVDHYIP 327 Query: 69 TELYEVVAQVLVFIENVDQKK 89 E E A+VL ++E + +K Sbjct: 328 AEQIEATAEVLRWLERQNIEK 348
>FLAGELLIN#Flagellin signature. Length = 507 Score = 175 bits (444), Expect = 2e-53 Identities = 80/242 (33%), Positives = 128/242 (52%), Gaps = 15/242 (6%) Query: 1 MRINNNIPALSAHRLLSRNSELSSKTLERLSSGKRINRASDDAAGMAISEKMRSQIKGLR 60 IN N +L L+++ S +ERLSSG RIN A DDAAG AI+ + S IKGL Sbjct: 2 QVINTNSLSLLTQNNLNKSQSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGLT 61 Query: 61 MASKNALDGISLIQTAEGAMNEIHSMLQRMRELAVQGANGIYDGDDVSAIKNEMNELVEE 120 AS+NA DGIS+ QT EGA+NEI++ LQR+REL+VQ NG D+ +I++E+ + +EE Sbjct: 62 QASRNANDGISIAQTTEGALNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLEE 121 Query: 121 IESISENTKFNDKAILKHEEDADSPKNKVQLQIGANEGEVMIFDIPNMTIGILEIRMEAE 180 I+ +S T+FN +L S N++++Q+GAN+GE + D+ + Sbjct: 122 IDRVSNQTQFNGVKVL-------SQDNQMKIQVGANDGETITIDLQKID--------VKS 166 Query: 181 LDENDVEIEDSIKIKFTNNEEAAKAITTIESAIKMVSDERSKLGAFQNRLEHTISNVDNT 240 L + + + + + + K +T ++ + R + + + T V + Sbjct: 167 LGLDGFNVNGPKEATVGDLKSSFKNVTGYDTYAVGANKYRVDVNSGAVVTDTTAPTVPDK 226 Query: 241 AE 242 Sbjct: 227 VY 228 Score = 115 bits (290), Expect = 2e-31 Identities = 46/102 (45%), Positives = 63/102 (61%) Query: 190 DSIKIKFTNNEEAAKAITTIESAIKMVSDERSKLGAFQNRLEHTISNVDNTAENLTAAMS 249 + + A + +I+SA+ V RS LGA QNR + I+N+ NT NL +A S Sbjct: 405 LINEDAAAAKKSTANPLASIDSALSKVDAVRSSLGAIQNRFDSAITNLGNTVTNLNSARS 464 Query: 250 RIEDLDMALEMSEFTKLNILIQSGTAMLAQANQRPQSILQLL 291 RIED D A E+S +K IL Q+GT++LAQANQ PQ++L LL Sbjct: 465 RIEDADYATEVSNMSKAQILQQAGTSVLAQANQVPQNVLSLL 506
>TCRTETB#Tetracycline resistance protein TetB signature. Length = 458 Score = 42.2 bits (99), Expect = 3e-06 Identities = 57/405 (14%), Positives = 141/405 (34%), Gaps = 51/405 (12%) Query: 20 ILVVAYVIVFF---HRLALGVVRQDLVDTFNITGTTFANLGSMYFYPYMFMQIPAGILAD 76 IL+ ++ FF + + L V D+ + FN + + + + + G L+D Sbjct: 15 ILIWLCILSFFSVLNEMVLNVSLPDIANDFNKPPASTNWVNTAFMLTFSIGTAVYGKLSD 74 Query: 77 SLGARKTVTYGTLLAGLGSIIFGLAPSIL-WAFVGRLLVGLGVSVVFIAILKIQSQWFKE 135 LG ++ + +G ++ GS+I + S + R + G G + ++ + +++ + Sbjct: 75 QLGIKRLLLFGIIINCFGSVIGFVGHSFFSLLIMARFIQGAGAAAFPALVMVVVARYIPK 134 Query: 136 SEFGTMSGMTSFVGNL--------GGVMAQT---------PLALVVAAFTWRT------- 171 G G+ + + GG++A P+ ++ Sbjct: 135 ENRGKAFGLIGSIVAMGEGVGPAIGGMIAHYIHWSYLLLIPMITIITVPFLMKLLKKEVR 194 Query: 172 -----TFVGIGLISLVVAFLCYWVVRNTPEEMGLPSIAEIEGKERPSQAPQRPPIGESLV 226 GI L+S+ + F + + + + ++ + + + P + Sbjct: 195 IKGHFDIKGIILMSVGIVFFMLFTTSYSISFLIVSVLSFLIFVKHIRKV-TDPFV----- 248 Query: 227 RVLTNPRTWPSFFMFTGFFGAFISLTGAWGQSYLI-----EVYDL-PSTVAPNYLMAATL 280 +P + G I G ++ +V+ L + + + T+ Sbjct: 249 ----DPGLGKNIPFMIGVLCGGIIFGTVAGFVSMVPYMMKDVHQLSTAEIGSVIIFPGTM 304 Query: 281 GLAIGSFAIGKISDVMKRRKLPMIVFGAIYTITWGILVFVNGGKPPIAMLYPLFFVMGFT 340 + I + G + D + + + ++++ F+ + +F + G + Sbjct: 305 SVIIFGYIGGILVDRRGPLYV-LNIGVTFLSVSFLTASFLLETTSWFMTIIIVFVLGGLS 363 Query: 341 CSAFVLSWACGKEVNHPSIAGISTSVVNIGGFLGSAILPPILGRV 385 + V+S + AG S++N FL I+G + Sbjct: 364 FTKTVISTIVSSSL-KQQEAGAGMSLLNFTSFLSEGTGIAIVGGL 407
>TCRTETB#Tetracycline resistance protein TetB signature. Length = 458 Score = 29.1 bits (65), Expect = 0.036 Identities = 22/104 (21%), Positives = 42/104 (40%), Gaps = 10/104 (9%) Query: 66 ATLLAGLLLPLIGRAIDAAGHRRLITIISTLLGMTCLWMSFINQPMMLFIGFIMLRLFGQ 125 T+ + + G +D G ++ I T L ++ L SF+ + F+ I++ + G Sbjct: 302 GTMSVIIFGYIGGILVDRRGPLYVLNIGVTFLSVSFLTASFLLETTSWFMTIIIVFVLGG 361 Query: 126 GSM------TLIPSTLVPQWFVRHRGKALSLMAIGGVVGSGLLP 163 S T++ S+L Q G +SL+ + G Sbjct: 362 LSFTKTVISTIVSSSLKQQ----EAGAGMSLLNFTSFLSEGTGI 401
>PF06580#Sensor histidine kinase Length = 349 Score = 37.2 bits (86), Expect = 1e-04 Identities = 40/248 (16%), Positives = 84/248 (33%), Gaps = 59/248 (23%) Query: 339 NVILGSLQLQGLYIASENTSKYKKEY---SKANKRMKQNSYRLLRL----------VNNI 385 NV++ + LY YK+ K ++ L+ +NNI Sbjct: 123 NVVVVTFMWSLLYFGWHFFKNYKQAEIDQWKMASMAQEAQLMALKAQINPHFMFNALNNI 182 Query: 386 IDITKID-----------SGFYDINLENYDINML-IREIVLSVEDY--IENA--GLQIEF 429 + D S +L + + + + + V+ Y + + +++F Sbjct: 183 RALILEDPTKAREMLTSLSELMRYSLRYSNARQVSLADELTVVDSYLQLASIQFEDRLQF 242 Query: 430 KANTNQAIIACDPEKIERIMLN-LLSNAIKF----TEAGGKIVVTVKMVQNRIFMSVRDT 484 + N AI+ ++ +++ L+ N IK GGKI++ + + V +T Sbjct: 243 ENQINPAIMDV---QVPPMLVQTLVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENT 299 Query: 485 GIGIPQEKINSVFERFKQVGSYSHRKNEGSGIGLSLVRLLIEAHKGK---VTVRSKLNEG 541 G + E +G GL VR ++ G + + K + Sbjct: 300 GSLALKNTK------------------ESTGTGLQNVRERLQMLYGTEAQIKLSEKQGKV 341 Query: 542 TEFIIELP 549 ++ +P Sbjct: 342 NA-MVLIP 348
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 72.2 bits (177), Expect = 2e-15 Identities = 33/150 (22%), Positives = 58/150 (38%), Gaps = 7/150 (4%) Query: 284 PTILVAEDDLLNQKIISAQLKVLGYDFEIVSDGGEVLRALGKNHYDLILMDYHMVGINGL 343 TILVA+DD + +++ L GYD I S+ + R + DL++ D M N Sbjct: 4 ATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63 Query: 344 KTTEMIRKMEEKTQRHTMIIALTASAIAEAKQEGTKRGMDDYLSKPINLNE---LSEKLN 400 I+K ++ ++A + +++G DYL KP +L E + + Sbjct: 64 DLLPRIKKARP----DLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRAL 119 Query: 401 KHLRRAQDIHIKTAKDSAAFSPEEPQYDAI 430 +R ++D I Sbjct: 120 AEPKRRPSKLEDDSQDGMPLVGRSAAMQEI 149
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 94.5 bits (235), Expect = 1e-24 Identities = 34/136 (25%), Positives = 62/136 (45%), Gaps = 3/136 (2%) Query: 1 MQNKSILVVEDDPTTQRLIRHTLEQHQFQVLSAEDGAMTLDLLSNHKDIDAIILDLFLPD 60 M +ILV +DD + ++ L + + V + A ++ D D ++ D+ +PD Sbjct: 1 MTGATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIA-AGDGDLVVTDVVMPD 59 Query: 61 CNGLELLKTVRSHSIHSDIPVVILTSNDDKLDLVIALEMGADDYITKPFHKRELIARINV 120 N +LL ++ D+PV+++++ + + + A E GA DY+ KPF ELI I Sbjct: 60 ENAFDLLPRIKKA--RPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGR 117 Query: 121 CLRRAQNTIRSHNTSR 136 L + Sbjct: 118 ALAEPKRRPSKLEDDS 133
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 105 bits (263), Expect = 2e-28 Identities = 36/134 (26%), Positives = 64/134 (47%), Gaps = 1/134 (0%) Query: 3 KILIVDDDPHIRELVKVLLRNEGFDVHEAFDGVEALSKLETIKVDMVILDVMMPNMDGWQ 62 IL+ DDD IR ++ L G+DV + + D+V+ DV+MP+ + + Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64 Query: 63 LCRELREHY-DLPLLMLTAKGETSQKVKGFQLGTDDYLVKPFEPMELVVRVKALLKRYQI 121 L +++ DLP+L+++A+ +K + G DYL KPF+ EL+ + L + Sbjct: 65 LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKR 124 Query: 122 ITSQTVRIGELVMN 135 S+ + M Sbjct: 125 RPSKLEDDSQDGMP 138
>PF06580#Sensor histidine kinase Length = 349 Score = 36.4 bits (84), Expect = 2e-04 Identities = 21/102 (20%), Positives = 38/102 (37%), Gaps = 22/102 (21%) Query: 417 NLIYNSIKFTPEGGSVRVDLNQHGKTIVCKISDTGIGIPEEDQKHIFERFYKADKSRERS 476 N I + I P+GG + + + T+ ++ +TG + + Sbjct: 266 NGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSLALKN------------------T 307 Query: 477 KKGGGLGLSITKKIIDMHYGD---ISVQSKSGTGTTFTVSLP 515 K+ G GL ++ + M YG I + K G V +P Sbjct: 308 KESTGTGLQNVRERLQMLYGTEAQIKLSEKQG-KVNAMVLIP 348
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 75.3 bits (185), Expect = 7e-17 Identities = 53/282 (18%), Positives = 101/282 (35%), Gaps = 46/282 (16%) Query: 87 DVAKDQVLFVMDEKDIQNAIEQAENSIDLAKRSVEQAESGIKSAKINYEATKESLEDALA 146 +V + L QN ++ + ++L K+ E+ + + YE + L Sbjct: 183 EVLRLTSLIKEQFSTWQN--QKYQKELNLDKKRAERL--TVLARINRYENLSRVEKSRLD 238 Query: 147 TLERTKTLYEAGAVPKTQLE---------QAEMAASSRPLEIAEAKVLQAEISYQ----- 192 +L A+ K + E+ LE E+++L A+ YQ Sbjct: 239 DF---SSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQL 295 Query: 193 ----------QALNQLSQAQISYEQAKGNLDNTLVKAPIRGVVSSLSV-VEGQLASNAQG 241 Q + + + + + ++++AP+ V L V EG + + A+ Sbjct: 296 FKNEILDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAET 355 Query: 242 AATIADIDSVYL-KVDVTENMVNRLHQGQEVSVKVEA---ALNGKIKGRIDYISP--TTD 295 I D V + ++ GQ +KVEA G + G++ I+ D Sbjct: 356 LMVIVPEDDTLEVTALVQNKDIGFINVGQNAIIKVEAFPYTRYGYLVGKVKNINLDAIED 415 Query: 296 AKTQL-YTVKVYI-------HNKEGKIRSGMSGSIELDAESR 329 + L + V + I NK + SGM+ + E+ R Sbjct: 416 QRLGLVFNVIISIEENCLSTGNKNIPLSSGMAVTAEIKTGMR 457 Score = 47.9 bits (114), Expect = 4e-08 Identities = 22/187 (11%), Positives = 72/187 (38%), Gaps = 9/187 (4%) Query: 68 TVMPQTPGTVAKVNIKLGDDVAKDQVLFVMDEKDIQNAIEQAENSIDLAKRSVEQAESGI 127 + P V ++ +K G+ V K VL + + + ++S+ A+ + + Sbjct: 98 EIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILS 157 Query: 128 KSAKINYEATKESLEDALATLERTKTLYEAGAVPKTQLEQAEMAASSRPLEIAEAKVLQA 187 +S ++N + ++ + + ++ K Q + + L + + +A Sbjct: 158 RSIELNKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDK---KRA 214 Query: 188 EISYQQALNQLSQAQISYEQAKGNLDNTLVKAPIRGVVSSLSVVEGQ---LASNAQGAAT 244 E A + E+++ + ++L+ + ++ +V+E + + + + Sbjct: 215 ERLTVLARINRYENLSRVEKSRLDDFSSLLH---KQAIAKHAVLEQENKYVEAVNELRVY 271 Query: 245 IADIDSV 251 + ++ + Sbjct: 272 KSQLEQI 278
>ACRIFLAVINRP#Acriflavin resistance protein family signature. Length = 1034 Score = 699 bits (1806), Expect = 0.0 Identities = 239/1049 (22%), Positives = 480/1049 (45%), Gaps = 38/1049 (3%) Query: 4 SKLAVKRPVTTVVAMLIIILLGTISLTRLPIELYPSMEIPVAAVITSYSGAGPHEVENLI 63 + ++RP+ V +I+++ G +++ +LP+ YP++ P +V +Y GA V++ + Sbjct: 2 ANFFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDTV 61 Query: 64 TRPIEEAMATVRNVDIIHSTSAQ-GSSVVPIIFKAGTDMDMATLEMREEVDLIKGALPAG 122 T+ IE+ M + N+ + STS GS + + F++GTD D+A ++++ ++ L LP Sbjct: 62 TQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQE 121 Query: 123 STDPMVIRLDPNADPIMYISLT---NGEDLTSLQVLAEETIKPRFERIEGVAAAGVSGGY 179 + ++ +M G + +K R+ GV + G Sbjct: 122 VQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFGA- 180 Query: 180 TNEIQIKTNQRRLDNYGISLSQLAQIINASNMNLPGGTINDG------EKELPVRAMGEF 233 ++I + L+ Y ++ + + N + G + + + A F Sbjct: 181 QYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTRF 240 Query: 234 RSIDEIKEVPV-TLPTGSIITLKDIAEVELTHQDIKSISRTNGKASINISIQKQPGSNTV 292 ++ +E +V + GS++ LKD+A VEL ++ I+R NGK + + I+ G+N + Sbjct: 241 KNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGANAL 300 Query: 293 EVAALIHAEISKLQNEY-ADIAIDITLDESKYITNSINSLTLNVILGGIFAIMVLYLFLR 351 + A I A++++LQ + + + D + ++ SI+ + + + +V+YLFL+ Sbjct: 301 DTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVMYLFLQ 360 Query: 352 NIRTTLIIGTSIPISVIATFGLMYFSGITLNMISLGGLALGVGMLVDNSIVVLENIYRFR 411 N+R TLI ++P+ ++ TF ++ G ++N +++ G+ L +G+LVD++IVV+EN+ R Sbjct: 361 NMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERVM 420 Query: 412 VEGYSRT-EAAVKGTLEVAQAVAAPTLTTIAVFLPILFVEDMMVNIYFGEMALAVIFSLI 470 +E EA K ++ A+ + AVF+P+ F IY + ++ ++ ++ Sbjct: 421 MEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYR-QFSITIVSAMA 479 Query: 471 ASLVVSLTLIPMLSSQLLKVDSTDEKERKGIRKGFKLIYDAFDRAFSSIEKAYKKLLTWS 530 S++V+L L P L + LLK S + E KG GF + F+ F Y + Sbjct: 480 LSVLVALILTPALCATLLKPVSAEHHENKG---GF---FGWFNTTFDHSVNHYTNSVGKI 533 Query: 531 LGHRRTTILLALIVFLGSLSSMLFVGVELFPASDEGMVDISVSLPRGAEIHEINEVLLEV 590 LG +L+ ++ G + L + P D+G+ + LP GA +VL +V Sbjct: 534 LGSTGRYLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQV 593 Query: 591 EESI-ASIEEIETVVASIGGGGATGEARAVRTGGQRGSIMISFADMKERNR---TSEEIA 646 + + + V ++ G +G+A+ G +S +ERN ++E + Sbjct: 594 TDYYLKNEKANVESVFTVNGFSFSGQAQNA------GMAFVSLKPWEERNGDENSAEAVI 647 Query: 647 DEIRDLVKDIPGAEISVSAAAGGFALGIAG--DPISISIKGDSLENLQEISQDFKRIIES 704 + + I + LG A D I G + L + + Sbjct: 648 HRAKMELGKIRDGFVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQ 707 Query: 705 VEGT-REITTSFTEAMSEVQVHIDRYSAATYGLTTSQVANNMRNAVSGITATRYKLDGDE 763 + + + E ++ ++ +D+ A G++ S + + A+ G + G Sbjct: 708 HPASLVSVRPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRV 767 Query: 764 IDVVLKAEDSVTESLSNMQQMSIQTAAGGNIPLNQVANVSIERSPFQIDRIDQQRVVTVT 823 + ++A+ ++ ++ +++A G +P + +++R + + + Sbjct: 768 KKLYVQADAKFRMLPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEIQ 827 Query: 824 GEI-GDRDLQSIMRDIDGALKEYPLPPGYTYEIGGQGLQMGDTMNALLFALVMAIGLVYL 882 GE M ++ + LP G Y+ G Q + N + ++ +V+L Sbjct: 828 GEAAPGTSSGDAMALMENLASK--LPAGIGYDWTGMSYQERLSGNQAPALVAISFVVVFL 885 Query: 883 VMAAQFESWMHPFIIILSVPTALAGGLLGLFITGKSLGLTAMIGIVMLAGIVVNNAIVLL 942 +AA +ESW P ++L VP + G LL + + + M+G++ G+ NAI+++ Sbjct: 886 CLAALYESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILIV 945 Query: 943 DYINTLRAA-GKDRTDAITTAGPIRLRPILMTTATTVLGLLPVAIGIGEGAEAQAPMGIV 1001 ++ L GK +A A +RLRPILMT+ +LG+LP+AI G G+ AQ +GI Sbjct: 946 EFAKDLMEKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIG 1005 Query: 1002 VIAGLLLSTILTLVLIPTVYTLVDDFSTG 1030 V+ G++ +T+L + +P + ++ G Sbjct: 1006 VMGGMVSATLLAIFFVPVFFVVIRRCFKG 1034
>PHPHTRNFRASE#Phosphoenolpyruvate-protein phosphotransferase signature. Length = 572 Score = 67.1 bits (164), Expect = 1e-13 Identities = 27/80 (33%), Positives = 43/80 (53%), Gaps = 2/80 (2%) Query: 795 ANIEEGDILVTVFTDPSWTPLFVS--VKGLVTEVGGLMTHGAVITREYGIPGVVGVENAT 852 A I E +++ PS T VKG T++GG +H A+++R IP VVG + T Sbjct: 151 ATIAEETVIIAEDLTPSDTAQLNKQFVKGFATDIGGRTSHSAIMSRSLEIPAVVGTKEVT 210 Query: 853 KLIKDGQRIRINGTEGYVEL 872 + I+ G + ++G EG V + Sbjct: 211 EKIQHGDMVIVDGIEGIVIV 230
>TCRTETA#Tetracycline resistance protein signature. Length = 399 Score = 32.9 bits (75), Expect = 6e-04 Identities = 33/127 (25%), Positives = 58/127 (45%), Gaps = 12/127 (9%) Query: 9 IDAGGSAATVGLFFFLSLLPALLVYPFAGVLGDRMNRKTIMVATDFISGGVILTLGFLSY 68 G S A G+ SL A++ P A LG+R + +M+ G IL Sbjct: 246 TTIGISLAAFGILH--SLAQAMITGPVAARLGER---RALMLGMIADGTGYILLAFATRG 300 Query: 69 WGIMEIYLLLVVQVMISLLNGLFEPATRGMLPQLVNKDELTRSNSTVASMRSASVLLGPV 128 W I +LL G+ PA + ML + V+++ + ++A++ S + ++GP+ Sbjct: 301 WMAFPIMVLLA-------SGGIGMPALQAMLSRQVDEERQGQLQGSLAALTSLTSIVGPL 353 Query: 129 IGAALYA 135 + A+YA Sbjct: 354 LFTAIYA 360
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 25.9 bits (57), Expect = 0.035 Identities = 14/45 (31%), Positives = 24/45 (53%) Query: 36 KLLDQKLMEEVNEYLESGNVEELADLLEVIYAIAETKEISLEELE 80 K DQ+ +E + + GNV EL +L+ + A+ I+ E +E Sbjct: 336 KRFDQEALELMKAHPWPGNVRELENLVRRLTALYPQDVITREIIE 380
>NUCEPIMERASE#Nucleotide sugar epimerase signature. Length = 334 Score = 93.3 bits (232), Expect = 7e-24 Identities = 57/243 (23%), Positives = 99/243 (40%), Gaps = 20/243 (8%) Query: 3 KILVTGALGQIGTELVMKMRDMYGANNVIA--------SSRSKRKETEVTESGPFELV-- 52 K LVTGA G IG + ++ + + V+ K+ E+ F+ Sbjct: 2 KYLVTGAAGFIGFHVSKRLLE--AGHQVVGIDNLNDYYDVSLKQARLELLAQPGFQFHKI 59 Query: 53 DVVNAQQIADAVKKHNVDTVVNLAAILSAS-GEANPSGTWDINMGGLYNILEVARENNC- 110 D+ + + + D + + V L+ NP D N+ G NILE R N Sbjct: 60 DLADREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFLNILEGCRHNKIQ 119 Query: 111 AVCTPSSIAVFGPSTPKEQTPQDTVMRPTTMYGVTKVAGELLCDYYHMKFNVDTRGMRYP 170 + SS +V+G + + D+V P ++Y TK A EL+ Y + + G+R+ Sbjct: 120 HLLYASSSSVYGLNRKMPFSTDDSVDHPVSLYAATKKANELMAHTYSHLYGLPATGLRFF 179 Query: 171 GLISNKALPGGGTTDYAVHIYYEA-LKHKKYECFLDKGTRMDMMYMPDALNAVIQLMEAD 229 + P D A+ + +A L+ K + + + D Y+ D A+I+L + Sbjct: 180 TVYGPWGRP-----DMALFKFTKAMLEGKSIDVYNYGKMKRDFTYIDDIAEAIIRLQDVI 234 Query: 230 PAK 232 P Sbjct: 235 PHA 237
>ALARACEMASE#Alanine racemase signature. Length = 356 Score = 47.1 bits (112), Expect = 5e-08 Identities = 32/163 (19%), Positives = 62/163 (38%), Gaps = 17/163 (10%) Query: 12 VVDLDQLEKNIEEMGVLAKDHGVALWPMVKT----HKSEYIVKKQLENGAEGVLAAKLGE 67 +DL L++N+ + A +W +VK H E I + L E Sbjct: 8 SLDLQALKQNLSIVRQAATH--ARVWSVVKANAYGHGIERIWSAIGATDGFAL--LNLEE 63 Query: 68 AEKMVEAGAKKVMMAYPI-IGEGKLK-RLVALTEKAEVFCSIDSLEVAEILNEKAITEGI 125 A + E G K PI + EG + + + ++ + + S + L + + Sbjct: 64 AITLRERGWKG-----PILMLEGFFHAQDLEIYDQHRLTTCVHSNWQLKALQNARLKAPL 118 Query: 126 VFQCIILIDSGLKRLGIAPHEVKKFYNSLARLQGIKIVGVGTH 168 + ++SG+ RLG P V + L + + + + +H Sbjct: 119 DIY--LKVNSGMNRLGFQPDRVLTVWQQLRAMANVGEMTLMSH 159
>TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family signature. Length = 639 Score = 174 bits (443), Expect = 4e-49 Identities = 104/447 (23%), Positives = 178/447 (39%), Gaps = 86/447 (19%) Query: 6 IRNIAIIAHVDHGKTTLVDQMLRQSGTFRSNEVVEE--RVMDSNDLERERGITILSKNTA 63 I NI ++AHVD GKTTL + +L SG V++ D+ LER+RGITI + T+ Sbjct: 3 IINIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITS 62 Query: 64 IAYENVKINIIDTPGHADFGGEVERIMKMVDGVLLVVDASEGPMPQTRFVLQKALKQGVK 123 +EN K+NIIDTPGH DF EV R + ++DG +L++ A +G QTR + K G+ Sbjct: 63 FQWENTKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALRKMGIP 122 Query: 124 PLVVINKIDRPEARPDEVVDEVLDLF---------IELGADEHQINFPVL-----YASAK 169 + INKID+ V ++ + +EL + NF Sbjct: 123 TIFFINKIDQNGIDLSTVYQDIKEKLSAEIVIKQKVELYPNMCVTNFTESEQWDTVIEGN 182 Query: 170 DGIAKKYVEDESTNMK------------------------------PLFDGILEHIPCPE 199 D + +KY+ +S L + I Sbjct: 183 DDLLEKYMSGKSLEALELEQEESIRFHNCSLFPVYHGSAKNNIGIDNLIEVITNKFYSST 242 Query: 200 GDENDSLQLLISNIDYNKYIGRVGIGKIQRGSIKKGQMAVLVDADSKEINVKITNLYHYQ 259 L + I+Y++ R+ ++ G + +V + K +KIT +Y Sbjct: 243 HRGQSELCGKVFKIEYSEKRQRLAYIRLYSGVLHLRD-SVRISEKEK---IKITEMYTSI 298 Query: 260 GLNRVETDQAHIGEIVAISG-IEKIN--IGDTVCGTEKVEALETIKVDAPTISMNFMVND 316 + D+A+ GEIV + K+N +GDT ++ E I+ P + + Sbjct: 299 NGELCKIDKAYSGEIVILQNEFLKLNSVLGDTKLLPQR----ERIENPLPLLQTTVEPSK 354 Query: 317 SPLSGREGDFVTSRHLKERLEREMLSNVAMKLEE--------ISADSHKI--LGRGELHI 366 +REML + +++ + + + +H+I G++ + Sbjct: 355 PQ------------------QREMLLDALLEISDSDPLLRYYVDSATHEIILSFLGKVQM 396 Query: 367 SILIETMRRE-GYEFAVSRPEVITKRT 392 + ++ + E + P VI Sbjct: 397 EVTCALLQEKYHVEIEIKEPTVIYMER 423 Score = 46.4 bits (110), Expect = 2e-07 Identities = 23/89 (25%), Positives = 34/89 (38%), Gaps = 1/89 (1%) Query: 396 LFEPIERLYVEVPEESMSSVIEKLGQRKAEMVNMVPTGTGVMKLEFRIPARGLIGYRSEF 455 L EP + P+E +S + A +V+ + L IPAR + YRS+ Sbjct: 535 LLEPYLSFKIYAPQEYLSRAYTDAPKYCANIVDTQ-LKNNEVILSGEIPARCIQEYRSDL 593 Query: 456 LTDTKGYGLFHHLFDGYDKHKGEIRSRTR 484 T G + GY GE + R Sbjct: 594 TFFTNGRSVCLTELKGYHVTTGEPVCQPR 622
>cloacin#Cloacin signature. Length = 551 Score = 33.1 bits (75), Expect = 0.005 Identities = 33/169 (19%), Positives = 61/169 (36%), Gaps = 22/169 (13%) Query: 500 PDGLVQRA----KRFLSQDTIHFEDLLQ-NIEKNRRESEIERQEAKRIRLEAEKFAEGYE 554 PD + QR +R D H + + N E+ R E ++ R + K + Y Sbjct: 293 PDQVKQRQDEENRRQQEWDATHPVEAAERNYERARAELNQANEDVARNQERQAKAVQVYN 352 Query: 555 DRKQRLEAQRDQILRDAKKE--------------AYRLVKEAKMDSEHIIKGLREMKFEL 600 RK L+A ++ L DA E +R+ + A + ++ + + Sbjct: 353 SRKSELDAA-NKTLADAIAEIKQFNRFAHDPMAGGHRMWQMAGLKAQRAQTDVNNKQAAF 411 Query: 601 EAKEMNKKMEDAKNQLTGKMNDLSDHHQQILNKKNKKPPKNLKPGDAVR 649 +A K+ DA L+ M + + +N + KP + Sbjct: 412 DA--AAKEKSDADAALSSAMESRKKKEDKKRSAENNLNDEKNKPRKGFK 458
>PF01540#Adhesin lipoprotein Length = 475 Score = 30.1 bits (67), Expect = 0.045 Identities = 63/324 (19%), Positives = 135/324 (41%), Gaps = 40/324 (12%) Query: 49 RVSTGVEQVENTMVQMLDIIKEIAEEAEKQSFYLEKSIEIVNESAAFSQQVAVSTSQAGE 108 ++S VE ++ ++ K+IA+E K ++ +++ + +F+ +A++ + + Sbjct: 94 KLSAAVENAKSEQQKVDQANKKIADENLKIKEGAKELLKLSEKIQSFADTIALTIT---K 150 Query: 109 ISTNALATAQKGKKAVDSTIECMHTIKDSVDNVQNV--------VIELES----RSKKIE 156 + + KK + STIE ++ V V + ELES + +E Sbjct: 151 LEGKKFQIDETFKKQLISTIELLNKKSAEVKTFATVNTIKKDFLLSELESFKEFNTSWLE 210 Query: 157 NIVGTIKEIAKQ-TNLLALNAAIEAARAGEHGRGFAVVAGEVKKLAEKSASSSEEISTII 215 IV +E+ K + LA A + + E + A E+ KL+EK S ++ I+ I Sbjct: 211 KIVSEWEEVKKAWSKELAEIKAEDDKKLAEENQKIKEGAKELLKLSEKIQSFADTIALTI 270 Query: 216 LEIQGK-------------TMESINAMKASSHVVVQGVDIAKETEKTIEEIVSAVDVSHT 262 +++ K T+E +N K S V + + + E+ S + + Sbjct: 271 TKLERKFQIDEKFKKQLISTIELLN--KKSVEVKTFATVNTIKKDFLLSELESFKEFN-- 326 Query: 263 VTSEINEASHKQADNIEFLIQTIDDMEKAAHRVLNLTETATMDTQYQKSSVRYLKSLTQQ 322 TS + + + + + + + +++ + L + Q K+ V LK + + Sbjct: 327 -TSWLEKIVSEWEEVKKAWSKELAEIKAEDDKKL------AEENQKIKNGVEELKKINNE 379 Query: 323 LNEISQRGIETIANFTKGIEAEAT 346 E+S+ +TIA K + + + Sbjct: 380 AFELSKTVNKTIAELEKKFKIDVS 403
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 57.7 bits (139), Expect = 2e-12 Identities = 17/55 (30%), Positives = 32/55 (58%) Query: 21 ILEISESILLRYGYSKSTIDEIASVAKLGKGTIYLHWKSKDELFQALFHKISAEI 75 IL+++ + + G S +++ EIA A + +G IY H+K K +LF ++ + I Sbjct: 16 ILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWELSESNI 70
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 68.5 bits (167), Expect = 1e-16 Identities = 32/168 (19%), Positives = 74/168 (44%), Gaps = 10/168 (5%) Query: 1 MNRRERKKEETKSKLIREAMDLFKKKDFKNTTMEEIAEIADVSKGTLYNYFQDKESILSA 60 + +++ +ET+ ++ A+ LF ++ +T++ EIA+ A V++G +Y +F+DK + S Sbjct: 2 ARKTKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSE 61 Query: 61 YFQLLIQEKRLDIMEALEAQKTIEAKLDILLDINMKML-----GDDLELLIIYFKHRLHT 115 ++ + E + +E K L +L +I + +L + LL+ H+ Sbjct: 62 IWE--LSESNIGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEF 119 Query: 116 FFDNNPMDTPQHSVKEQ---LLLGIISKAQENKEIRDDIPAFVIAKTF 160 + + Q ++ + + + E K + D+ A Sbjct: 120 VGEMAVVQQAQRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIM 167
>PHPHTRNFRASE#Phosphoenolpyruvate-protein phosphotransferase signature. Length = 572 Score = 70.6 bits (173), Expect = 1e-14 Identities = 25/86 (29%), Positives = 40/86 (46%), Gaps = 2/86 (2%) Query: 777 VHDPRNAVLKKGEILVTHSTDPTWTPLFIS--AGALVMETGGPISHGGIVAREYGIPAVS 834 V A + + +++ P+ T + GG SH I++R IPAV Sbjct: 145 VETGSLATIAEETVIIAEDLTPSDTAQLNKQFVKGFATDIGGRTSHSAIMSRSLEIPAVV 204 Query: 835 GIEELNKKLSTGDEVTVNGNSGEVIL 860 G +E+ +K+ GD V V+G G VI+ Sbjct: 205 GTKEVTEKIQHGDMVIVDGIEGIVIV 230
>BLACTAMASEA#Beta-lactamase class A signature. Length = 286 Score = 71.4 bits (175), Expect = 7e-16 Identities = 41/206 (19%), Positives = 87/206 (42%), Gaps = 4/206 (1%) Query: 4 EQILEVLMETEAQVSVSIKDMSRNQWVIRLNDTHKMPSASIIKLLIMIEAFCQVEEKKFQ 63 EQI + +V + D++ + + + P S K+++ +V+ Q Sbjct: 27 EQIKLSESQLSGRVGMIEMDLASGRTLTAWRADERFPMMSTFKVVLCGAVLARVDAGDEQ 86 Query: 64 LNQSLTIPKQDQIPHS-MTTDLEENTFQFVDLVQLMITVSDNTATNVLIDLL-GFENINQ 121 L + + +QD + +S ++ + +L IT+SDN+A N+L+ + G + Sbjct: 87 LERKIHYRQQDLVDYSPVSEKHLADGMTVGELCAAAITMSDNSAANLLLATVGGPAGLTA 146 Query: 122 RAEKLGLKETVLSRKMLDFKAAKEGRQNLTHGEDAI-RMMELIVTEQAASPPMCRRMMDI 180 ++G T L R + A G T ++ + ++T Q S R+++ Sbjct: 147 FLRQIGDNVTRLDRWETELNEALPGDARDTTTPASMAATLRKLLTSQRLSARSQRQLLQW 206 Query: 181 LF-NQQDREMLRRFIPKKVKVAHKTG 205 + ++ ++R +P +A KTG Sbjct: 207 MVDDRVAGPLIRSVLPAGWFIADKTG 232
>UREASE#Urea amidohydrolase (urease) protein signature. Length = 570 Score = 39.7 bits (93), Expect = 2e-05 Identities = 32/140 (22%), Positives = 52/140 (37%), Gaps = 40/140 (28%) Query: 6 INNGWVIDPANGIFSQLNILIEDGKIQEI--SSSPFSVE----------QEIDAKGLYVC 53 I N ++D GI + +I ++DG+I I + +P + I +G V Sbjct: 72 ITNALILD-HWGIV-KADIGLKDGRIAAIGKAGNPDMQPGVTIIVGPGTEVIAGEGKIVT 129 Query: 54 PGFVDIHMHEDPYDEEQDTFQTDTFQSMLRMGVTTAIGGNCGTGPED-------IPG--- 103 G +D H+H + L G+T +GG GTGP PG Sbjct: 130 AGGMDSHIH---------FICPQQIEEALMSGLTCMLGG--GTGPAHGTLATTCTPGPWH 178 Query: 104 ---YLDAVERQGLPVNFGML 120 ++A + P+N Sbjct: 179 IARMIEAAD--AFPMNLAFA 196
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 82.2 bits (203), Expect = 2e-18 Identities = 29/114 (25%), Positives = 55/114 (48%), Gaps = 3/114 (2%) Query: 655 ILCVEDNIMNQEVMESIVTKKGYQYLAAYNAKEALDILENKKVHLILMDIQLPDLNGFEI 714 IL +D+ + V+ +++ GY NA + L++ D+ +PD N F++ Sbjct: 6 ILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFDL 65 Query: 715 TKSIRMAKGPMKDVPIIAVTAYVDHKIENKCIQAGINDYMPKPLDLEKLYEMLE 768 I+ A+ D+P++ ++A K + G DY+PKP DL +L ++ Sbjct: 66 LPRIKKAR---PDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIG 116
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 66.6 bits (162), Expect = 7e-16 Identities = 16/72 (22%), Positives = 36/72 (50%) Query: 4 DKSQTNNEIIRVSFILFLEKGYEATSIRDICKEVNIKPASLYFYYKSKEALFLSIYDDIW 63 + +T I+ V+ LF ++G +TS+ +I K + ++Y+++K K LF I++ Sbjct: 8 EAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWELSE 67 Query: 64 HEKIKYIEDIEE 75 + + + Sbjct: 68 SNIGELELEYQA 79
>BLACTAMASEA#Beta-lactamase class A signature. Length = 286 Score = 42.5 bits (100), Expect = 2e-06 Identities = 27/108 (25%), Positives = 41/108 (37%), Gaps = 12/108 (11%) Query: 38 VLLDFQTGEVLYDKNAHEITYPASTTKALTAILVL-----ENLELDEVITVEEDMFVGGS 92 + +D +G L A E ST K + VL + +L+ I + V S Sbjct: 43 IEMDLASGRTLTAWRADERFPMMSTFKVVLCGAVLARVDAGDEQLERKIHYRQQDLVDYS 102 Query: 93 GM---YLLKGEAFTVNELLHVLMIRSANDVAELLATHISG--SVEAFA 135 + +L + TV EL + S N A LL + G + AF Sbjct: 103 PVSEKHL--ADGMTVGELCAAAITMSDNSAANLLLATVGGPAGLTAFL 148
>TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family signature. Length = 639 Score = 66.0 bits (161), Expect = 2e-13 Identities = 41/131 (31%), Positives = 63/131 (48%), Gaps = 17/131 (12%) Query: 1 MENIVIGTAGHIDHGKTTLIKAL---TGR------------ETDRLKEEKKRGISIELGF 45 M+ I IG H+D GKTTL ++L +G TD E++RGI+I+ G Sbjct: 1 MKIINIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGI 60 Query: 46 TYFDLPSGKRAGIIDVPGHEKFIRNMLAGVGGMDIVLLVVAADEGVMPQTKEHLDIISVL 105 T F + IID PGH F+ + + +D +L+++A +GV QT+ + + Sbjct: 61 TSFQW-ENTKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALRKM 119 Query: 106 NIKKGIIVITK 116 I I I K Sbjct: 120 GIPT-IFFINK 129
>PF06580#Sensor histidine kinase Length = 349 Score = 40.2 bits (94), Expect = 2e-05 Identities = 15/65 (23%), Positives = 23/65 (35%), Gaps = 10/65 (15%) Query: 419 LIRNSIDHGIEDPEYRMDIGKSKSGTVKLIAYPDGNSVVIEITDDGQGVNILKVKEKAVE 478 L+ N I HGI + G + L D +V +E+ + G + Sbjct: 263 LVENGIKHGIA--------QLPQGGKILLKGTKDNGTVTLEVENTGSLALKNTKESTGT- 313 Query: 479 RGLVN 483 GL N Sbjct: 314 -GLQN 317
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 64.5 bits (157), Expect = 2e-13 Identities = 34/149 (22%), Positives = 61/149 (40%), Gaps = 16/149 (10%) Query: 5 KINVLVVDDSAFMRKMITDILNADPKITVVGSARNGSEVVKKILELKPDVVTLDIEMPIC 64 +LV DD A +R ++ L+ V N + + + I D+V D+ MP Sbjct: 3 GATILVADDDAAIRTVLNQALS-RAGYDVR-ITSNAATLWRWIAAGDGDLVVTDVVMPDE 60 Query: 65 DGIEALRLIMEKCP-LPVIMLSSLTSEGGEATISALELGAIDFIQKPTSLFKINGDTLKD 123 + + L I + P LPV+++S+ + I A E GA D++ KP L Sbjct: 61 NAFDLLPRIKKARPDLPVLVMSAQNTF--MTAIKASEKGAYDYLPKPFDL---------T 109 Query: 124 EMISKVKEAVKAKITQSNLKEVRAEKTSF 152 E+I + A+ + ++ + Sbjct: 110 ELIGIIGRALAE--PKRRPSKLEDDSQDG 136
>TYPE3IMSPROT#Type III secretion system inner membrane S protein family signature. Length = 354 Score = 345 bits (887), Expect = e-120 Identities = 117/348 (33%), Positives = 196/348 (56%), Gaps = 4/348 (1%) Query: 11 TEEKTERPTPKKRKDSREKGQVLQSKELNSAFLLIGAFVILGLFSSYIGMTMKSFTRSIY 70 + EKTE+PTPKK +D+R+KGQV +SKE+ S L++ +L S Y + Sbjct: 2 SGEKTEQPTPKKIRDARKKGQVAKSKEVVSTALIVALSAMLMGLSDYYFEHF----SKLM 57 Query: 71 VEYLNTDYLFSIQNLYRLLVYSLYNLLKIIAPISIASLLIGLAVSYLQVGYLFTTKTLAF 130 + YL Q L ++ L + P+ + L+ +A +Q G+L + + + Sbjct: 58 LIPAEQSYLPFSQALSYVVDNVLLEFFYLCFPLLTVAALMAIASHVVQYGFLISGEAIKP 117 Query: 131 KLSKLNPIEGFKKIFSLKAIVELAKSFIKIGLVGYIVFQYAQGQLETIFNTMAMDMDGII 190 + K+NPIEG K+IFS+K++VE KS +K+ L+ +++ +G L T+ ++ I Sbjct: 118 DIKKINPIEGAKRIFSIKSLVEFLKSILKVVLLSILIWIIIKGNLVTLLQLPTCGIECIT 177 Query: 191 QVLIYILVNIGIRAGVVLLVLAGFDYLYQKYEYDKNLKMTKQETKEEYKQSEGNPQIKSK 250 +L IL + + V +V++ DY ++ Y+Y K LKM+K E K EYK+ EG+P+IKSK Sbjct: 178 PLLGQILRQLMVICTVGFVVISIADYAFEYYQYIKELKMSKDEIKREYKEMEGSPEIKSK 237 Query: 251 IKEKQRQMSTKRMMQEVPKADVIITNPTHFAIAIQYNPDDFQAPRVIAKGQDILAQSIKK 310 ++ +++ ++ M + V ++ V++ NPTH AI I Y + P V K D Q+++K Sbjct: 238 RRQFHQEIQSRNMRENVKRSSVVVANPTHIAIGILYKRGETPLPLVTFKYTDAQVQTVRK 297 Query: 311 VGLENDVPIVENKPLARSLYDTVEIGAFIPTELYQAVAEILAYVYRIN 358 + E VPI++ PLAR+LY + +IP E +A AE+L ++ R N Sbjct: 298 IAEEEGVPILQRIPLARALYWDALVDHYIPAEQIEATAEVLRWLERQN 345
>TYPE3IMRPROT#Type III secretion system inner membrane R protein family signature. Length = 261 Score = 129 bits (325), Expect = 2e-38 Identities = 70/254 (27%), Positives = 128/254 (50%), Gaps = 3/254 (1%) Query: 7 QILSNIDIFILLIVRISGIFIIAPIFSRNNIPMMSKIIFSVFLALIILPLVTISEDFAAN 66 Q LS ++++ ++R+ + API S ++P K+ ++ + I P + + Sbjct: 8 QWLSWLNLYFWPLLRVLALISTAPILSERSVPKRVKLGLAMMITFAIAPSLPA--NDVPV 65 Query: 67 TFFALMVYAIQEFALGITIGFIGSIYFSTFYLAGMIVDTQIGFGMVNVFDPQMNTQLPIM 126 F + A+Q+ +GI +GF F+ AG I+ Q+G DP + +P++ Sbjct: 66 FSFFALWLAVQQILIGIALGFTMQFAFAAVRTAGEIIGLQMGLSFATFVDPASHLNMPVL 125 Query: 127 GNVYNLLISLVFLAVNGHHLLIKAMFDSYDVLPIGFQFQVSEALIMHLTIIFMEIFMMAF 186 + ++L L+FL NGH LI + D++ LPIG ++ + LT IF+ Sbjct: 126 ARIMDMLALLLFLTFNGHLWLISLLVDTFHTLPIG-GEPLNSNAFLALTKAGSLIFLNGL 184 Query: 187 KLSAPILATIFLANVLLGILARTMPQMNVFIVGMPLKIIVGLVTIMIALPFLVPFGNALF 246 L+ P++ + N+ LG+L R PQ+++F++G PL + VG+ + +P + PF LF Sbjct: 185 MLALPLITLLLTLNLALGLLNRMAPQLSIFVIGFPLTLTVGISLMAALMPLIAPFCEHLF 244 Query: 247 EKMFTSIDHIIELL 260 ++F + II L Sbjct: 245 SEIFNLLADIISEL 258
>TYPE3IMQPROT#Type III secretion system inner membrane Q protein family signature. Length = 86 Score = 60.9 bits (148), Expect = 3e-16 Identities = 18/76 (23%), Positives = 40/76 (52%) Query: 6 VIELGQQTMFTILTMSAPMLGFGLLVGLAVSIFQATTQIQEATLAFIPKIIAVLGSVVIF 65 ++ G + ++ +L +S ++GL V +FQ TQ+QE TL F K++ V + + Sbjct: 4 LVFAGNKALYLVLILSGWPTIVATIIGLLVGLFQTVTQLQEQTLPFGIKLLGVCLCLFLL 63 Query: 66 GPWLLSIIINFTLRLF 81 W +++++ ++ Sbjct: 64 SGWYGEVLLSYGRQVI 79
>FLGBIOSNFLIP#Escherichia coli: Flagellar biosynthetic protein FliP signature. Length = 245 Score = 248 bits (635), Expect = 4e-85 Identities = 117/246 (47%), Positives = 167/246 (67%), Gaps = 6/246 (2%) Query: 21 VLMISLFIIVMMTSSTQAQPNTFPIPSIGINVEEADNPQEVAASLQILFLLTILSIAPAI 80 +L ++ ++ ++T AQ +P I + Q + +Q L +T L+ PAI Sbjct: 4 LLSVAPVLLWLITPLAFAQ-----LPGI-TSQPLPGGGQSWSLPVQTLVFITSLTFIPAI 57 Query: 81 LIMMTSFTRIVIVLSFLRNAIATQQTPPTQIIIGLALFLTFFTMAPIATDINTNALQPYL 140 L+MMTSFTRI+IV LRNA+ T PP Q+++GLALFLTFF M+P+ I +A QP+ Sbjct: 58 LLMMTSFTRIIIVFGLLRNALGTPSAPPNQVLLGLALFLTFFIMSPVIDKIYVDAYQPFS 117 Query: 141 AEELGQEEALERAMEPIREFMFRQTREKDLALFIEVSNSEMPTEVADIATSTLIPAFIIS 200 E++ +EALE+ +P+REFM RQTRE DL LF ++N+ + L+PA++ S Sbjct: 118 EEKISMQEALEKGAQPLREFMLRQTREADLGLFARLANTGPLQGPEAVPMRILLPAYVTS 177 Query: 201 ELKTAFQMGFILFIPFIVIDMVVASTLMAMGMMMLPPAMISLPFKLLLFIMVDGWNILVR 260 ELKTAFQ+GF +FIPF++ID+V+AS LMA+GMMM+PPA I+LPFKL+LF++VDGW +LV Sbjct: 178 ELKTAFQIGFTIFIPFLIIDLVIASVLMALGMMMVPPATIALPFKLMLFVLVDGWQLLVG 237 Query: 261 ALIMSF 266 +L SF Sbjct: 238 SLAQSF 243
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 96.4 bits (240), Expect = 9e-27 Identities = 32/117 (27%), Positives = 56/117 (47%), Gaps = 1/117 (0%) Query: 4 RVLIVDDAAFMRMMVKDVLTKNGYEVVGEAENGLKAVEKFKELDPTLTIMDITMPEMDGI 63 +L+ DD A +R ++ L++ GY+V N D L + D+ MP+ + Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRI-TSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63 Query: 64 QAVKEIKKIDPNAKVIMCSAMGQQSMVIEAIQAGAKDFIVKPFQADRVIQAVKKAIG 120 + IKK P+ V++ SA I+A + GA D++ KPF +I + +A+ Sbjct: 64 DLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALA 120
>FLGMOTORFLIN#Flagellar motor switch protein FliN signature. Length = 137 Score = 109 bits (275), Expect = 3e-31 Identities = 44/97 (45%), Positives = 67/97 (69%) Query: 297 FQSFDQQSNRGLPENIALIQDVPLSVTVELGRTVKKISEVLEFGPGTIIELEKVVGEPLD 356 FQ G ++I LI D+P+ +TVELGRT I E+L G+++ L+ + GEPLD Sbjct: 39 FQQLGGGDVSGAMQDIDLIMDIPVKLTVELGRTRMTIKELLRLTQGSVVALDGLAGEPLD 98 Query: 357 ILVNGQYVAKGEVVVIDENYGIRITDIVAPAKRLSKI 393 IL+NG +A+GEVVV+ + YG+RITDI+ P++R+ ++ Sbjct: 99 ILINGYLIAQGEVVVVADKYGVRITDIITPSERMRRL 135
>FLGMOTORFLIM#Flagellar motor switch protein FliM signature. Length = 344 Score = 292 bits (749), Expect = e-100 Identities = 123/321 (38%), Positives = 213/321 (66%), Gaps = 1/321 (0%) Query: 1 MSDVLSQNEIDDLLQALNSGEVEIEEMKDEKIEKKIKSYDFKSPKKLAKDQLRTLQIIHD 60 M++VLSQ+EID LL A++SG+ IE+ + +KI YDF+ P K +K+Q+RTL ++H+ Sbjct: 1 MTEVLSQDEIDQLLTAISSGDASIEDARPISDTRKITLYDFRRPDKFSKEQMRTLSLMHE 60 Query: 61 NFSRMLNTFLAGYLRTYVQADVLTVEELSYYEFSNSVVNPAVLSIINFTPLEGQIIVDIS 120 F+R+ T L+ LR+ V V +V++L+Y EF S+ P+ L++I PL+G ++++ Sbjct: 61 TFARLTTTSLSAQLRSMVHVHVASVDQLTYEEFIRSIPTPSTLAVITMDPLKGNAVLEVD 120 Query: 121 PSISFTLIERILGGVGKGTEEVRPFTEIETTLIKKLMRQVINLMVDPWENVIELQPKLDK 180 PSI+F++I+R+ GG G+ + R T+IE ++++ ++ +++ + + W VI+L+P+L + Sbjct: 121 PSITFSIIDRLFGGTGQAAKVQRDLTDIENSVMEGVIVRILANVRESWTQVIDLRPRLGQ 180 Query: 181 IETNSQFAQIVSPNDTVALVTLNLKIGDVEGMMNICIPHIVIEPILDKLSTKLWFSNISK 240 IETN QFAQIV P++ V LVTL K+G+ EGMMN CIP+I IEPI+ KLS++ WFS++ + Sbjct: 181 IETNPQFAQIVPPSEMVVLVTLETKVGEEEGMMNFCIPYITIEPIISKLSSQFWFSSVRR 240 Query: 241 PVTESDKKALQKRVEKSTVNITAQLGGTCVTVKDFLELQIGDVIML-DNPVNKELQILVG 299 T L+ ++ +++ A++G ++V+D L L++GD+I L D V + +G Sbjct: 241 SSTTQYMGVLRDKLSTVDMDVVAEVGSLRLSVRDILGLRVGDIIRLHDTHVGDPFVLSIG 300 Query: 300 DKIRYRGLPGTSKNKLAVKVT 320 ++ ++ PG K+A ++ Sbjct: 301 NRKKFLCQPGVVGKKIAAQIL 321
>OMPADOMAIN#OMPA domain signature. Length = 346 Score = 80.0 bits (197), Expect = 1e-19 Identities = 35/126 (27%), Positives = 56/126 (44%), Gaps = 15/126 (11%) Query: 117 LRFHDNILFDSGRAELKSRPMEILKDLAGFLDGEEFQNKHIRVEGHTDTDPLRVTSKYET 176 ++LF+ +A LK L L L + ++ + V G+TD + Y Sbjct: 215 FTLKSDVLFNFNKATLKPEGQAALDQLYSQLSNLDPKDGSVVVLGYTDR---IGSDAY-- 269 Query: 177 NWELSVARASNVVRFLIEDAGVTPERFSAAGYGEYRPLAANDT---------IENKAINR 227 N LS RA +VV +LI G+ ++ SA G GE P+ N I+ A +R Sbjct: 270 NQGLSERRAQSVVDYLISK-GIPADKISARGMGESNPVTGNTCDNVKQRAALIDCLAPDR 328 Query: 228 RVDVVI 233 RV++ + Sbjct: 329 RVEIEV 334
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 47.6 bits (113), Expect = 7e-08 Identities = 10/43 (23%), Positives = 27/43 (62%) Query: 398 LEMSNVDLSREFTNMITTQRGFQANSRIITTSDEMLQEVVNMK 440 +S V+L E+ N+ Q+ + AN++++ T++ + ++N++ Sbjct: 504 QSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALINIR 546 Score = 45.3 bits (107), Expect = 3e-07 Identities = 21/73 (28%), Positives = 30/73 (41%), Gaps = 13/73 (17%) Query: 4 SMFSAVSGLQAHQLRMDAIGNNIANVNTVGYKGTRVTFQEVFSQTIRGAGAPQGGRGGTN 63 + +A+SGL A Q ++ NNI++ N GY I G GG Sbjct: 3 LINNAMSGLNAAQAALNTASNNISSYNVAGYTRQTT---------IMAQANSTLGAGGW- 52 Query: 64 PQQVGLGVNVASM 76 VG GV V+ + Sbjct: 53 ---VGNGVYVSGV 62
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 60.6 bits (147), Expect = 2e-12 Identities = 32/113 (28%), Positives = 50/113 (44%), Gaps = 13/113 (11%) Query: 177 ILIAEDSQMLAKILEECLKEAGYDDLTITSNGKEAWDILQEVENRQDKKPYEIFSCVITD 236 IL+A+D + +L + L AGYD TSN W + + V+TD Sbjct: 6 ILVADDDAAIRTVLNQALSRAGYDVRI-TSNAATLWRWIAAGD----------GDLVVTD 54 Query: 237 IEMPQMDGHHLIKCIKEDAILKDLPVVIFSSLISEQIMEKGKKLGANAQISKP 289 + MP + L+ IK+ DLPV++ S+ + K + GA + KP Sbjct: 55 VVMPDENAFDLLPRIKK--ARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKP 105
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 72.2 bits (177), Expect = 1e-16 Identities = 23/125 (18%), Positives = 54/125 (43%), Gaps = 1/125 (0%) Query: 10 IKVLYVEDEPITRNQVSKILKKSVGKLITAENGKEGIEKFFEYQPDIIITDLIMGDISGI 69 +L +D+ R +++ L ++ + N D+++TD++M D + Sbjct: 4 ATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63 Query: 70 EMMEKLRAEGIRCPFIITSAISDSQTILETVELKIEKYLIKPIDVGILIENLTQIAIELL 129 +++ +++ P ++ SA + T ++ E YL KP D+ LI + A+ Sbjct: 64 DLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIG-IIGRALAEP 122 Query: 130 EKTED 134 ++ Sbjct: 123 KRRPS 127
>TYPE4SSCAGX#Type IV secretion system CagX conjugation protein signature. Length = 522 Score = 29.8 bits (66), Expect = 0.018 Identities = 17/44 (38%), Positives = 28/44 (63%), Gaps = 2/44 (4%) Query: 76 SELINQENESEVAKEMTEERNDVQHENQASKREQNEEIKEKRHE 119 SELI Q+ E+E+ + E D+Q + QA+ +Q EE+ +K+ E Sbjct: 200 SELIKQQRENEL--DQMERLEDMQEQAQANALKQIEELNKKQAE 241
>OMADHESIN#Yersinia outer membrane adhesin signature. Length = 455 Score = 31.0 bits (69), Expect = 0.010 Identities = 26/88 (29%), Positives = 40/88 (45%), Gaps = 6/88 (6%) Query: 266 TNNTAFGRHVYAIGGNKEAAKLSGINIRQRTLWIFISSGILGALGGIIFTARVGSAAASA 325 N +A G H AIG EAAK + + + ++ ++S +G L + + V AAS Sbjct: 63 LNASAKGIHSIAIGATAEAAKGAAVAVGAGSIATGVNSVAIGPLSKALGDSAVTYGAAST 122 Query: 326 GQSMELDVIAAAIIGGTSTLGGEGTIVG 353 Q D +A IG ++ G VG Sbjct: 123 AQK---DGVA---IGARASTSDTGVAVG 144
>LPSBIOSNTHSS#Lipopolysaccharide core biosynthesis protein signature. Length = 166 Score = 29.0 bits (65), Expect = 0.017 Identities = 15/66 (22%), Positives = 29/66 (43%), Gaps = 6/66 (9%) Query: 71 YAAEVGIELIVR----VSDANIQEQITQVEALLNQGIDVLILAPHD--ASAAASLVEQAN 124 YA + I+R +SD ++ Q+ L ++ + L + ++SLV++ Sbjct: 75 YARQRQAGAILRGLRVLSDFELELQMANTNKTLASDLETVFLTTSTEYSFLSSSLVKEVA 134 Query: 125 REGVPV 130 R G V Sbjct: 135 RFGGNV 140
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 81.4 bits (201), Expect = 2e-18 Identities = 29/113 (25%), Positives = 55/113 (48%), Gaps = 3/113 (2%) Query: 3 KILIADDEHIVIESLQFIIEKYIENVEIVGSAKSGREAIEKALITSPDIILMDIHMPGIN 62 IL+ADD+ + L + + +V I +A + I D+++ D+ MP N Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAG---DGDLVVTDVVMPDEN 61 Query: 63 GIEAIKQIKENNVDAMFVIITAYEYFQYAKEAVNLGVYEYLLKPLNKNKVINL 115 + + +IK+ D ++++A F A +A G Y+YL KP + ++I + Sbjct: 62 AFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGI 114
>PF06580#Sensor histidine kinase Length = 349 Score = 207 bits (528), Expect = 1e-64 Identities = 64/228 (28%), Positives = 122/228 (53%), Gaps = 21/228 (9%) Query: 268 ETKLKEQEMENLKVKSLLKDAELKSLQSQINPHFLFNTLNAASQLSMMEGADNASEFIES 327 K+ E++ K+ S+ ++A+L +L++QINPHF+FN LN L ++E A E + S Sbjct: 141 FKNYKQAEIDQWKMASMAQEAQLMALKAQINPHFMFNALNNIRAL-ILEDPTKAREMLTS 199 Query: 328 IAKLFRYNLRKLEEP-VNISEEINYVRNYMHILKTRFGSRIAFCTEIDESVLEIKMPCMI 386 +++L RY+LR V++++E+ V +Y+ + +F R+ F +I+ +++++++P M+ Sbjct: 200 LSELMRYSLRYSNARQVSLADELTVVDSYLQLASIQFEDRLQFENQINPAIMDVQVPPML 259 Query: 387 IQPIVENAFIHGLENQEEEGKISLVVKHVEGEIQIKVIDDGTGMTEKQIENLLSLEPTGP 446 +Q +VEN HG+ + GKI L G + ++V + G+ + E+ Sbjct: 260 VQTLVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSLALKNTKES--------- 310 Query: 447 IVKGHTTGIGIHNVIDRLRLYYNISDIENVIDIESEKGVGTTVTLKIP 494 TG G+ NV +RL++ Y E I + ++G + IP Sbjct: 311 ------TGTGLQNVRERLQMLY---GTEAQIKLSEKQG-KVNAMVLIP 348
>SYCDCHAPRONE#Gram-negative bacterial type III secretion SycD chaperone signature. Length = 168 Score = 37.6 bits (87), Expect = 2e-05 Identities = 21/117 (17%), Positives = 44/117 (37%), Gaps = 2/117 (1%) Query: 63 EVLQINPKEARGYYSLAILYDQQKDYDTAIYYYKKAIEMDPYYEKAYFFLANVYDELEEK 122 + +I+ YSLA Q Y+ A ++ +D Y + + L + + Sbjct: 27 MLNEISSDTLEQLYSLAFNQYQSGKYEDAHKVFQALCVLDHYDSRFFLGLGACRQAMGQY 86 Query: 123 EKAIEYYQKSISLNTEDFWAYVNLGSIYEELDKNGQALIMMEKALEI--DPTNYKAL 177 + AI Y ++ ++ + + + +A + A E+ D T +K L Sbjct: 87 DLAIHSYSYGAIMDIKEPRFPFHAAECLLQKGELAEAESGLFLAQELIADKTEFKEL 143 Score = 32.6 bits (74), Expect = 9e-04 Identities = 14/94 (14%), Positives = 37/94 (39%), Gaps = 7/94 (7%) Query: 101 MDPYYEKAY-FFLANVYDELEEKEKAIEYYQKSISLNTEDFWAYVNLGSIYEELDKNGQA 159 ++ Y A+ + + Y++ A + +Q L+ D ++ LG+ + + + A Sbjct: 36 LEQLYSLAFNQYQSGKYED------AHKVFQALCVLDHYDSRFFLGLGACRQAMGQYDLA 89 Query: 160 LIMMEKALEIDPTNYKALFNMGVILKKLERVEES 193 + +D + F+ L + + E+ Sbjct: 90 IHSYSYGAIMDIKEPRFPFHAAECLLQKGELAEA 123 Score = 31.8 bits (72), Expect = 0.001 Identities = 20/100 (20%), Positives = 37/100 (37%) Query: 36 EDIELLLSMGLLYDELEDYPLAKKKYEEVLQINPKEARGYYSLAILYDQQKDYDTAIYYY 95 + +E L S+ + Y A K ++ + ++ ++R + L YD AI+ Y Sbjct: 34 DTLEQLYSLAFNQYQSGKYEDAHKVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSY 93 Query: 96 KKAIEMDPYYEKAYFFLANVYDELEEKEKAIEYYQKSISL 135 MD + F A + E +A + L Sbjct: 94 SYGAIMDIKEPRFPFHAAECLLQKGELAEAESGLFLAQEL 133
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 31.7 bits (72), Expect = 0.010 Identities = 12/42 (28%), Positives = 23/42 (54%), Gaps = 2/42 (4%) Query: 161 IIGRHREIDRVVQILNRRAKNN-PILI-GEPGVGKTAIAEGL 200 ++GR + + ++L R + + ++I GE G GK +A L Sbjct: 139 LVGRSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVARAL 180
>cloacin#Cloacin signature. Length = 551 Score = 34.3 bits (78), Expect = 5e-04 Identities = 23/61 (37%), Positives = 25/61 (40%), Gaps = 4/61 (6%) Query: 240 GPTGGGPHQMGGNFVGRSRRGRYPRGP---RGPFGGGSSSGGSSIGRGGFGGGSSGGGGA 296 GPTG G + G S P G G GG S G+ G G GGGS GG Sbjct: 23 GPTGLGVGGGASDGSGWSSENN-PWGGGSGSGIHWGGGSGHGNGGGNGNSGGGSGTGGNL 81 Query: 297 S 297 S Sbjct: 82 S 82
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 553 bits (1427), Expect = 0.0 Identities = 187/476 (39%), Positives = 280/476 (58%), Gaps = 36/476 (7%) Query: 3 KILIVDDEKNMRWAMKKALKTEDYQVFEAANGQEGVEKFQELQPDLVLLDLKMPVMDGLE 62 IL+ DD+ +R + +AL Y V +N DLV+ D+ MP + + Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64 Query: 63 ALQKMKGIDEHIPVIMITAHGTTESAVEAMKLGAIDYISKPFDIEELKIVIHKALQVKGL 122 L ++K +PV++++A T +A++A + GA DY+ KPFD+ EL +I +AL Sbjct: 65 LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKR 124 Query: 123 QDKVDYLKEELQSQTGKTIIGKSEKMEAILNIVDRVAQTNATILILGESGTGKEVIANAI 182 + K E SQ G ++G+S M+ I ++ R+ QT+ T++I GESGTGKE++A A+ Sbjct: 125 RPS----KLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVARAL 180 Query: 183 HYNSGRREGPYIKVNCGAIPENLIESELFGYEKGAFTGATNRKIGKFERAKNGTIFLDEI 242 H RR GP++ +N AIP +LIESELFG+EKGAFTGA R G+FE+A+ GT+FLDEI Sbjct: 181 HDYGKRRNGPFVAINMAAIPRDLIESELFGHEKGAFTGAQTRSTGRFEQAEGGTLFLDEI 240 Query: 243 GDLNLNMQVKLLRVLQEKEFERVGGNENIQADVRVIAATNRDLYKMVEEERFREDLFYRL 302 GD+ ++ Q +LLRVLQ+ E+ VGG I++DVR++AATN+DL + + + FREDL+YRL Sbjct: 241 GDMPMDAQTRLLRVLQQGEYTTVGGRTPIRSDVRIVAATNKDLKQSINQGLFREDLYYRL 300 Query: 303 NVIPIELPALRERQEDIPLLIEYFIDKYSSEIGRKNMTIDDEAKEKLISYQWRGNIRELE 362 NV+P+ LP LR+R EDIP L+ +F+ + E G D EA E + ++ W GN+RELE Sbjct: 301 NVVPLRLPPLRDRAEDIPDLVRHFVQQAEKE-GLDVKRFDQEALELMKAHPWPGNVRELE 359 Query: 363 NVIERMLILSAGNVISKENLP----------------------------PEILREKIPTK 394 N++ R+ L +VI++E + E +R+ + Sbjct: 360 NLVRRLTALYPQDVITREIIENELRSEIPDSPIEKAAARSGSLSISQAVEENMRQYFASF 419 Query: 395 DFALPDEGL---SIDDLEKDLIKQALERTNHNQTKAAQLLGMSRHTLLYRIEKYNL 447 ALP GL + ++E LI AL T NQ KAA LLG++R+TL +I + + Sbjct: 420 GDALPPSGLYDRVLAEMEYPLILAALTATRGNQIKAADLLGLNRNTLRKKIRELGV 475
>PF06580#Sensor histidine kinase Length = 349 Score = 32.9 bits (75), Expect = 0.002 Identities = 25/179 (13%), Positives = 63/179 (35%), Gaps = 35/179 (19%) Query: 284 ERANKVVQGLLDFSKPNKVKIEKINLNRLLDELVMITRKFAEQQDVAIELSNMNDAYEIE 343 +A +++ L + + + ++ L DEL ++ + + D + E Sbjct: 191 TKAREMLTSLSELMRYS-LRYSNARQVSLADELTVVDSY------LQLASIQFEDRLQFE 243 Query: 344 GD-SDKLKQALI----------NIILNGIQAMEQGGRLEISLKKTEKEESVITFKDEGRG 392 + + + N I +GI + QGG++ + K + + ++ G Sbjct: 244 NQINPAIMDVQVPPMLVQTLVENGIKHGIAQLPQGGKILLKGTK-DNGTVTLEVENTGSL 302 Query: 393 IEKRIVDQIFNPFFTTKEKGTGLGLSITHRIIEEHQG---SIEVTSEINRGTEIGIRLP 448 K ++ TG GL ++ G I+++ + + + + +P Sbjct: 303 ALKN------------TKESTGTGLQNVRERLQMLYGTEAQIKLSEKQGKVNAM-VLIP 348
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 82.6 bits (204), Expect = 2e-20 Identities = 28/119 (23%), Positives = 55/119 (46%), Gaps = 1/119 (0%) Query: 7 RVLIIEDEKNIADVIKAYLQNEKYEAIVTHNGKEAISIFQQQSFDFVILDLMLPDLSGEE 66 +L+ +D+ I V+ L Y+ +T N D V+ D+++PD + + Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64 Query: 67 ICKRIR-LQSQVPILMLTAKVEESDRIYGLDIGADDYMTKPFSPKELVARVRAIMRRTN 124 + RI+ + +P+L+++A+ I + GA DY+ KPF EL+ + + Sbjct: 65 LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPK 123
>PF06291#Lambda prophage Bor protein Length = 102 Score = 26.9 bits (59), Expect = 0.019 Identities = 14/59 (23%), Positives = 25/59 (42%), Gaps = 7/59 (11%) Query: 31 FVAENRPVAITEQTTTNQGAIDQGIAEQKNVEQGDTGIRSNTSCHGDDNMIEIMKENGF 89 F N+P A+T + T GI ++K V+ C G +N+++ + F Sbjct: 27 FTVGNKPTAVTPKETITHHFFVSGIGQKKTVDAAKI-------CGGAENVVKTETQQTF 78
>TYPE4SSCAGX#Type IV secretion system CagX conjugation protein signature. Length = 522 Score = 28.6 bits (63), Expect = 0.037 Identities = 26/93 (27%), Positives = 40/93 (43%), Gaps = 3/93 (3%) Query: 144 QYIGRIKDYDTIPKIYAEYVLKAYEKGLISGYPDGEFKGNEVLTRAEASIMVIKMIDKEE 203 Q+I RI D Y L+ ++ +S + E K E R +IK + Sbjct: 291 QFILRIAQKDNFASAYLTVKLEYPQRHEVSSVIEEELKKREEAKRQRE---LIKQENLNT 347 Query: 204 RSTLREVIKDSNETISIQEVQEEEKRKNIISTA 236 + + V+ SNE I +E EEK+K I+ A Sbjct: 348 TAYINRVMMASNEQIINKEKIREEKQKIILDQA 380
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 97.6 bits (243), Expect = 2e-25 Identities = 30/130 (23%), Positives = 60/130 (46%), Gaps = 3/130 (2%) Query: 2 MHSKTILIVDDEPRTRQGLKKTIGIWSEGKYEIICAASAKEAIDVLEQQRVHLLITDICM 61 M TIL+ DD+ R L + + Y++ ++A + L++TD+ M Sbjct: 1 MTGATILVADDDAAIRTVLNQALSRA---GYDVRITSNAATLWRWIAAGDGDLVVTDVVM 57 Query: 62 PETSGLKMLEQLNMKKHKLVVIILSGFSEFDYAQQAIRLGVVNYLLKPINKHKLIESVEK 121 P+ + +L ++ + L V+++S + F A +A G +YL KP + +LI + + Sbjct: 58 PDENAFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGR 117 Query: 122 AMEVEANQER 131 A+ + Sbjct: 118 ALAEPKRRPS 127
>PF06580#Sensor histidine kinase Length = 349 Score = 190 bits (484), Expect = 2e-57 Identities = 54/219 (24%), Positives = 103/219 (47%), Gaps = 23/219 (10%) Query: 360 YEKELCLRQAELKALQAQINPHFLYNTLEALYWSLEEKGEELAEVVVAMSDLFRYTISGP 419 ++ ++A+L AL+AQINPHF++N L + + E + E++ ++S+L RY++ Sbjct: 152 WKMASMAQEAQLMALKAQINPHFMFNALNNIRALILEDPTKAREMLTSLSELMRYSLRY- 210 Query: 420 KVEQEWVLVKEELEHVERYLQVMKMRFGDRLTWYVSSPSDC-NVKIPKLLIQPLVENAIL 478 V + +EL V+ YLQ+ ++F DRL + +V++P +L+Q LVEN I Sbjct: 211 -SNARQVSLADELTVVDSYLQLASIQFEDRLQFENQINPAIMDVQVPPMLVQTLVENGIK 269 Query: 479 HGVGNKNGQGTVSVIVEDFKLHSRLVIKVIDDGPGIEVDALYSIMQSLKFGRVASIKEKG 538 HG+ G + + K + + ++V + G + + + G Sbjct: 270 HGIAQLPQGGKILLKG--TKDNGTVTLEVENTGSLALKN---------------TKESTG 312 Query: 539 MAIANVHKRLKLYYKDDEGSGLSIESKVNQGTCVTFEIP 577 + NV +RL++ Y + + + + K IP Sbjct: 313 TGLQNVRERLQMLYGTE--AQIKLSEK-QGKVNAMVLIP 348
>PF05272#Virulence-associated E family protein Length = 892 Score = 35.4 bits (81), Expect = 4e-04 Identities = 12/56 (21%), Positives = 21/56 (37%), Gaps = 9/56 (16%) Query: 33 IILVGPSGCGKSTSLRMIAGLEEISSGELYIDDKLVNDVVPKDRDIAMVFQNYALY 88 ++L G G GKST + + GL+ + D + + +D Y Sbjct: 599 VVLEGTGGIGKSTLINTLVGLD-------FFSDTHFD--IGTGKDSYEQIAGIVAY 645
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 31.3 bits (71), Expect = 0.006 Identities = 7/27 (25%), Positives = 13/27 (48%) Query: 288 KNNLNISDTARDLFVHRNTLIYRLSKI 314 N A L ++RNTL ++ ++ Sbjct: 447 ATRGNQIKAADLLGLNRNTLRKKIREL 473
>ANTHRAXTOXNA#Anthrax toxin LF subunit signature. Length = 800 Score = 28.2 bits (62), Expect = 0.025 Identities = 22/96 (22%), Positives = 42/96 (43%), Gaps = 3/96 (3%) Query: 33 FVLIFYPILNFFEIKSIKNEITFINESLNSLENQKKLDTIQNKKQSLEAFKSEFDILLQL 92 F +I + +L F S E+ +NE + ++ T +NK + E FK + L++ Sbjct: 11 FSIISFSVLLFAISSSQAIEVNAMNEHYTESDIKRNHKTEKNKTEK-EKFKDSINNLVKT 69 Query: 93 DHQIKNRDVINDELMLQISKQIPNDIFFESMSINGE 128 + N + + + K+IP D+ + GE Sbjct: 70 --EFTNETLDKIQQTQDLLKKIPKDVLEIYSELGGE 103
>PREPILNPTASE#Type IV prepilin cysteine protease (C20) family signature. Length = 290 Score = 185 bits (471), Expect = 7e-60 Identities = 88/279 (31%), Positives = 139/279 (49%), Gaps = 34/279 (12%) Query: 3 FYIIILILILGLLIGSFLNVCIFRIPK------------------------NESIAFPSS 38 + L+ + L+IGSFLNV I R+P ++ P S Sbjct: 13 WLYFSLVFLFSLMIGSFLNVVIHRLPIMLEREWQAEYRSYFNPDDEGVDEPPYNLMVPRS 72 Query: 39 HCSNCNTLLKPIDLIPIFSYLILRGRCRYCAEKFSVRYPLVEVLTGIMFMALFSKYGLSI 98 C +CN + ++ IP+ S+L LRGRCR C S RYPLVE+LT ++ +A+ Sbjct: 73 CCPHCNHPITALENIPLLSWLWLRGRCRGCQAPISARYPLVELLTALLSVAVAMTLAPGW 132 Query: 99 HLLFYLLLTSLLICITFIDYDHQIIPDGIVLLGFAFGLAYKLTALILLNQSVEILSSITG 158 L LLLT +L+ +TFID D ++PD + L GL + LL V + ++ G Sbjct: 133 GTLAALLLTWVLVALTFIDLDKMLLPDQLTLPLLWGGLLFN-----LLGGFVSLGDAVIG 187 Query: 159 LLVGGGLFLLI-----AIISNGGMGGGDIKLMGMLGFWFGWRGILLISFLSFIIGSIISI 213 + G + + + GMG GD KL+ LG W GW+ + ++ LS ++G+ + I Sbjct: 188 AMAGYLVLWSLYWAFKLLTGKEGMGYGDFKLLAALGAWLGWQALPIVLLLSSLVGAFMGI 247 Query: 214 FLLGTKLKTRKDPIPFGPFIAISTFINMFFYEEIVLWYF 252 L+ + + PIPFGP++AI+ +I + + + I WY Sbjct: 248 GLILLRNHHQSKPIPFGPYLAIAGWIALLWGDSITRWYL 286
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 29.9 bits (67), Expect = 0.004 Identities = 9/29 (31%), Positives = 19/29 (65%) Query: 9 LNRIRKKSGFTLIELILVIALLLIVLMAV 37 + K+ GFTL+E+++VI ++ ++ V Sbjct: 1 MRATDKQRGFTLLEIMVVIVIIGVLASLV 29
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 32.2 bits (73), Expect = 0.002 Identities = 13/53 (24%), Positives = 29/53 (54%), Gaps = 8/53 (15%) Query: 11 KGFTLVEVIFSLALLGIIAILVLPVFNFAIQSSVFHRQSMSAAQIASNQLEWL 63 +GFTL+E++ + ++G++A LV+P ++ + + Q A + + L Sbjct: 8 RGFTLLEIMVVIVIIGVLASLVVP--------NLMGNKEKADKQKAVSDIVAL 52
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 59.9 bits (145), Expect = 8e-15 Identities = 29/105 (27%), Positives = 56/105 (53%), Gaps = 14/105 (13%) Query: 7 KKIRNKKGFTLIELIVVIAILGILAGIAVPRFASTQDNAKNKAHNANVRTIESAVSVY-- 64 + ++GFTL+E++VVI I+G+LA + VP ++ A + +++ +E+A+ +Y Sbjct: 2 RATDKQRGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQKAVSDIVALENALDMYKL 61 Query: 65 ----MANTNTALDAMDDIDVLTPD--------YLQAVPANPTGGD 97 TN L+++ + L P Y++ +PA+P G D Sbjct: 62 DNHHYPTTNQGLESLVEAPTLPPLAANYNKEGYIKRLPADPWGND 106
>BCTERIALGSPF#Bacterial general secretion pathway protein F signature. Length = 408 Score = 329 bits (844), Expect = e-112 Identities = 121/404 (29%), Positives = 222/404 (54%), Gaps = 3/404 (0%) Query: 4 TFKYKSVTSEGGSVEGTFTAESKNEVIRMIRQKQQIPVKVEETKDKSKEVKDLNLF---K 60 + Y+++ ++G GT A+S + +++R++ +P+ V+E + ++ L K Sbjct: 3 QYHYQALDAQGKKCRGTQEADSARQARQLLRERGLVPLSVDENRGDQQKSGSTGLSLRRK 62 Query: 61 QKVKTKDLTVFCKQFYTMLNAGMSLTSSLEVLMDQTENKTLKAVIEDLFTQVQKGDILSD 120 ++ T DL + +Q T++ A M L +L+ + Q+E L ++ + ++V +G L+D Sbjct: 63 IRLSTSDLALLTRQLATLVAASMPLEEALDAVAKQSEKPHLSQLMAAVRSKVMEGHSLAD 122 Query: 121 AMKKHKKVFPPILLNMVEAGEMTGTLDDVLEKMSVHFEKENKINSKIKGAMIYPLILSIV 180 AMK F + MV AGE +G LD VL +++ + E+ ++ S+I+ AMIYP +L++V Sbjct: 123 AMKCFPGSFERLYCAMVAAGETSGHLDAVLNRLADYTEQRQQMRSRIQQAMIYPCVLTVV 182 Query: 181 AILVVIFLLVFIMPTFLTMFTSSGVQLPLPTRILLALSNVLTRFWYLFVIGISGIVVLLN 240 AI VV LL ++P + F LPL TR+L+ +S+ + F ++ + + Sbjct: 183 AIAVVSILLSVVVPKVVEQFIHMKQALPLSTRVLMGMSDAVRTFGPWMLLALLAGFMAFR 242 Query: 241 RMLSTDDGKRAYDRLKFRIPIVKGSITKIVTARFTRTLSTLLTSGIPIISALEASANVTN 300 ML + + ++ R +P++ + TAR+ RTLS L S +P++ A+ S +V + Sbjct: 243 VMLRQEKRRVSFHRRLLHLPLIGRIARGLNTARYARTLSILNASAVPLLQAMRISGDVMS 302 Query: 301 NKVVSDGIEMVVDDIRKGVSLAVLFKKMNVFPPMMVSMVSIGEESGSLDDMLSKTADFYD 360 N + + D +R+GVSL ++ +FPPMM M++ GE SG LD ML + AD D Sbjct: 303 NDYARHRLSLATDAVREGVSLHKALEQTALFPPMMRHMIASGERSGELDSMLERAADNQD 362 Query: 361 EELEAAIQQMVSMLEPLMIVVMAVIIGFIVIAMMMPMFDMMQTI 404 E + + + + EPL++V MA ++ FIV+A++ P+ + + Sbjct: 363 REFSSQMTLALGLFEPLLVVSMAAVVLFIVLAILQPILQLNTLM 406
>GPOSANCHOR#Gram-positive coccus surface protein anchor signature. Length = 539 Score = 30.0 bits (67), Expect = 0.040 Identities = 23/113 (20%), Positives = 44/113 (38%), Gaps = 1/113 (0%) Query: 105 EVKYQCKDGSIVNALLNMQIIKD-IEGNELYLEGFITDVTSLKEKEKRLEENEQMLQELN 163 + K + D S+ +Q ++ E LEG + T+ K K LE + L Sbjct: 98 KEKLRKNDKSLSEKASKIQELEARKADLEKALEGAMNFSTADSAKIKTLEAEKAALAARK 157 Query: 164 EELEATLHQLAANEEELRANYEELKEKEAMKESYECLFNNSLDAIVHFDEKER 216 +LE L A + L+ ++A E+ + +L+ ++F + Sbjct: 158 ADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMNFSTADS 210
>NUCEPIMERASE#Nucleotide sugar epimerase signature. Length = 334 Score = 31.7 bits (72), Expect = 0.002 Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 4/39 (10%) Query: 1 MKIAVTGKGGVGKTTISALMARRLAEKGYKVLAIDADAD 39 MK VTG G I +++RL E G++V+ ID D Sbjct: 1 MKYLVTGAAGF----IGFHVSKRLLEAGHQVVGIDNLND 35
>FIMREGULATRY#Escherichia coli: P pili regulatory PapB protein signature. Length = 104 Score = 30.3 bits (68), Expect = 0.006 Identities = 16/83 (19%), Positives = 34/83 (40%), Gaps = 17/83 (20%) Query: 375 KIVKQSIEAYKRRDPNKILIP----EEKSQIIAGFSTESITNLLSKIDSEKPLRPLIDNI 430 +++ +S A+ +L+P E ++ G +S I S++ + + D + Sbjct: 5 EVISRSGNAFLLNIRESVLLPGSMSEMHFFLLIG---------ISSIHSDRVILAMKDYL 55 Query: 431 VNGNIRGVVLFAGCNNVKITQDY 453 V G+ R V C ++ Y Sbjct: 56 VGGHSRKEV----CEKYQMNNGY 74
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 390 bits (1004), Expect = e-132 Identities = 134/369 (36%), Positives = 208/369 (56%), Gaps = 36/369 (9%) Query: 297 DKMTFLEREMKYYKNKVKEKNNDIENIADLSVDSDCMREVIRYMKKVSKTDATTLLRGES 356 + + + R + K + + +D ++ L S M+E+ R + ++ +TD T ++ GES Sbjct: 110 ELIGIIGRALAEPKRRPSKLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTDLTLMITGES 169 Query: 357 GTGKTLFAKAIHNESHRKNNPFVSIDCTTIPENFFEAELFGYEAGAYTGANKNGKAGKLE 416 GTGK L A+A+H+ R+N PFV+I+ IP + E+ELFG+E GA+TGA G+ E Sbjct: 170 GTGKELVARALHDYGKRRNGPFVAINMAAIPRDLIESELFGHEKGAFTGAQTRST-GRFE 228 Query: 417 MAHGGTVFLDEIGEIPVETQSKLLRFLQEKEFERIGGITTKKVDVRIIAATNQELETMIS 476 A GGT+FLDEIG++P++ Q++LLR LQ+ E+ +GG T + DVRI+AATN++L+ I+ Sbjct: 229 QAEGGTLFLDEIGDMPMDAQTRLLRVLQQGEYTTVGGRTPIRSDVRIVAATNKDLKQSIN 288 Query: 477 KGQFRKDLYYRLNVININLPPLRERLEEIPSLTNKILLDFCREVGIELKEIGEEGMKELI 536 +G FR+DLYYRLNV+ + LPPLR+R E+IP L + +E G+++K +E ++ + Sbjct: 289 QGLFREDLYYRLNVVPLRLPPLRDRAEDIPDLVRHFVQQAEKE-GLDVKRFDQEALELMK 347 Query: 537 HYNWPGNIRELENLVKRLAINSEQKMIERSDIAREIEITTKIQPIQ-------------- 582 + WPGN+RELENLV+RL Q +I R I E+ PI+ Sbjct: 348 AHPWPGNVRELENLVRRLTALYPQDVITREIIENELRSEIPDSPIEKAAARSGSLSISQA 407 Query: 583 --------------------ALEGQMNQSEKQNIIDALEKYDFNKTQTAKGLGITRQTLY 622 + + + E I+ AL N+ + A LG+ R TL Sbjct: 408 VEENMRQYFASFGDALPPSGLYDRVLAEMEYPLILAALTATRGNQIKAADLLGLNRNTLR 467 Query: 623 NKIKRFGIS 631 KI+ G+S Sbjct: 468 KKIRELGVS 476
>TACYTOLYSIN#Bacterial thiol-activated pore-forming cytolysin signature. Length = 574 Score = 30.7 bits (69), Expect = 0.012 Identities = 16/76 (21%), Positives = 30/76 (39%), Gaps = 8/76 (10%) Query: 102 LNNTIIDEASFDYVKDLSFKGVLDEVKTEIERFMTQNN----ISKNKILGVGISLPGLVD 157 +N T +D + D V D ++ L T+N ++K + I LPG+ D Sbjct: 159 INTTPVDISIIDSVTDRTYPAALQLANKG----FTENKPDAVVTKRNPQKIHIDLPGMGD 214 Query: 158 EDRLILENAPNIGVRD 173 + + + + V Sbjct: 215 KATVEVNDPTYANVST 230
>LUXSPROTEIN#Bacterial autoinducer-2 (AI-2) production protein LuxS signature. Length = 171 Score = 28.3 bits (63), Expect = 0.046 Identities = 32/115 (27%), Positives = 45/115 (39%), Gaps = 11/115 (9%) Query: 285 NLNVREGEIVGISGLMGSGRTELAMSIFGHSYGKNIKGKMIKAGKVLNVTNVSQAIQEGL 344 +LN EI+ IS MG RT MS+ G + + I A + + I E Sbjct: 66 HLNGDSVEIIDISP-MGC-RTGFYMSLIGTPSEQQVADAWIAAMEDVLKVENQNKIPELN 123 Query: 345 AYLTEDRKTGGLVLNDDIRRNITLAKLKKISNRGV-VNLNEEIHVAEEFCKKLRI 398 Y L I +NI GV VN N+E+ + E ++LRI Sbjct: 124 EYQCGTAAMHSLDEAKQIAKNIL--------EVGVAVNKNDELALPESMLRELRI 170
>ANTHRAXTOXNA#Anthrax toxin LF subunit signature. Length = 800 Score = 29.7 bits (66), Expect = 0.008 Identities = 14/69 (20%), Positives = 28/69 (40%) Query: 96 IFAKDNDIAIELFIKFNKENNNDECLKIEEKKKNISDDELRRIIKNQFKVEEWTLQNESK 155 +FA + AIE+ +D + +K ++ + I N K E + Sbjct: 20 LFAISSSQAIEVNAMNEHYTESDIKRNHKTEKNKTEKEKFKDSINNLVKTEFTNETLDKI 79 Query: 156 EKKEMMLKK 164 ++ + +LKK Sbjct: 80 QQTQDLLKK 88
>cloacin#Cloacin signature. Length = 551 Score = 41.6 bits (97), Expect = 1e-05 Identities = 38/119 (31%), Positives = 46/119 (38%), Gaps = 20/119 (16%) Query: 227 TGGDYGAGIGGGFEGSGGIINISGGTVTAVGGSSGAGIGGGPSGGSG---TINISGNAQI 283 +GGD G G G + G IN GG +G G+GGG S GSG N G Sbjct: 2 SGGD-GRGHNTGAHSTSGNIN---------GGPTGLGVGGGASDGSGWSSENNPWGGGSG 51 Query: 284 TATGGGPIMGRQNGWDIGSGSGSSGTGTLKIAGDGNDNPTVVFTTYGTNALVPTGVEKP 342 + G G NG G+ G SGTG GN + +G AL G Sbjct: 52 SGIHWGGGSGHGNGGGNGNSGGGSGTG-------GNLSAVAAPVAFGFPALSTPGAGGL 103 Score = 39.3 bits (91), Expect = 7e-05 Identities = 31/88 (35%), Positives = 41/88 (46%), Gaps = 11/88 (12%) Query: 202 GGGGRGVSSGGYGGAINISGGIVTATGGDYGAGIGGGFEGSGGIINISGGTVTAVGGSSG 261 GG GRG ++G + + NI+GG TG G GG +GSG GG SG Sbjct: 3 GGDGRGHNTGAHSTSGNINGG---PTGLGVG---GGASDGSGW-----SSENNPWGGGSG 51 Query: 262 AGIGGGPSGGSGTINISGNAQITATGGG 289 +GI G G G +GN+ + GG Sbjct: 52 SGIHWGGGSGHGNGGGNGNSGGGSGTGG 79 Score = 37.4 bits (86), Expect = 3e-04 Identities = 33/124 (26%), Positives = 42/124 (33%), Gaps = 9/124 (7%) Query: 166 GSSSAGIGGGWGQDAGTINILGGTVTAMGGNSGAGIGGG-GRGVSSGGYGGAINISGGIV 224 G G G +G IN G T +G GA G G + G G I G Sbjct: 3 GGDGRGHNTGAHSTSGNIN---GGPTGLGVGGGASDGSGWSSENNPWGGGSGSGIHWGGG 59 Query: 225 TATGGDYGAGIGGGFEGSGGIINISGGTVTAVGGSSGAGIGGGPSGGSGTINISGNAQIT 284 + G G G GG G+GG + A + G P G ++IS A Sbjct: 60 SGHGNGGGNGNSGGGSGTGG-----NLSAVAAPVAFGFPALSTPGAGGLAVSISAGALSA 114 Query: 285 ATGG 288 A Sbjct: 115 AIAD 118 Score = 31.6 bits (71), Expect = 0.017 Identities = 30/104 (28%), Positives = 42/104 (40%), Gaps = 5/104 (4%) Query: 153 NGSGRLTAKSVVIG-SSSAGIGGGWGQDAGTINILGGTVTAMGGNSGAGIGGGGRGVSSG 211 + SG + +G A G GW + G+ GG SG G GGG G S G Sbjct: 15 STSGNINGGPTGLGVGGGASDGSGWSSENNPWGGGSGSGIHWGGGSGHGNGGGN-GNSGG 73 Query: 212 GYGGAINISGGIVTATGGDYGAGIGGGFEGSGGIINISGGTVTA 255 G G N+S + + A G G ++IS G ++A Sbjct: 74 GSGTGGNLS-AVAAPVAFGFPALSTPGAGGLA--VSISAGALSA 114
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 53.3 bits (128), Expect = 7e-10 Identities = 26/185 (14%), Positives = 63/185 (34%), Gaps = 22/185 (11%) Query: 2 IRAIVIDDEWYNLEETSELIDKTGY-FHVAGRYQNPLKALEEAKLTNPQVAFIDIELPEM 60 +V DD+ ++ + + GY + + + + D+ +P+ Sbjct: 4 ATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGD---GDLVVTDVVMPDE 60 Query: 61 DGITLAEKLLEVNSAMIIVFITSYNQY--AVQAFDLNAIDYILKPIKGERFNRMVEKIKN 118 + L ++ + + ++ +++ N + A++A + A DY+ KP ++ + Sbjct: 61 NAFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALA 120 Query: 119 EISIKSQKTSKNV----KIKVFDKLMVTLGETPVKWQRTKA-----------KELFAYLL 163 E + K + + M + + +T KEL A L Sbjct: 121 EPKRRPSKLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVARAL 180 Query: 164 MHHGS 168 H Sbjct: 181 -HDYG 184
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 27.9 bits (62), Expect = 0.012 Identities = 6/25 (24%), Positives = 12/25 (48%) Query: 55 KCRGSIKDVEKELGISYPTVRNRLE 79 RG+ LG++ T+R ++ Sbjct: 447 ATRGNQIKAADLLGLNRNTLRKKIR 471
>SUBTILISIN#Subtilisin serine protease family (S8) signature. Length = 326 Score = 62.6 bits (152), Expect = 8e-13 Identities = 46/285 (16%), Positives = 94/285 (32%), Gaps = 53/285 (18%) Query: 103 IIGVIDT--------LFDENVYFSDWVEFKNMLSEDIPLSPSDY-KHGTAVSSIIVDGPA 153 + V+DT L + ++ + P DY HGT V+ I A Sbjct: 44 KVAVLDTGCDADHPDLKARIIGGRNFTDDDE----GDPEIFKDYNGHGTHVAGTI----A 95 Query: 154 SNPLMDDECGR---FRVRHFGVASGNQFSSFT---ILRNINEIISLNKDIKVWNLSLGSK 207 + ++ + N+ S I++ I I + + + ++SLG Sbjct: 96 ATE--NENGVVGVAPEADLLIIKVLNKQGSGQYDWIIQGIYYAI--EQKVDIISMSLGG- 150 Query: 208 LEINPNFISPEAAILDKIQYENDVTFVIAGTNKTWTQKQSMAIGTPADSINSLVVNSVDF 267 P + + K + + + A N+ ++ +G P + V +++F Sbjct: 151 ----PEDVPELHEAVKKA-VASQILVMCAAGNEGDGDDRTDELGYPGCYNEVISVGAINF 205 Query: 268 DNRPASYTRRGPVLSFFTKPDISYYGGDETKPMRVCTPTGEAFVI-GTSFAAPWIARKMS 326 D + ++ + D+ G D + P G+ GTS A P +A ++ Sbjct: 206 DRHASEFSNSNN------EVDLVAPGED----ILSTVPGGKYATFSGTSMATPHVAGALA 255 Query: 327 YLI------DILGLSREVAKALIINSATGWSKQEFDSSLIGHGIV 365 + L+ A +I G+G++ Sbjct: 256 LIKQLANASFERDLTEPELYAQLIKRTIPLGNSPKME---GNGLL 297
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 201 bits (514), Expect = 2e-60 Identities = 81/352 (23%), Positives = 151/352 (42%), Gaps = 55/352 (15%) Query: 269 ANVSFSDILGKDPKLIEKIEMAKKLAVIDESILICGETGLGKTMLVRAIHNFSDRSKKYF 328 + ++G+ + E + +L D +++I GE+G GK ++ RA+H++ R F Sbjct: 132 DSQDGMPLVGRSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVARALHDYGKRRNGPF 191 Query: 329 AIVDCSNTSYDLLEKEIFGSENNGNVT---SLSIGKLRMAHKGTIFFNNICQMPLYLQKR 385 ++ + DL+E E+FG E G T + S G+ A GT+F + I MP+ Q R Sbjct: 192 VAINMAAIPRDLIESELFGHE-KGAFTGAQTRSTGRFEQAEGGTLFLDEIGDMPMDAQTR 250 Query: 386 LVEVIKTKELE----QRTYKGFHIDVRFIFDTSNDLTTRVKQGMFNEELYFRISKNIIKI 441 L+ V++ E + DVR + T+ DL + QG+F E+LY+R++ +++ Sbjct: 251 LLRVLQQGEYTTVGGRTP---IRSDVRIVAATNKDLKQSINQGLFREDLYYRLNVVPLRL 307 Query: 442 PPLLSRKGDIKIVIDSVIEALKIKHLKPHLEFSQDVLETMYKYAWPKNIREIQRTIDLII 501 PPL R DI ++ ++ + K F Q+ LE M + WP N+RE++ + + Sbjct: 308 PPLRDRAEDIPDLVRHFVQQAE-KEGLDVKRFDQEALELMKAHPWPGNVRELENLVRRLT 366 Query: 502 GNADDSIVRQKDIIAFDFHRLSRKDL---------------------------------- 527 ++ ++ I + + Sbjct: 367 ALYPQDVITREIIENELRSEIPDSPIEKAAARSGSLSISQAVEENMRQYFASFGDALPPS 426 Query: 528 ----ITLDDAEKELIKKMLKQYNCKDDIAKA---MGIGRATLYRKLKKYELN 572 L + E LI L + + KA +G+ R TL +K+++ ++ Sbjct: 427 GLYDRVLAEMEYPLILAALTA--TRGNQIKAADLLGLNRNTLRKKIRELGVS 476
>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature. Length = 1541 Score = 29.6 bits (66), Expect = 0.021 Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 9/61 (14%) Query: 43 YNLTGSIKDRMA------LHIIKKGYESGELKVGD---IIAEATSGNTGIAFSAIGSSLG 93 + + DR+A L + G G LKVGD I+ + T+G+ AF+++G G Sbjct: 437 WKVHNPQYDRLAKIGKGTLIVEGTGDNKGSLKVGDGTVILKQQTNGSGQHAFASVGIVSG 496 Query: 94 H 94 Sbjct: 497 R 497
>BCTLIPOCALIN#Bacterial lipocalin signature. Length = 171 Score = 28.0 bits (62), Expect = 0.017 Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 6/50 (12%) Query: 140 VTRFKESLEKGLDNHTALQELKQ-GAID----GMNSTKEM-EAVKGRAYY 183 V R S E+GL TA ++ G I G + K + +G+AY+ Sbjct: 41 VARLDHSFERGLSQVTAEYRVRNDGGISVLNRGYSEEKGEWKEAEGKAYF 90
>PF05272#Virulence-associated E family protein Length = 892 Score = 31.2 bits (70), Expect = 0.004 Identities = 12/40 (30%), Positives = 19/40 (47%), Gaps = 2/40 (5%) Query: 28 KGEIVSII-GPNGAGKTTLFNMLTGVYTLTEGEILF-EGK 65 K + ++ G G GK+TL N L G+ ++ GK Sbjct: 594 KFDYSVVLEGTGGIGKSTLINTLVGLDFFSDTHFDIGTGK 633
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 139 bits (353), Expect = 3e-37 Identities = 59/233 (25%), Positives = 102/233 (43%), Gaps = 36/233 (15%) Query: 93 PIQQAKAAI-LYPPRGLHTLILGETGVGKSMFAEIMYEFAFESKVIEKEASFIRFNCADY 151 +Q+ + L +I GE+G GK + A ++++ + F+ N A Sbjct: 145 AMQEIYRVLARLMQTDLTLMITGESGTGKELVARALHDYG-----KRRNGPFVAINMA-- 197 Query: 152 ADNPQLVMAQIFGVKKGAYTGADKDRDGLLKKANGGMLFLDEVHRLSPQGQEMLFTYIDT 211 A L+ +++FG +KGA+TGA G ++A GG LFLDE+ + Q L + Sbjct: 198 AIPRDLIESELFGHEKGAFTGAQTRSTGRFEQAEGGTLFLDEIGDMPMDAQTRLLRVLQQ 257 Query: 212 GVFRALGETEKAIAVDVQIIAATTEDPQS------------YLLNTFTRRIPMVITLPPL 259 G + +G I DV+I+AAT +D + Y LN + LPPL Sbjct: 258 GEYTTVGGR-TPIRSDVRIVAATNKDLKQSINQGLFREDLYYRLNVVP------LRLPPL 310 Query: 260 RKKSLGERY----YLIEYFIKKESKRIGKSIYVNKNSLISLLLYHCPNNIGQL 308 R +R L+ +F+++ K ++ +L + + P N+ +L Sbjct: 311 R-----DRAEDIPDLVRHFVQQAEKEGLDVKRFDQEALELMKAHPWPGNVREL 358
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 73.3 bits (180), Expect = 2e-17 Identities = 24/115 (20%), Positives = 47/115 (40%), Gaps = 2/115 (1%) Query: 2 KVLIVDDDALIRDSLKILIDLEADFTVVGTASNGQEAFEFCKEYAPDLILMDIRMPIMDG 61 +L+ DDDA IR L + + V SN + + DL++ D+ MP + Sbjct: 5 TILVADDDAAIRTVLNQALSRA-GYDVR-ITSNAATLWRWIAAGDGDLVVTDVVMPDENA 62 Query: 62 VLATKMIKESFGSIRIIILTTFKDDQYIKEALKNGAQGYILKSQSADSIIESLRT 116 IK++ + +++++ +A + GA Y+ K +I + Sbjct: 63 FDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGR 117
>BINARYTOXINA#Clostridial binary toxin A signature. Length = 454 Score = 30.0 bits (67), Expect = 0.006 Identities = 18/77 (23%), Positives = 33/77 (42%), Gaps = 5/77 (6%) Query: 1 MLKDNRVRIIIGHYGSGKTEFAVNYAIRLAGENKKVALADLDVVNPYFRSREKHSLLTDK 60 + K+ + I +Y +FA N IR +N +++L + + + L Sbjct: 121 ISKNKIDKPINVYYFESPEKFAFNKEIRTENQN-EISLEKFN----ELKETIQDKLFKQD 175 Query: 61 GIKVISSYVKGSGSDLP 77 G K +S Y G+G + P Sbjct: 176 GFKDVSLYEPGNGDEKP 192
>ACETATEKNASE#Acetate kinase family signature. Length = 400 Score = 231 bits (590), Expect = 7e-75 Identities = 77/341 (22%), Positives = 147/341 (43%), Gaps = 36/341 (10%) Query: 6 RILTINPGSTSTKIAIFDDE------KPVFEEV--------LRHSTEEIGEHESIFGQYE 51 +IL IN GS+S K + + + K + E + + E+I + + + Sbjct: 2 KILVINCGSSSLKYQLIESKDGNVLAKGLAERIGINDSLLTHNANGEKIKIKKDMKDHKD 61 Query: 52 FRKNVILETLNEKGINLTKLAAVVGRGGLLKPIEGGTYKVDDNMLADLKVGVLGE----- 106 K V+ +N + ++ + G + + GG Y ++ D + + + Sbjct: 62 AIKLVLDALVNSDYGVIKDMSEIDAVGH--RVVHGGEYFTSSVLITDDVLKAITDCIELA 119 Query: 107 ---HASNLGGVLAY-EIATQLNIPSFIVDPVVVDEMNEISRISGMPE------LERKSIF 156 + +N+ G+ A +I + + + + D M + + + +P RK F Sbjct: 120 PLHNPANIEGIKACTQIMPDVPMVA-VFDTAFHQTMPDYAYLYPIPYEYYTKYKIRKYGF 178 Query: 157 HALNQKAVARRASKDMGKGYNSVNLIVAHLGGGVSVGAHEQGRVVDVNNALDG-EGPFSP 215 H + K V++RA++ + K S+ +I HLG G S+ A + G+ +D + EG Sbjct: 179 HGTSHKYVSQRAAEILNKPIESLKIITCHLGNGSSIAAVKNGKSIDTSMGFTPLEGLAMG 238 Query: 216 ERSGGLPVGDLAKLCFSGKYTQAEIKKKITGNGGLVAYLG-TNDGREVV-SMMEAGDKNA 273 RSG + ++ L + E+ + G+ G ++D R++ + + GDK A Sbjct: 239 TRSGSIDPSIISYLMEKENISAEEVVNILNKKSGVYGISGISSDFRDLEDAAFKNGDKRA 298 Query: 274 EVVYQAMAYQVAKEIGSCAAVLKGKVDAIILTGGIAYDKVF 314 ++ AY+V K IGS AA + G VD I+ T GI + Sbjct: 299 QLALNVFAYRVKKTIGSYAAAMGG-VDVIVFTAGIGENGPE 338
>ACETATEKNASE#Acetate kinase family signature. Length = 400 Score = 195 bits (498), Expect = 3e-61 Identities = 78/343 (22%), Positives = 152/343 (44%), Gaps = 41/343 (11%) Query: 1 MKKYILAINPGSTSTKVAIFKG-NENVIQKNL-------------SHSPEELEKFEKITE 46 MK IL IN GS+S K + + + NV+ K L + + E+++ + + + Sbjct: 1 MK--ILVINCGSSSLKYQLIESKDGNVLAKGLAERIGINDSLLTHNANGEKIKIKKDMKD 58 Query: 47 QYELRKEIILAWLSENEIKTEELIAVVGRGGLLRPMPGGTYEVTEAMLKDLNIGIQGE-- 104 + K ++ A ++ + +++ + G R + GG Y + ++ D + + Sbjct: 59 HKDAIKLVLDALVNSDYGVIKDMSEIDAVGH--RVVHGGEYFTSSVLITDDVLKAITDCI 116 Query: 105 ------HASNLGGILA--KAIADLENISSYIVDPVAVDEFEEIARISGLPEIE------R 150 + +N+ GI A + + D+ ++ + D + A + +P R Sbjct: 117 ELAPLHNPANIEGIKACTQIMPDVPMVA--VFDTAFHQTMPDYAYLYPIPYEYYTKYKIR 174 Query: 151 RSLGHALNIKAVGHRVASQLDKKFHEMNLVVAHLGGGISVAPVKQGRLVDYNNA--NEMG 208 + H + K V R A L+K + ++ HLG G S+A VK G+ +D + G Sbjct: 175 KYGFHGTSHKYVSQRAAEILNKPIESLKIITCHLGNGSSIAAVKNGKSIDTSMGFTPLEG 234 Query: 209 PFSPERTGGLPIGDLAKLCFSGKYTFKEIKTKLRGKGGLTGYLE-SNDARDV-EKMIENG 266 R+G + ++ L + +E+ L K G+ G S+D RD+ + +NG Sbjct: 235 LAMGTRSGSIDPSIISYLMEKENISAEEVVNILNKKSGVYGISGISSDFRDLEDAAFKNG 294 Query: 267 DEKAKLIYDAMGYQIAKEIGAMATVLEGKIDAIVLTGGLAYSD 309 D++A+L + Y++ K IG+ A + G +D IV T G+ + Sbjct: 295 DKRAQLALNVFAYRVKKTIGSYAAAM-GGVDVIVFTAGIGENG 336
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 397 bits (1021), Expect = e-135 Identities = 128/360 (35%), Positives = 194/360 (53%), Gaps = 25/360 (6%) Query: 235 MQAKQIIRKLEARYTFEDIIVSNEKMITAIQKAEQAAATPATVLLRGESGTGKELFAHAI 294 ++ + + ++ + M + + T T+++ GESGTGKEL A A+ Sbjct: 121 EPKRRPSKLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVARAL 180 Query: 295 HNSSKRKYNQFVRVNCAAISEGLLESELFGYEEGAFTGARKGGKVGLFEEAHGGTIFLDE 354 H+ KR+ FV +N AAI L+ESELFG+E+GAFTGA+ G FE+A GGT+FLDE Sbjct: 181 HDYGKRRNGPFVAINMAAIPRDLIESELFGHEKGAFTGAQTRST-GRFEQAEGGTLFLDE 239 Query: 355 IGEIPMNTQAKLLRVLQEKEVLRVGATNPIIIDVRVIAATNVHLEKAVELGKFREDLYYR 414 IG++PM+ Q +LLRVLQ+ E VG PI DVR++AATN L++++ G FREDLYYR Sbjct: 240 IGDMPMDAQTRLLRVLQQGEYTTVGGRTPIRSDVRIVAATNKDLKQSINQGLFREDLYYR 299 Query: 415 LNVIPINIPPLRQRKKDIHPLVLHLIKKFNEEYGRKVDKVDHGALIRLMEYDWPGNVREL 474 LNV+P+ +PPLR R +DI LV H +++ +E G V + D AL + + WPGNVREL Sbjct: 300 LNVVPLRLPPLRDRAEDIPDLVRHFVQQAEKE-GLDVKRFDQEALELMKAHPWPGNVREL 358 Query: 475 QNYIGRAMLNMKYQEDTLEENHLPKFFDNDQESAASQKQAKDQIEV-------------- 520 +N + R Y +D + + ++ + +K A + Sbjct: 359 ENLVRRLTA--LYPQDVITREIIENELRSEIPDSPIEKAAARSGSLSISQAVEENMRQYF 416 Query: 521 -------DEGESLKEAVEKLEKQLILRTLTKSGGNRTQAARVLKVSIRNLYYKMEKYHIE 573 + ++E LIL LT + GN+ +AA +L ++ L K+ + + Sbjct: 417 ASFGDALPPSGLYDRVLAEMEYPLILAALTATRGNQIKAADLLGLNRNTLRKKIRELGVS 476
>FLGMRINGFLIF#Flagellar M-ring protein signature. Length = 559 Score = 26.9 bits (59), Expect = 0.045 Identities = 14/56 (25%), Positives = 28/56 (50%), Gaps = 1/56 (1%) Query: 93 PSSKPIPLTDREVKNMG-VEQVSHEIDIKIGDSIRVVSGPFESFMGSIEHINMEKQ 147 KP+PLT ++K + + + + K GD++ VV+ PF + + + +Q Sbjct: 396 ADGKPLPLTADQMKQIEDLTREAMGFSDKRGDTLNVVNSPFSAVDNTGGELPFWQQ 451
>SECETRNLCASE#Bacterial translocase SecE signature. Length = 127 Score = 38.3 bits (89), Expect = 3e-07 Identities = 19/51 (37%), Positives = 28/51 (54%) Query: 12 KAKGLGKFLRGVRSELKKVNWPNRAEIKNHTGVVIIATLMAVVLLWILDSV 62 K K F R R+E++KV WP R E + T +V T + ++LW LD + Sbjct: 64 KGKATVAFAREARTEVRKVIWPTRQETLHTTLIVAAVTAVMSLILWGLDGI 114
>TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family signature. Length = 639 Score = 83.0 bits (205), Expect = 3e-19 Identities = 77/367 (20%), Positives = 130/367 (35%), Gaps = 87/367 (23%) Query: 19 VNIGTIGHVDHGKTTLTAAI-----TITMHNRYGTGGAVAFDMIDKAPEERERGITISTA 73 +NIG + HVD GKTTLT ++ IT G + + ER+RGITI T Sbjct: 4 INIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTL----LERQRGITIQTG 59 Query: 74 HVEYETDKRHYAHVDCPGHADYVKNMITGAAQMDGAILVCSAADGPMPQTREHILLSRQV 133 ++ + +D PGH D++ + + +DGAIL+ SA DG QTR R++ Sbjct: 60 ITSFQWENTKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALRKM 119 Query: 134 GVPYIVVFLNKCD----------------------------------------------- 146 G+P I F+NK D Sbjct: 120 GIPTI-FFINKIDQNGIDLSTVYQDIKEKLSAEIVIKQKVELYPNMCVTNFTESEQWDTV 178 Query: 147 MVDDEELLE-------LVEMEVRDLLNMYEFPGDDTPVIMGSALKALEDPAGPWGDKIVE 199 + +++LLE L +E+ ++ PV GSA I Sbjct: 179 IEGNDDLLEKYMSGKSLEALELEQEESIRFHNCSLFPVYHGSAKN---------NIGIDN 229 Query: 200 LFDAIDTWIPEPVRDTDKPFLMPVEDVFSITGRGTVATGRIERGIVKVQEEISLVGLSEA 259 L + I V + R +A R+ G++ +++ + + + Sbjct: 230 LIEVITNKFYSSTHRGQSELCGKVFKIEYSEKRQRLAYIRLYSGVLHLRDSVRISEKEKI 289 Query: 260 PRKLVVTGVEMFRKLLDQGQAGD-------------NVGILLRGIQRDEIERGQVLAKTG 306 + T + +D+ +G+ +G QR+ IE L +T Sbjct: 290 KITEMYTSINGELCKIDKAYSGEIVILQNEFLKLNSVLGDTKLLPQRERIENPLPLLQT- 348 Query: 307 SIQPHTK 313 +++P Sbjct: 349 TVEPSKP 355
>FbpA_PF05833#Fibronectin-binding protein Length = 577 Score = 28.7 bits (64), Expect = 0.028 Identities = 15/78 (19%), Positives = 29/78 (37%), Gaps = 16/78 (20%) Query: 89 SYSQKSQRYVKEGSFEYVIPPEVE-SDPRAVVLFIKTMEEIQGAYD----RLAELLFQKH 143 + + R + G EYV PP+ +P F + + I+ +L + +F K Sbjct: 147 TPDINTYRSIYPGI-EYVYPPKSPKLNP-----FDFSYDMIENFTKENSLQLNDNIFSKI 200 Query: 144 YQGFVDGGQSPGQAKSMA 161 + G S + + Sbjct: 201 FTGV-----SKTLSSEIC 213
>TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family signature. Length = 639 Score = 28.3 bits (63), Expect = 0.037 Identities = 11/28 (39%), Positives = 14/28 (50%) Query: 248 GIAILAVVAAFNFIGDKVRDIMDPKHMD 275 GI I + +F + KV I P HMD Sbjct: 53 GITIQTGITSFQWENTKVNIIDTPGHMD 80
>CHANLCOLICIN#Channel forming colicin signature. Length = 522 Score = 33.5 bits (76), Expect = 9e-04 Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 3/49 (6%) Query: 88 KSVSDEMLSALPATLY--LAAIALIMILGISIVAGILCAIFEDSIGDKI 134 K +D +S + A L+ LA L I GI+IV GILC+ + + + I Sbjct: 469 KKAADAGVSYVVALLFSLLAGTTLG-IWGIAIVTGILCSYIDKNKLNTI 516
>TCRTETA#Tetracycline resistance protein signature. Length = 399 Score = 56.0 bits (135), Expect = 9e-11 Identities = 63/322 (19%), Positives = 112/322 (34%), Gaps = 25/322 (7%) Query: 4 KKMINLSFLFIVNFLVMVIFNSTFTLLPLYILKLGGTE---FHSGLQTALFFITAICLRF 60 K L + L V +LP + L + H G+ AL+ + Sbjct: 2 KPNRPLIVILSTVALDAVGIGLIMPVLPGLLRDLVHSNDVTAHYGILLALYALMQFACAP 61 Query: 61 YFGPLADRVGRKIPLLIGTACFALTSLLFYYSNSLWLLTLARMLQALGLSAFLSSSISAV 120 G L+DR GR+ LL+ A A+ + + LW+L + R++ + A + + + + Sbjct: 62 VLGALSDRFGRRPVLLVSLAGAAVDYAIMATAPFLWVLYIGRIVAGIT-GATGAVAGAYI 120 Query: 121 ADMAPVNKVGTYMGVYRLIGAFALLVGPATSSFIMNQFSFGFWFMTCFLFGLIALILLFK 180 AD+ ++ + G F ++ GP M FS F + + Sbjct: 121 ADITDGDERARHFGFMSACFGFGMVAGPVLGGL-MGGFSPHAPFFAAAALNGLNFLTGCF 179 Query: 181 T------------QFVEITQSTNLRISNSMLSVLLDKKYWAIYLGIGLTATSFGALLSFV 228 + + + R + M V A++ + L AL +V Sbjct: 180 LLPESHKGERRPLRREALNPLASFRWARGMTVVAA---LMAVFFIMQLVGQVPAAL--WV 234 Query: 229 TLYISRVT-EISNPGIYFTFFGIA-SIFSTLISGHLSDRWGRSMVAWPAIGLLGLGVSIL 286 R + + GI FGI S+ +I+G ++ R G + G G +L Sbjct: 235 IFGEDRFHWDATTIGISLAAFGILHSLAQAMITGPVAARLGERRALMLGMIADGTGYILL 294 Query: 287 YYLDSGQYTILIISSLLTGIGF 308 + G + I LL G Sbjct: 295 AFATRG-WMAFPIMVLLASGGI 315
>SACTRNSFRASE#Streptothricin acetyltransferase signature. Length = 173 Score = 63.0 bits (153), Expect = 2e-15 Identities = 26/89 (29%), Positives = 42/89 (47%), Gaps = 1/89 (1%) Query: 48 EEEEKRGMTIYLAEKDQQIIGKVNLQLS-TKIGGIYGLGVLPEYRGKGFGRAILMMAIEK 106 E+ G +L + IG++ ++ + I + V +YR KG G A+L AIE Sbjct: 58 SYVEEEGKAAFLYYLENNCIGRIKIRSNWNGYALIEDIAVAKDYRKKGVGTALLHKAIEW 117 Query: 107 LKEANAGEVMLQVAAENANALNFYKSCGF 135 KE + +ML+ N +A +FY F Sbjct: 118 AKENHFCGLMLETQDINISACHFYAKHHF 146
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 93.0 bits (231), Expect = 4e-24 Identities = 29/121 (23%), Positives = 58/121 (47%), Gaps = 3/121 (2%) Query: 2 AHILIVEDEQSINDLIAMNLELVGHTSTQVYEGNEALEFIKQNTYSLIILDIMLPELDGF 61 A IL+ +D+ +I ++ L G+ +I L++ D+++P+ + F Sbjct: 4 ATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63 Query: 62 SLMEYVPE---NIPVIFLTAMGNLSDRVKGLKLGADDYIVKPFETIELLARIEAVLRRTQ 118 L+ + + ++PV+ ++A +K + GA DY+ KPF+ EL+ I L + Sbjct: 64 DLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPK 123 Query: 119 R 119 R Sbjct: 124 R 124
>PF06580#Sensor histidine kinase Length = 349 Score = 32.1 bits (73), Expect = 0.004 Identities = 23/121 (19%), Positives = 50/121 (41%), Gaps = 20/121 (16%) Query: 344 SIKLDIHSSLNELSGDFILLQSLLVNLVDNAVKASTENSSIHLSAYLDI-VPILEVKDFG 402 + I+ ++ ++ +L+Q+L+ N + + + + I L D LEV++ G Sbjct: 241 QFENQINPAIMDVQVPPMLVQTLVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTG 300 Query: 403 CGMDEEQTALVCEPFYRVDTARSRSSGGIGLGLSLCREIAHLHG--AQLKIYSCLGKGTS 460 + ++ S G GL ++ + L+G AQ+K+ GK + Sbjct: 301 SLALKN----------------TKESTGTGL-QNVRERLQMLYGTEAQIKLSEKQGKVNA 343 Query: 461 V 461 + Sbjct: 344 M 344
>PF05272#Virulence-associated E family protein Length = 892 Score = 32.0 bits (72), Expect = 0.004 Identities = 10/56 (17%), Positives = 18/56 (32%), Gaps = 9/56 (16%) Query: 33 IIFVGPSGCGKTTTLRMIAGLEEITQGEISIDGRLVNDVQSKDRDIAMVFQNYALY 88 ++ G G GK+T + + GL+ + I +D Y Sbjct: 599 VVLEGTGGIGKSTLINTLVGLDFFSDTHFDI---------GTGKDSYEQIAGIVAY 645
>MALTOSEBP#Maltose binding protein signature. Length = 396 Score = 31.2 bits (70), Expect = 0.017 Identities = 26/105 (24%), Positives = 49/105 (46%), Gaps = 12/105 (11%) Query: 409 SGKGPDIISVAGLQYENYISRNILVDLSEMMASDNSFDMNKYHTNIFDALKSNGSLYVLP 468 +G GPDII A ++ Y +L +++ D +F +K + +DA++ NG L P Sbjct: 79 TGDGPDIIFWAHDRFGGYAQSGLLAEIT----PDKAFQ-DKLYPFTWDAVRYNGKLIAYP 133 Query: 469 IEFTFNVLMANQGILNQESIIIDDSEWTWNDFKSIAEKVTQKSDS 513 I L+ N+ +L + TW + ++ +++ K S Sbjct: 134 IAVEALSLIYNKDLL-------PNPPKTWEEIPALDKELKAKGKS 171
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 62.5 bits (152), Expect = 1e-12 Identities = 59/360 (16%), Positives = 118/360 (32%), Gaps = 70/360 (19%) Query: 61 VTDTGNVVA----KTIRDLYVHTSMRVTGVMVEVGDEVYQGQTLLTLDTADIENQLKDQQ 116 T G + K I+ + + V ++V+ G+ V +G LL L E Q Sbjct: 84 ATANGKLTHSGRSKEIKPI---ENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQ 140 Query: 117 DQYTQKKLHLEKLIQAGEKLKESNLPEDLMNLDKA------------------------- 151 Q +L + ++ + LPE + + Sbjct: 141 SSLLQARLEQTRYQILSRSIELNKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQN 200 Query: 152 ---------------IQTAQQNVDKAQRNY-------DNNKVLYDEVGAISANELADAKM 189 T +++ + D+ L + AI+ + + + + Sbjct: 201 QKYQKELNLDKKRAERLTVLARINRYENLSRVEKSRLDDFSSLLHK-QAIAKHAVLEQEN 259 Query: 190 SLDSARMDYELAKNNRD---KAIRENNRDIENNNRDIENNNRD-IEITKLDIDMAERRIA 245 A + + K+ + I + + + +N D + T +I + +A Sbjct: 260 KYVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDNIGLLTLELA 319 Query: 246 ELAKEINMGTVTAPSDGIVTEL-YYSEGMTANTSQPLYKIADIQGGFQFIATVNISAGEY 304 + + + AP V +L ++EG T++ L I + A V + Sbjct: 320 KNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAETLMVIVPEDDTLEVTALVQNKDIGF 379 Query: 305 LEVGDTAEISINSLNNRN---IQGKV-----NQIRDNQQEIGVKKDVIIDIDSDELIGGE 356 + VG A I + + + GKV + I D + G+ +VII I+ + L G Sbjct: 380 INVGQNAIIKVEAFPYTRYGYLVGKVKNINLDAIEDQRL--GLVFNVIISIEENCLSTGN 437
>PF05272#Virulence-associated E family protein Length = 892 Score = 32.4 bits (73), Expect = 0.001 Identities = 12/33 (36%), Positives = 18/33 (54%) Query: 35 VIMGKSGSGKTTLLSLISGLDNCTDGTISFGGN 67 V+ G G GK+TL++ + GLD +D G Sbjct: 600 VLEGTGGIGKSTLINTLVGLDFFSDTHFDIGTG 632
>PF06580#Sensor histidine kinase Length = 349 Score = 32.9 bits (75), Expect = 0.002 Identities = 22/105 (20%), Positives = 43/105 (40%), Gaps = 26/105 (24%) Query: 284 LIDNSYKY----NREKGSITVRGSKTNKCVSIDVEDTGIGIPAEHIPFIFDAFYRVDGSR 339 L++N K+ + G I ++G+K N V+++VE+TG + Sbjct: 263 LVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTG------------------SLAL 304 Query: 340 SRKIAGSGLGLSIVKS-IIERHGG--TISVSSENVKGTKISIQLP 381 +G GL V+ + +G I +S + K + + +P Sbjct: 305 KNTKESTGTGLQNVRERLQMLYGTEAQIKLSEKQGKVNAM-VLIP 348
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 90.7 bits (225), Expect = 2e-23 Identities = 31/117 (26%), Positives = 57/117 (48%) Query: 2 KILLIEDEEMLSAIIAKGLRKVGYAVDTVFDGEEALEYYEIYEYDIIILDLNIPKIDGLN 61 IL+ +D+ + ++ + L + GY V + + + D+++ D+ +P + + Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64 Query: 62 VLRTIRKKDTDQKILILSARTKVDERILGLDEGANDYLIKPFDFGELEARIRNLLRR 118 +L I+K D +L++SA+ I ++GA DYL KPFD EL I L Sbjct: 65 LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAE 121
>V8PROTEASE#V8 serine protease family signature. Length = 336 Score = 82.7 bits (204), Expect = 1e-19 Identities = 52/256 (20%), Positives = 76/256 (29%), Gaps = 63/256 (24%) Query: 84 QTPGQSITIEPLQDMTVYSAVTQKAMPSVVGITTVTLQRDAFFGTRRAQGLGTGVVVDER 143 + + I P D + T V I + +GVVV + Sbjct: 62 EQREHANVILPNNDRHQITDTTNGHYAPVTYIQVEAP---------TGTFIASGVVVG-K 111 Query: 144 GYILTNSHVV----------------------GDGEVEEVMVLFYDGQTLPAEVLWNEKS 181 +LTN HVV +G + Y G+ Sbjct: 112 DTLLTNKHVVDATHGDPHALKAFPSAINQDNYPNGGFTAEQITKYSGEG----------- 160 Query: 182 LDLAIIQVE--------GSNFPVAELGNSDNLQVGELAIAIGNPLGLNLERTVTQGIISG 233 DLAI++ G A + N+ QV + G P + T G Sbjct: 161 -DLAIVKFSPNEQNKHIGEVVKPATMSNNAETQVNQNITVTGYPGDKPV---ATMWESKG 216 Query: 234 LNRSLPTEQGQAIDNLIQTDASINPGNSGGPLLNAQGQVIGINTAKMRTAEGLGFSIPIN 293 L E +Q D S GNSG P+ N + +VIGI+ + I Sbjct: 217 KITYLKGE-------AMQYDLSTTGGNSGSPVFNEKNEVIGIHWGGVPNEFNGAVFI-NE 268 Query: 294 TAKPIVDQFIEKGEFT 309 + + Q IE F Sbjct: 269 NVRNFLKQNIEDIHFA 284