>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 61.0 bits (148), Expect = 8e-13 Identities = 25/107 (23%), Positives = 44/107 (41%), Gaps = 3/107 (2%) Query: 146 RVLVVDDSRMARNVIKRTIGNLGMKLITEAEDGAQAIALMKNNMFDLVITDYNMPSVDGL 205 +LV DD R V+ + + G + + A + DLV+TD MP + Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRI-TSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63 Query: 206 ALTQYIRSESQQSHIPILMVSSEANDTHLSNVSQAGVNALCDKPFEP 252 L I+ + +P+L++S++ S+ G KPF+ Sbjct: 64 DLLPRIKKA--RPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDL 108 Score = 46.4 bits (110), Expect = 6e-08 Identities = 34/155 (21%), Positives = 60/155 (38%), Gaps = 6/155 (3%) Query: 10 SILLVEPSDIQRRIIIQRLQQEGILSIQTAENIEAAKDIIARHKPDLIASAMHFDDGTAI 69 +IL+ + R ++ Q L + G ++ N IA DL+ + + D A Sbjct: 5 TILVADDDAAIRTVLNQALSRAG-YDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63 Query: 70 DLLGYLRASADCKDIQFMLVSSECRREQLEIFRQSGVVAILPKPFSADHLATALNATIDL 129 DLL ++ + D+ +++S++ + G LPKPF L + + Sbjct: 64 DLLPRIKKAR--PDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAE 121 Query: 130 LSHDELDLSNFDVQDVRVLVVDDSRM--ARNVIKR 162 L + D QD LV + M V+ R Sbjct: 122 PKRRPSKLED-DSQDGMPLVGRSAAMQEIYRVLAR 155
>DNABINDINGHU#Prokaryotic integration host factor signature. Length = 91 Score = 109 bits (275), Expect = 2e-35 Identities = 45/88 (51%), Positives = 66/88 (75%) Query: 2 NKTELIAKIAENADLTKVEAARALKSFEAAITESMKNGDKISIVGFGSFETATRAARTGR 61 NK +LIAK+AE +LTK ++A A+ + +A++ + G+K+ ++GFG+FE RAAR GR Sbjct: 3 NKQDLIAKVAEATELTKKDSAAAVDAVFSAVSSYLAKGEKVQLIGFGNFEVRERAARKGR 62 Query: 62 NPQTGKEIQIAEATVPKFKAGKTLRDSV 89 NPQTG+EI+I + VP FKAGK L+D+V Sbjct: 63 NPQTGEEIKIKASKVPAFKAGKALKDAV 90
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 61.0 bits (148), Expect = 6e-12 Identities = 29/102 (28%), Positives = 48/102 (47%), Gaps = 3/102 (2%) Query: 3 LLLIDDDEVDRTAIIRALRQSKLTFNVIEANCAFDGLNLALERHFDGILLDYLLPDANGL 62 +L+ DDD RT + +AL S+ ++V + A D ++ D ++PD N Sbjct: 6 ILVADDDAAIRTVLNQAL--SRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63 Query: 63 EVLIKLNAMTQDQTVVVMLSRYEDEKLAQRCIELGAQDFLLK 104 ++L ++ D V+VM S A + E GA D+L K Sbjct: 64 DLLPRIKKARPDLPVLVM-SAQNTFMTAIKASEKGAYDYLPK 104
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 48.3 bits (115), Expect = 2e-09 Identities = 23/112 (20%), Positives = 44/112 (39%), Gaps = 10/112 (8%) Query: 8 QQVTILLVDDDDVDYMAVQRAMRQLRLLNPLVRARDGIEALAILTSLDTIKGPYLILLDL 67 TIL+ DDD + +A+ + + + + + L++ D+ Sbjct: 2 TGATILVADDDAAIRTVLNQALSRAGY--DVRITSNAATLWRWIAA----GDGDLVVTDV 55 Query: 68 NMPRMNGFEFLEQIRS-DPSLSSSVVFMLTTSSTDEDRMKAYSHHVAGYMVK 118 MP N F+ L +I+ P L V +++ +T +KA Y+ K Sbjct: 56 VMPDENAFDLLPRIKKARPDL---PVLVMSAQNTFMTAIKASEKGAYDYLPK 104
>PF06580#Sensor histidine kinase Length = 349 Score = 29.8 bits (67), Expect = 0.039 Identities = 20/107 (18%), Positives = 37/107 (34%), Gaps = 22/107 (20%) Query: 608 LVIRNLISNAIKH---HDLGTGVITVLCESTSKHYLFSVLDDGPGISSAYQNKVFEMFQT 664 ++++ L+ N IKH G I + + V + G Sbjct: 258 MLVQTLVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGS---------------- 301 Query: 665 LKPRDEVEGSGLGLSLVKKTVESLGGN---IQLKSQGRGCCFYFTWP 708 L ++ E +G GL V++ ++ L G I+L + P Sbjct: 302 LALKNTKESTGTGLQNVRERLQMLYGTEAQIKLSEKQGKVNAMVLIP 348
>SACTRNSFRASE#Streptothricin acetyltransferase signature. Length = 173 Score = 37.6 bits (87), Expect = 6e-06 Identities = 21/72 (29%), Positives = 31/72 (43%), Gaps = 5/72 (6%) Query: 75 ASIGRVVVSPAGRGKGLAMPLMQHAIESALTTWPDAGIQIGAQDY-LKA--FYQKLGFVA 131 A I + V+ R KG+ L+ AIE A G+ + QD + A FY K F+ Sbjct: 90 ALIEDIAVAKDYRKKGVGTALLHKAIEWAKEN-HFCGLMLETQDINISACHFYAKHHFII 148 Query: 132 CS-EMYLEDGIP 142 + + L P Sbjct: 149 GAVDTMLYSNFP 160
>TCRTETB#Tetracycline resistance protein TetB signature. Length = 458 Score = 128 bits (324), Expect = 2e-34 Identities = 86/401 (21%), Positives = 169/401 (42%), Gaps = 19/401 (4%) Query: 45 AFMAILDIQITNASMKEIQGSLGATLEEGSWISTAYLVAEMIAIPLSGWLSTGLSVRRYL 104 +F ++L+ + N S+ +I +W++TA+++ I + G LS L ++R L Sbjct: 23 SFFSVLNEMVLNVSLPDIANDFNKPPASTNWVNTAFMLTFSIGTAVYGKLSDQLGIKRLL 82 Query: 105 LWTTAAFIFASVLCSMAWN-LEAMIAFRALQGFFGGALIPLAFRLILEFLPDNKRAVGMA 163 L+ F SV+ + + +I R +QG A L ++ ++P R Sbjct: 83 LFGIIINCFGSVIGFVGHSFFSLLIMARFIQGAGAAAFPALVMVVVARYIPKENRGKAFG 142 Query: 164 LFGVTATFAPSIGPTLGGWLTEQFSWHYLFYINVPPGLLVMAMLAYGLEKQSVVWDKLKN 223 L G +GP +GG + W YL +P ++ L K+ V + Sbjct: 143 LIGSIVAMGEGVGPAIGGMIAHYIHWSYLL--LIPMITIITVPFLMKLLKKEVRIKG--H 198 Query: 224 VDLAGIVTMALGMGCLEVVLEEGNRKDWFGSELIRNLAIIAVVNLVLFVWIQLRRKEPLV 283 D+ GI+ M++G+ + F + + I++V++ ++FV + +P V Sbjct: 199 FDIKGIILMSVGIVFFML----------FTTSYSISFLIVSVLSFLIFVKHIRKVTDPFV 248 Query: 284 NLRLLGKRDFVLSTVAYFLLGMALFGAIYLIPLYLSQVHDYTPLEIGGVIMWMGFPQLLV 343 + L F++ + ++ + G + ++P + VH + EIG VI++ G +++ Sbjct: 249 DPGLGKNIPFMIGVLCGGIIFGTVAGFVSMVPYMMKDVHQLSTAEIGSVIIFPGTMSVII 308 Query: 344 L-PLVPKLMERFDSRYLAAFGFLMFAISYYMNSQMTADYAGPQMIASQVVRALG-QPFIL 401 + L++R Y+ G ++S+ S + + +V LG F Sbjct: 309 FGYIGGILVDRRGPLYVLNIGVTFLSVSFLTASFL--LETTSWFMTIIIVFVLGGLSFTK 366 Query: 402 VPIGMLATMHLKPHENASASTVLNVMRNLGGAFGIALVATL 442 I + + LK E + ++LN L GIA+V L Sbjct: 367 TVISTIVSSSLKQQEAGAGMSLLNFTSFLSEGTGIAIVGGL 407
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 94.9 bits (236), Expect = 1e-23 Identities = 40/289 (13%), Positives = 94/289 (32%), Gaps = 32/289 (11%) Query: 71 LAQLEDNQFSAKVSQAEASLASSKADLQTLAAKVELQRALITQASAGVVAAQADNTRAQQ 130 + + + S + ++ + ++ +RA A + + + + Sbjct: 176 FQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYENLSRVEKS 235 Query: 131 QLSRSKKLKVSNYSSQDDVDQLQAGFDSAAARLDEAKA--------VLVAKQRELAVFN- 181 +L L ++ V + + + A L K+ +L AK+ V Sbjct: 236 RLDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQL 295 Query: 182 ------AQLDQAGSVVDQANATLELAKIQLNDTRVTAPFSGVIGKRGAM-VGQYVQPGQA 234 +L Q + L + + + + AP S + + G V + Sbjct: 296 FKNEILDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAET 355 Query: 235 LYSLVPDGAV-WITANFKETQIQHMQPGQSVQVSLDAFPDKTFIGVIDSLSPASGAKFSL 293 L +VP+ +TA + I + GQ+ + ++AFP + G + K Sbjct: 356 LMVIVPEDDTLEVTALVQNKDIGFINVGQNAIIKVEAFPYTRY-GYLV-------GKVKN 407 Query: 294 LPAENATGNFTKIVQRIPVRIRLDLSEEEAH-----MLPGLSAVVKVDT 337 + + +V V I ++ + + G++ ++ T Sbjct: 408 INLDAIEDQRLGLVFN--VIISIEENCLSTGNKNIPLSSGMAVTAEIKT 454 Score = 52.9 bits (127), Expect = 8e-10 Identities = 21/128 (16%), Positives = 47/128 (36%), Gaps = 2/128 (1%) Query: 59 VTDNQHVQKGELLAQLEDNQFSAKVSQAEASLASSKADLQTLAAKVELQRALITQASAGV 118 V + + V+KG++L +L A + ++SL ++ + L + Sbjct: 112 VKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSR-SIELNKLPELKL 170 Query: 119 VAAQADNTRAQQQLSRSKKLKVSNYSS-QDDVDQLQAGFDSAAARLDEAKAVLVAKQREL 177 +++++ R L +S+ Q+ Q + D A A + + Sbjct: 171 PDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYENLS 230 Query: 178 AVFNAQLD 185 V ++LD Sbjct: 231 RVEKSRLD 238
>MECHCHANNEL#Bacterial mechano-sensitive ion channel signature. Length = 136 Score = 175 bits (444), Expect = 9e-60 Identities = 87/136 (63%), Positives = 111/136 (81%), Gaps = 1/136 (0%) Query: 1 MSLIKEFKAFASRGNVIDMAVGIIIGAAFGKIVSSFVADVIMPPIGIILGGVNFSDLSIV 60 MS+IKEF+ FA RGNV+D+AVG+IIGAAFGKIVSS VAD+IMPP+G+++GG++F ++ Sbjct: 1 MSIIKEFREFAMRGNVVDLAVGVIIGAAFGKIVSSLVADIIMPPLGLLIGGIDFKQFAVT 60 Query: 61 LQAAQGDAPSVVIAYGKFIQTIIDFTIIAFAIFMGLKAINTLKRKEEDAPKAPPAPTKEE 120 L+ AQGD P+VV+ YG FIQ + DF I+AFAIFM +K IN L RK+E+ P A PAPTKEE Sbjct: 61 LRDAQGDIPAVVMHYGVFIQNVFDFLIVAFAIFMAIKLINKLNRKKEE-PAAAPAPTKEE 119 Query: 121 ELLSEIRDLLKAQQEK 136 LL+EIRDLLK Q + Sbjct: 120 VLLTEIRDLLKEQNNR 135
>ACRIFLAVINRP#Acriflavin resistance protein family signature. Length = 1034 Score = 661 bits (1708), Expect = 0.0 Identities = 221/1078 (20%), Positives = 433/1078 (40%), Gaps = 73/1078 (6%) Query: 9 AIKNRLLVVLALLAVIVGCVAMLPKLNLDAFPDVTNVQVTINTAAEGLAAEEVEKLISYP 68 I+ + + + +++ + +L + +P + V+++ G A+ V+ ++ Sbjct: 5 FIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDTVTQV 64 Query: 69 VESAMYALPAVTEVRSLS-RTGLSIVTVVFAEGTDIYFARQQVFEQLQAAREMIPSGVGV 127 +E M + + + S S G +T+ F GTD A+ QV +LQ A ++P V Sbjct: 65 IEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQEVQQ 124 Query: 128 PEIGPNTSGLGQIYQYILRAEPSSGIDAAELRSLNDYLVKLIMMPVGGVTEVLSFGGDVR 187 I S + ++ + G ++ VK + + GV +V FG Sbjct: 125 QGISVEKSSSSYLMVAGFVSD-NPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFGAQ-Y 182 Query: 188 QYQVQVDPNKLRAYGLSMAQVTEALESNNRNAGGWFMDQGQE------QLVVRGYGMLPA 241 ++ +D + L Y L+ V L+ N + + Sbjct: 183 AMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTRF-- 240 Query: 242 GVQGLAAIAQIPLTEDK-GTPVRVGDIAQVDFGSEIRVGAVTMTRRDESGKVQNLGEVVA 300 + ++ L + G+ VR+ D+A+V+ G E + N Sbjct: 241 --KNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARI----------NGKPAAG 288 Query: 301 GVVLKRMGANTKATIDDIGARVSLIEQALPDGVSFEVFYDQAELVDKAVTTVRDALLMAF 360 + GAN T I A+++ ++ P G+ YD V ++ V L A Sbjct: 289 LGIKLATGANALDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAI 348 Query: 361 VFIVVILALFLVNIRATLLVLLSIPVSIGLALMVMSYYGLSANLMSLGGLAVAIGMLVDG 420 + + +++ LFL N+RATL+ +++PV + +++ +G S N +++ G+ +AIG+LVD Sbjct: 349 MLVFLVMYLFLQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDD 408 Query: 421 SVVMVENIFKHLTQPDRRHLAQARSRADGEIDPYHSDEDGGLQASMAVRIMLAAKEVCSP 480 ++V+VEN+ + + + L A + ++ Sbjct: 409 AIVVVENVERVM-------------------------MEDKLPPKEATE--KSMSQIQGA 441 Query: 481 IFFATAIIIVVFAPLFALEGVEGKLFQPMAVSIILAMISALLVALIAVPALAVYLFK--- 537 + ++ VF P+ G G +++ +++I+ AM ++LVALI PAL L K Sbjct: 442 LVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMALSVLVALILTPALCATLLKPVS 501 Query: 538 -------RGVVLKQSVVLAPLDAAYRKLLAATLARPKVVMLSALLMFALSLLLLPRLGTE 590 G + Y + L +L L+ A ++L RL + Sbjct: 502 AEHHENKGGFFGWFNTTFDHSVNHYTNSVGKILGSTGRYLLIYALIVAGMVVLFLRLPSS 561 Query: 591 FVPELEEGTINLRVTLAPTASLGTSLAVAPKLEAILLEFPEVEYALSRIGAPELGGDPEP 650 F+PE ++G + L A+ + V ++ L+ + S + Sbjct: 562 FLPEEDQGVFLTMIQLPAGATQERTQKVLDQVTDYYLKNEKANVE-SVFTVNGFSFSGQA 620 Query: 651 VSNIEVYIGLKPISEWQSASSRLE--LQRLMEEKLSVFPGLLLTFSQPIATRVDELLSGV 708 + ++ LKP E + E + R E + G ++ F+ P + EL + Sbjct: 621 QNAGMAFVSLKPWEERNGDENSAEAVIHRAKMELGKIRDGFVIPFNMP---AIVELGTAT 677 Query: 709 KAQLA-IKIFGPDLAVLSEKGQALSDLVAKIPGAV-DVSLEQVSGEAQLVVRPKRELLAR 766 I G L++ L + A+ P ++ V + AQ + +E Sbjct: 678 GFDFELIDQAGLGHDALTQARNQLLGMAAQHPASLVSVRPNGLEDTAQFKLEVDQEKAQA 737 Query: 767 YGISVDQVMSLVSQSIGGASAGQVIDGNARYDINVRLAAEFRQSPDAIKDLLLSGTNGAT 826 G+S+ + +S ++GG ID + V+ A+FR P+ + L + NG Sbjct: 738 LGVSLSDINQTISTALGGTYVNDFIDRGRVKKLYVQADAKFRMLPEDVDKLYVRSANGEM 797 Query: 827 VRLGEVASVEVEMAPPNIRRDDVQRRVVVQANVA-GRDMGSVVKDIYALVPQADLPAGYT 885 V + P + R + + +Q A G G + + L + LPAG Sbjct: 798 VPFSAFTTSHWVYGSPRLERYNGLPSMEIQGEAAPGTSSGDAMALMENLASK--LPAGIG 855 Query: 886 VIIGGQYENQQRAQQKLMLVVPISIALIALLLYFSFGSFKQVLLIMANVPLALIGGIVAL 945 G ++ + + +V IS ++ L L + S+ + +M VPL ++G ++A Sbjct: 856 YDWTGMSYQERLSGNQAPALVAISFVVVFLCLAALYESWSIPVSVMLVVPLGIVGVLLAA 915 Query: 946 YVSGTYLSVPSSIGFITLFGVAVLNGVVLVDSINQ-RRQSGEALYDCVYEGTVGRLRPVL 1004 + V +G +T G++ N +++V+ + G+ + + RLRP+L Sbjct: 916 TLFNQKNDVYFMVGLLTTIGLSAKNAILIVEFAKDLMEKEGKGVVEATLMAVRMRLRPIL 975 Query: 1005 MTALTSALGLIPILLSSGVGSEIQKPLAVVIIGGLFSSTALTLLVLPTLYRWLYRRDK 1062 MT+L LG++P+ +S+G GS Q + + ++GG+ S+T L + +P + + R K Sbjct: 976 MTSLAFILGVLPLAISNGAGSGAQNAVGIGVMGGMVSATLLAIFFVPVFFVVIRRCFK 1033 Score = 101 bits (253), Expect = 8e-24 Identities = 91/515 (17%), Positives = 193/515 (37%), Gaps = 36/515 (6%) Query: 565 RPKVVMLSALLMFALSLLLLPRLGTEFVPELEEGTINLRVTLAPTASLGT-SLAVAPKLE 623 RP + A+++ L + +L P + +++ P A T V +E Sbjct: 8 RPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSAN-YPGADAQTVQDTVTQVIE 66 Query: 624 AILLEFPEVEYALSRIGAPELGGDPEPVSNIEVYIGLKPISEWQSASSRLELQRLMEEKL 683 + + Y S + ++ + + + ++ A Q ++ KL Sbjct: 67 QNMNGIDNLMYMSST---------SDSAGSVTITLTFQSGTDPDIA------QVQVQNKL 111 Query: 684 SVFPGLLLTFSQPIATRVDELLSGVKAQLAIKIFGPDLAVLSEKGQA---LSDLVAKIPG 740 + LL Q V++ S P + D ++++ G Sbjct: 112 QLATPLLPQEVQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNG 171 Query: 741 AVDVSLEQVSGEAQLVVRPKRELLARYGISVDQVMSLVSQSIGGASAGQVIDGNARYD-- 798 DV L + + + +LL +Y ++ V++ + +AGQ+ A Sbjct: 172 VGDVQL--FGAQYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQ 229 Query: 799 INVRLAAEFR-QSPDAIKDLLL-SGTNGATVRLGEVASVEVEMAPPNIR-RDDVQRRVVV 855 +N + A+ R ++P+ + L ++G+ VRL +VA VE+ N+ R + + + Sbjct: 230 LNASIIAQTRFKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGL 289 Query: 856 QANVA-GRDMGSVVKDIYALVP--QADLPAGYTVIIGGQYENQQRAQQKLMLVVP---IS 909 +A G + K I A + Q P G V+ Y+ Q + VV + Sbjct: 290 GIKLATGANALDTAKAIKAKLAELQPFFPQGMKVLY--PYDTTPFVQLSIHEVVKTLFEA 347 Query: 910 IALIALLLYFSFGSFKQVLLIMANVPLALIGGIVALYVSGTYLSVPSSIGFITLFGVAVL 969 I L+ L++Y + + L+ VP+ L+G L G ++ + G + G+ V Sbjct: 348 IMLVFLVMYLFLQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVD 407 Query: 970 NGVVLVDSINQRRQS-GEALYDCVYEGTVGRLRPVLMTALTSALGLIPILLSSGVGSEIQ 1028 + +V+V+++ + + + ++ A+ + IP+ G I Sbjct: 408 DAIVVVENVERVMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIY 467 Query: 1029 KPLAVVIIGGLFSSTALTLLVLPTLYRWLYRRDKR 1063 + ++ I+ + S + L++ P L L + Sbjct: 468 RQFSITIVSAMALSVLVALILTPALCATLLKPVSA 502
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 54.1 bits (130), Expect = 4e-10 Identities = 36/182 (19%), Positives = 64/182 (35%), Gaps = 22/182 (12%) Query: 109 RATATLVVDRDRTATLAPQLDVRVLARHVVPGQEVKKGEPLLTLGGSAVAQAQADYINAA 168 R V++ R + L + +A+H V QE + +N Sbjct: 225 RYENLSRVEKSRLDDFSSLLHKQAIAKHAVLEQE----------------NKYVEAVNEL 268 Query: 169 AEWSRVKRMSEGAVSVSRRMQAQVDAELKRAILEAIKMTPTQIRALE----STPEAIGSY 224 + E + ++ V K IL+ ++ T I L E + Sbjct: 269 RVYKSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDNIGLLTLELAKNEERQQAS 328 Query: 225 QLLAPIDGRVQQ-DIAMLGQVFSAGTPLMQLT-DESYLWVEAQLTPTQTAHITVGGPALV 282 + AP+ +VQQ + G V + LM + ++ L V A + I VG A++ Sbjct: 329 VIRAPVSVKVQQLKVHTEGGVVTTAETLMVIVPEDDTLEVTALVQNKDIGFINVGQNAII 388 Query: 283 QV 284 +V Sbjct: 389 KV 390 Score = 38.3 bits (89), Expect = 5e-05 Identities = 28/145 (19%), Positives = 56/145 (38%), Gaps = 7/145 (4%) Query: 106 LDIRATA--TLVVDRDRTATLAPQLDVRVLARHVVPGQEVKKGEPLLTLGG----SAVAQ 159 ++I ATA L R+ + P + V V G+ V+KG+ LL L + + Sbjct: 80 VEIVATANGKLTHS-GRSKEIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLK 138 Query: 160 AQADYINAAAEWSRVKRMSEGAVSVSRRMQAQVDAELKRAILEAIKMTPTQIRALESTPE 219 Q+ + A E +R + +S D + + E + T + + + Sbjct: 139 TQSSLLQARLEQTRYQILSRSIELNKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTW 198 Query: 220 AIGSYQLLAPIDGRVQQDIAMLGQV 244 YQ +D + + + +L ++ Sbjct: 199 QNQKYQKELNLDKKRAERLTVLARI 223
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 29.8 bits (67), Expect = 0.023 Identities = 17/156 (10%), Positives = 48/156 (30%), Gaps = 13/156 (8%) Query: 97 QLPEVQAQLTRQQQAELAIQAADRAVYNPELGLNYQNADTDSYSLGLSQTLDWADKRGVA 156 + Q+ L + + + Q R++ L + Y +S+ + Sbjct: 135 DTLKTQSSLLQARLEQTRYQILSRSI--ELNKLPELKLPDEPYFQNVSEEEVLRLTSLIK 192 Query: 157 TKRAELEAQILLADIGLERNQMLAERLLALAEQAQSRKALTFAEQQLRFTKAQLSIAKQR 216 + + + Q ++ L++ + AE+ + E R K++L Sbjct: 193 EQFSTWQNQKYQKELNLDKKR---------AERLTVLARINRYENLSRVEKSRLDDFSSL 243 Query: 217 LAAGDLSNVELQLMQLELATNTADYALAEQAALVAD 252 L ++ + + + + L + + Sbjct: 244 LHKQAIAKHAVLEQENKYVEAVNE--LRVYKSQLEQ 277
>PF07328#T-DNA border endonuclease VirD1 Length = 144 Score = 31.9 bits (72), Expect = 0.003 Identities = 17/69 (24%), Positives = 32/69 (46%), Gaps = 4/69 (5%) Query: 505 APEQIEKVI----RDTKHTTLDSLLADIGLGNAMSIVIAQRLIGDNLENQESRDGHMMPI 560 P +++KVI + + D+ +A++GL ++ IA R IG +EN + + Sbjct: 15 GPARVDKVISVKMTEAELAEFDAQIAELGLNRNRALRIAARRIGGFVENDAKTVELLRDM 74 Query: 561 RGAEGMLVT 569 A + T Sbjct: 75 SRAIAGVAT 83
>PF06580#Sensor histidine kinase Length = 349 Score = 31.8 bits (72), Expect = 0.004 Identities = 20/71 (28%), Positives = 36/71 (50%), Gaps = 11/71 (15%) Query: 276 LIVTELVNNILRHSGASQC------IIDFIQQPDRLILEVKDNGT----SKPIAEGNGLT 325 ++V LV N ++H G +Q ++ + + LEV++ G+ + + G GL Sbjct: 258 MLVQTLVENGIKH-GIAQLPQGGKILLKGTKDNGTVTLEVENTGSLALKNTKESTGTGLQ 316 Query: 326 GIRERLDILGG 336 +RERL +L G Sbjct: 317 NVRERLQMLYG 327
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 77.6 bits (191), Expect = 5e-19 Identities = 29/117 (24%), Positives = 52/117 (44%), Gaps = 1/117 (0%) Query: 2 KILLAEDQAMVRGALAALLTLAGGFNITQASDGDEALNLLKQQSFDLLLTDIEMPGRTGL 61 IL+A+D A +R L L+ AG +++ S+ + DL++TD+ MP Sbjct: 5 TILVADDDAAIRTVLNQALSRAG-YDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63 Query: 62 ELAAWVKEQHSQTKVVVITTFGRAGYIKRAIEAGVGGFLLKDAPSETLVNAIQQVMA 118 +L +K+ V+V++ +A E G +L K L+ I + +A Sbjct: 64 DLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALA 120
>SECA#SecA protein signature. Length = 901 Score = 41.4 bits (97), Expect = 1e-05 Identities = 30/84 (35%), Positives = 39/84 (46%), Gaps = 8/84 (9%) Query: 289 MRLVQGDV-----GSGKTLVAAMAA-LQAIENGYQVAMMAPTELLAEQHATNFAAWFEPL 342 M L + + G GKTL A + A L A+ G V ++ + LA++ A N FE L Sbjct: 92 MVLNERCIAEMRTGEGKTLTATLPAYLNALT-GKGVHVVTVNDYLAQRDAENNRPLFEFL 150 Query: 343 GLKVGW-LAGKLKGKARAQSLADI 365 GL VG L G R ADI Sbjct: 151 GLTVGINLPGMPAPAKREAYAADI 174
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 63.1 bits (153), Expect = 1e-14 Identities = 41/209 (19%), Positives = 66/209 (31%), Gaps = 13/209 (6%) Query: 1 MKIETQSTRQHILDIGYKLIVRKGFSSVGLSLLLQAAEVPKGSFYHYFKSKEQFGEALIT 60 K E Q TRQHILD+ +L ++G SS L + +AA V +G+ Y +FK K + Sbjct: 5 TKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWE 64 Query: 61 DYFEKYQLDLDALFNDSTLTGHQRLMQYWQQWLHVQADGCVDQKCLVVKLSAEVADLSEA 120 L + L + + + A Sbjct: 65 LSESNIGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFVGEMA 124 Query: 121 MRVALLKGSAG-IIDRLTTCVQVGINDSSI-ADQDPQSTAEM-------LYHMWLGAS-- 169 + + DR+ ++ I + AD + A + L WL A Sbjct: 125 VVQQAQRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYISGLMENWLFAPQS 184 Query: 170 --LMNKLGHSPAALERALVTTKAILTPKT 196 L + A L + + P T Sbjct: 185 FDLKKEARDYVAILLEMYLLCPTLRNPAT 213
>PF06580#Sensor histidine kinase Length = 349 Score = 39.5 bits (92), Expect = 1e-05 Identities = 35/188 (18%), Positives = 70/188 (37%), Gaps = 33/188 (17%) Query: 166 TLIIEQADRLRNLVDRL-------LGPQRPTQHSLHNIHQVVQKVYKLVEMALPANIQLK 218 LI+E + R ++ L L Q SL + VV +L + +Q + Sbjct: 184 ALILEDPTKAREMLTSLSELMRYSLRYSNARQVSLADELTVVDSYLQLASIQFEDRLQFE 243 Query: 219 RDYDPSIPDIEMDPDQMQQAVLNILQNAVQALEHTGGEILIRTRTQHQVTIGSQRHKLVL 278 +P+I D+++ P +Q V N +++ + L GG+IL++ + + Sbjct: 244 NQINPAIMDVQVPPMLVQTLVENGIKHGIAQLPQ-GGKILLKGTKDNGT----------V 292 Query: 279 TLSIIDNGPGIPPELMDTLFYPMVTGREQGSGLGLSIAHNIARLHSG---RIDCLSSAGH 335 TL + + G ++ +G GL ++ G +I G Sbjct: 293 TLEVENTGSLALKN------------TKESTGTGLQNVRERLQMLYGTEAQIKLSEKQGK 340 Query: 336 TEFIISLP 343 ++ +P Sbjct: 341 VNAMVLIP 348
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 560 bits (1445), Expect = 0.0 Identities = 197/473 (41%), Positives = 294/473 (62%), Gaps = 11/473 (2%) Query: 7 VWILDDDSSIRWVLEKALQGAKLSTASFAAAESLWQALEISQPHVIVSDIRMPGTDGLSL 66 + + DDD++IR VL +AL A + A +LW+ + ++V+D+ MP + L Sbjct: 6 ILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFDL 65 Query: 67 LERLQVHYPHIPVIIMTAHSDLDSAVSAYQAGAFEYLPKPFDIDEAISLVERALTHATEQ 126 L R++ P +PV++M+A + +A+ A + GA++YLPKPFD+ E I ++ RAL + Sbjct: 66 LPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKRR 125 Query: 127 SPAPAQEAQVKTPEIIGEAPAMQEVFRAIGRLSRSSISVLINGQSGTGKELVAGALHKHS 186 P+ ++ ++G + AMQE++R + RL ++ ++++I G+SGTGKELVA ALH + Sbjct: 126 -PSKLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVARALHDYG 184 Query: 187 PRKDKPFIALNMAAIPKDLIESELFGHEKGAFTGAANVRQGRFEQANGGTLFLDEIGDMP 246 R++ PF+A+NMAAIP+DLIESELFGHEKGAFTGA GRFEQA GGTLFLDEIGDMP Sbjct: 185 KRRNGPFVAINMAAIPRDLIESELFGHEKGAFTGAQTRSTGRFEQAEGGTLFLDEIGDMP 244 Query: 247 LDVQTRLLRVLADGQFYRVGGHNAVQVDVRIIAATHQDLELLVQKGGFREDLFHRLNVIR 306 +D QTRLLRVL G++ VGG ++ DVRI+AAT++DL+ + +G FREDL++RLNV+ Sbjct: 245 MDAQTRLLRVLQQGEYTTVGGRTPIRSDVRIVAATNKDLKQSINQGLFREDLYYRLNVVP 304 Query: 307 VHLPPLSQRREDIPQLATHFLASAAKEIGVETKIMTKETAVKLSQLPWPGNVRQLENTCR 366 + LPPL R EDIP L HF+ A KE G++ K +E + PWPGNVR+LEN R Sbjct: 305 LRLPPLRDRAEDIPDLVRHFVQQAEKE-GLDVKRFDQEALELMKAHPWPGNVRELENLVR 363 Query: 367 WLTVMASGQEILPQDLPPELLKDPVSVTHTAKGSQDWQSALTEWIDQKLSE--------- 417 LT + I + + EL + ++ ++++ +++ + + Sbjct: 364 RLTALYPQDVITREIIENELRSEIPDSPIEKAAARSGSLSISQAVEENMRQYFASFGDAL 423 Query: 418 GNSDLLTEVQPAFERILLETALRHTQGHKQEAAKRLGWGRNTLTRKLKELSMD 470 S L V E L+ AL T+G++ +AA LG RNTL +K++EL + Sbjct: 424 PPSGLYDRVLAEMEYPLILAALTATRGNQIKAADLLGLNRNTLRKKIRELGVS 476
>OMPADOMAIN#OMPA domain signature. Length = 346 Score = 63.8 bits (155), Expect = 1e-14 Identities = 46/198 (23%), Positives = 70/198 (35%), Gaps = 18/198 (9%) Query: 1 MNKLSIVAISLLSTLATAQVSAATDTTGFYVGGALNRVTVDGDDFTDSQSGT-----GAG 55 M K +I AI++ AA +Y G L F ++ T GAG Sbjct: 1 MKKTAI-AIAVALAGFATVAQAAPKDNTWYTGAKLGWSQYHDTGFINNNGPTHENQLGAG 59 Query: 56 IYGGYNFNEWFGLEANLFATGDL----GDKDIDVSAGALSFTPKFTAQINDIFSAYAKVG 111 +GGY N + G E G + ++ A + T K I D Y ++G Sbjct: 60 AFGGYQVNPYVGFEMGYDWLGRMPYKGSVENGAYKAQGVQLTAKLGYPITDDLDIYTRLG 119 Query: 112 IA--SMAIVLDGNGIDEDLTGFGWTYGVGVNAAVTEHLNIRVSYDVTTGKLDADNNYLGL 169 + G + D TG + GV A+T + R+ Y T DA Sbjct: 120 GMVWRADTKSNVYGKNHD-TGVSPVFAGGVEYAITPEIATRLEYQWTNNIGDAHTI---- 174 Query: 170 KDIDTDIKQFAVGMHYQF 187 D ++G+ Y+F Sbjct: 175 -GTRPDNGMLSLGVSYRF 191
>OUTRMMBRANEA#Outer membrane protein A signature. Length = 346 Score = 28.4 bits (63), Expect = 0.016 Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 4/49 (8%) Query: 7 LKASLFAILASSAVFATAVNAAPKD----AGCDFSKSEFHKGDRMEHGG 51 +K + AI + A FAT AAPKD G S++H + + G Sbjct: 1 MKKTAIAIAVALAGFATVAQAAPKDNTWYTGAKLGWSQYHDTGFINNNG 49
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 96.1 bits (239), Expect = 4e-25 Identities = 44/163 (26%), Positives = 75/163 (46%), Gaps = 3/163 (1%) Query: 2 SRILLIDDDLGLSELLGQLLELEGFQLTLAYDGKQGLDLALNADYDLILLDVMLPKLNGF 61 + IL+ DDD + +L Q L G+ + + + D DL++ DV++P N F Sbjct: 4 ATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63 Query: 62 EVLRALRQH-KQTPVLMLTARGDEIDRVVGLEIGADDYLPKPFNDRELIARIRAIIRRSN 120 ++L +++ PVL+++A+ + + E GA DYLPKPF+ ELI I + Sbjct: 64 DLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPK 123 Query: 121 LTTQEIHAAPAQEFGDLRLDPSRQEAYCNEQLIILTGTEFTLL 163 ++ + + QE Y L L T+ TL+ Sbjct: 124 RRPSKLEDDSQDGMPLVGRSAAMQEIY--RVLARLMQTDLTLM 164
>PF06580#Sensor histidine kinase Length = 349 Score = 38.3 bits (89), Expect = 4e-05 Identities = 21/118 (17%), Positives = 47/118 (39%), Gaps = 12/118 (10%) Query: 277 EAEQLEKLISELLELSRVKLSTNETKVHLGLAESLSQVLDDAEFEAEQQGKSIT--IDID 334 + + ++++ L EL R L + + LA+ L+ V + + Q + I+ Sbjct: 189 DPTKAREMLTSLSELMRYSLRYSNARQVS-LADELTVVDSYLQLASIQFEDRLQFENQIN 247 Query: 335 EEIELAHFPKSLSRAIENLLRNAIRYAASD------IQLQASATADQVKITIKDDGPG 386 I P L ++ L+ N I++ + I L+ + V + +++ G Sbjct: 248 PAIMDVQVPPML---VQTLVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSL 302
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 36.9 bits (85), Expect = 3e-05 Identities = 25/135 (18%), Positives = 56/135 (41%), Gaps = 9/135 (6%) Query: 4 WEQRTDYLVEVAQRCL--RGHQSFDLYRSHLVAASQISKGTIYNHFTTEADLVVAVACAQ 61 ++ ++++VA R +G S L + A+ +++G IY HF ++DL + Sbjct: 9 AQETRQHILDVALRLFSQQGVSSTSL--GEIAKAAGVTRGAIYWHFKDKSDLFSEIWELS 66 Query: 62 YQDWL-ISAKQDRQQYSDP---FECDLFHHCQRLHDVLAHKRFVIERVMPNQELLQQASE 117 + + + + DP L H + +R ++E + E + + + Sbjct: 67 ESNIGELELEYQAKFPGDPLSVLREILIHVLESTV-TEERRRLLMEIIFHKCEFVGEMAV 125 Query: 118 VYRNRFNDLLDQYKK 132 V + + N L+ Y + Sbjct: 126 VQQAQRNLCLESYDR 140
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 30.2 bits (68), Expect = 0.020 Identities = 10/31 (32%), Positives = 17/31 (54%), Gaps = 1/31 (3%) Query: 39 KWDKEIEILIVGSGFAGLAAAIEATRKGAKD 69 K ++ +L++ S AI+A+ KGA D Sbjct: 71 KARPDLPVLVM-SAQNTFMTAIKASEKGAYD 100
>NUCEPIMERASE#Nucleotide sugar epimerase signature. Length = 334 Score = 29.8 bits (67), Expect = 0.015 Identities = 13/28 (46%), Positives = 18/28 (64%), Gaps = 2/28 (7%) Query: 151 ILVTGASGGVGS-VAVTLLANAGYRVVA 177 LVTGA+G +G V+ LL G++VV Sbjct: 3 YLVTGAAGFIGFHVSKRLLEA-GHQVVG 29
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 331 bits (849), Expect = e-109 Identities = 130/468 (27%), Positives = 225/468 (48%), Gaps = 50/468 (10%) Query: 201 DLAAQPNLLSSGWQGIVIADS-----DG-----RIVGYNPMAKQLL--NQAKVGDSVEQY 248 + A +++G +V+ D + RI P L+ Q +++ Sbjct: 35 NAATLWRWIAAGDGDLVVTDVVMPDENAFDLLPRIKKARPDLPVLVMSAQNTFMTAIKAS 94 Query: 249 LGDNWSRAGGFNQHLD-------LHLQTQSLNIPSAKSRVAMSNKSLNQLGVRFHDPQLE 301 G ++ + + ++L P + + + S + + + ++ Sbjct: 95 ------EKGAYDYLPKPFDLTELIGIIGRALAEPKRRPS-KLEDDSQDGMPLVGRSAAMQ 147 Query: 302 RAWQHANKVITKQIPLLVLGETGVGKEQFVKKLHAHSVRRSEPLVAVNCAALPAELVESE 361 ++ +++ + L++ GE+G GKE + LH + RR+ P VA+N AA+P +L+ESE Sbjct: 148 EIYRVLARLMQTDLTLMITGESGTGKELVARALHDYGKRRNGPFVAINMAAIPRDLIESE 207 Query: 362 LFGYQAGAFTGANRTGFIGKIRQAHGGFLFLDEIGEMPLAAQSRLLRVLQEREVVPVGSN 421 LFG++ GAFTGA G+ QA GG LFLDEIG+MP+ AQ+RLLRVLQ+ E VG Sbjct: 208 LFGHEKGAFTGAQTRS-TGRFEQAEGGTLFLDEIGDMPMDAQTRLLRVLQQGEYTTVGGR 266 Query: 422 QSFKVDIQIIAATHMDLEQQVAQGLFRQDLFYRLNGLQVRLPALRERQ-DIERIIH---K 477 + D++I+AAT+ DL+Q + QGLFR+DL+YRLN + +RLP LR+R DI ++ + Sbjct: 267 TPIRSDVRIVAATNKDLKQSINQGLFREDLYYRLNVVPLRLPPLRDRAEDIPDLVRHFVQ 326 Query: 478 LHRKHRIAPQAICPELLGLLVQHDWPGNLRELDNLMQVACLMAEGDDTLTWQHLPDYLAQ 537 K + + E L L+ H WPGN+REL+NL++ + D +T + + + L Sbjct: 327 QAEKEGLDVKRFDQEALELMKAHPWPGNVRELENLVRRLTALYPQ-DVITREIIENELRS 385 Query: 538 KLAAGPLTVDPLNTQLLNEEQPLGEEAKTGQHSASHPLAGKVVSGKVTRGNTATLPTTTA 597 ++ P+ + + + + + Sbjct: 386 EIPDSPIEKAAARS----GSLSISQAVEENMRQYFASFGD--------------ALPPSG 427 Query: 598 VQSDSLHEAIYSNVLQAHQACNGNVSQCAKRLGISRNALYRRLKQMGL 645 + L E Y +L A A GN + A LG++RN L ++++++G+ Sbjct: 428 LYDRVLAEMEYPLILAALTATRGNQIKAADLLGLNRNTLRKKIRELGV 475
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 32.2 bits (73), Expect = 0.001 Identities = 16/41 (39%), Positives = 27/41 (65%), Gaps = 3/41 (7%) Query: 3 LKLTSAQRGFTLLEMLIAIAIFAMIGLASNAVLSTVLTNDE 43 ++ T QRGFTLLE+++ I I IG+ ++ V+ ++ N E Sbjct: 1 MRATDKQRGFTLLEIMVVIVI---IGVLASLVVPNLMGNKE 38
>PilS_PF08805#PilS N terminal Length = 185 Score = 29.1 bits (65), Expect = 0.003 Identities = 11/32 (34%), Positives = 17/32 (53%) Query: 5 KGMTLLEVIVALAVFSIAAVSITKSLGEQMAN 36 KG TL+EV++ + V + A S K +N Sbjct: 26 KGATLMEVLLVVGVIVVLAASAYKLYSMVQSN 57
>BCTERIALGSPH#Bacterial general secretion pathway protein H signature. Length = 170 Score = 84.2 bits (208), Expect = 5e-23 Identities = 44/171 (25%), Positives = 70/171 (40%), Gaps = 39/171 (22%) Query: 4 LRHAGFTLMEVMLVILLMGLTAAAVTMSIGNSGPQQALDRTARQFIAATEMVLDETVLSG 63 +R GFTL+E+ML++LLMG++A V ++ S A AR F A V + +G Sbjct: 1 MRQRGFTLLEMMLILLLMGVSAGMVLLAFPASRDDSAAQTLAR-FEAQLRFVQQRGLQTG 59 Query: 64 QFIGIVIEKTSYQFVFYKDG---------------KWEPLDKDRLLSEKQMEPGVVMNLV 108 QF G+ + +QF+ + +W PL R+ + Sbjct: 60 QFFGVSVHPDRWQFLVLEARDGADPAPADDGWSGYRWLPLRAGRVATSGS---------- 109 Query: 109 LDGLPLVQDDEEDDSWFEEPLIEPSADDKKKHPEPQVMLFPSGEMSAFELT 159 + G L + ++W P V++FP GEM+ F LT Sbjct: 110 IAGGKLNLAFAQGEAW-------------TPGDNPDVLIFPGGEMTPFRLT 147
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 229 bits (584), Expect = 6e-81 Identities = 97/144 (67%), Positives = 119/144 (82%) Query: 1 MQMNKKHQGFTLLEVMVVIVILGILASMVVPNLMGNKDKADQQKAVSDIVALENALDMYK 60 M+ K +GFTLLE+MVVIVI+G+LAS+VVPNLMGNK+KAD+QKAVSDIVALENALDMYK Sbjct: 1 MRATDKQRGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQKAVSDIVALENALDMYK 60 Query: 61 LDNGIYPTTEQGLEALVQKPTISPEPRNYREDGYVKRLPEDPWRNKYLLLSPGENGKLDI 120 LDN YPTT QGLE+LV+ PT+ P NY ++GY+KRLP DPW N Y+L++PGE+G D+ Sbjct: 61 LDNHHYPTTNQGLESLVEAPTLPPLAANYNKEGYIKRLPADPWGNDYVLVNPGEHGAYDL 120 Query: 121 FTAGPDGQPGTEDDIGNWNLQNFQ 144 +AGPDG+ GTEDDI NW L + Sbjct: 121 LSAGPDGEMGTEDDITNWGLSKKK 144
>BCTERIALGSPF#Bacterial general secretion pathway protein F signature. Length = 408 Score = 505 bits (1302), Expect = 0.0 Identities = 228/407 (56%), Positives = 304/407 (74%), Gaps = 1/407 (0%) Query: 1 MPAFEYKALDAKGKQLKGVIEADTARHARSQLRDQRMMPLEILPVAEKEAKAKSSSFAF- 59 M + Y+ALDA+GK+ +G EAD+AR AR LR++ ++PL + + K+ S+ + Sbjct: 1 MAQYHYQALDAQGKKCRGTQEADSARQARQLLRERGLVPLSVDENRGDQQKSGSTGLSLR 60 Query: 60 FKRGISVAELALITRQIATLVAAGLPIEESLKAVGQQCEKDRLASMIMAVRSRVVEGYSL 119 K +S ++LAL+TRQ+ATLVAA +P+EE+L AV +Q EK L+ ++ AVRS+V+EG+SL Sbjct: 61 RKIRLSTSDLALLTRQLATLVAASMPLEEALDAVAKQSEKPHLSQLMAAVRSKVMEGHSL 120 Query: 120 ADSLAEFPHIFDDLYRAMVASGEKSGHLEVVLNRLADYTERRQQLKSKLTQAMIYPAVLT 179 AD++ FP F+ LY AMVA+GE SGHL+ VLNRLADYTE+RQQ++S++ QAMIYP VLT Sbjct: 121 ADAMKCFPGSFERLYCAMVAAGETSGHLDAVLNRLADYTEQRQQMRSRIQQAMIYPCVLT 180 Query: 180 TVAIGVISILLAAVVPKVVGQFEHMGAELPASTRFLISASDFVQNYGVFVVIALVMLFAL 239 VAI V+SILL+ VVPKVV QF HM LP STR L+ SD V+ +G ++++AL+ F Sbjct: 181 VVAIAVVSILLSVVVPKVVEQFIHMKQALPLSTRVLMGMSDAVRTFGPWMLLALLAGFMA 240 Query: 240 FRRMLKSPAFRMKYDNFLLSMPVVGRVSKGLNTARFARTLSILSASSVPLLDGMRIASEV 299 FR ML+ R+ + LL +P++GR+++GLNTAR+ARTLSIL+AS+VPLL MRI+ +V Sbjct: 241 FRVMLRQEKRRVSFHRRLLHLPLIGRIARGLNTARYARTLSILNASAVPLLQAMRISGDV 300 Query: 300 LQNVRVRAAVDDATARVREGTSLGAALTNTKLFPAMMLYMIASGEKSGQLEQMLERAADN 359 + N R + AT VREG SL AL T LFP MM +MIASGE+SG+L+ MLERAADN Sbjct: 301 MSNDYARHRLSLATDAVREGVSLHKALEQTALFPPMMRHMIASGERSGELDSMLERAADN 360 Query: 360 QDREFEGNVNIALGVFEPMLVVSMACVVLFIVMAILQPILALNNLIS 406 QDREF + +ALG+FEP+LVVSMA VVLFIV+AILQPIL LN L+S Sbjct: 361 QDREFSSQMTLALGLFEPLLVVSMAAVVLFIVLAILQPILQLNTLMS 407
>BCTERIALGSPD#Bacterial general secretion pathway protein D signature. Length = 660 Score = 605 bits (1561), Expect = 0.0 Identities = 327/681 (48%), Positives = 446/681 (65%), Gaps = 34/681 (4%) Query: 6 IRRKLIAGVVAGAAMFSSQFAWSEQYAANFKGTDIQEFINIVGKNLNKTIIVDPTIRGKI 65 IR + ++ A +F A +E+++A+FKGTDIQEFIN V KNLNKT+I+DP++RG I Sbjct: 7 IRSFSLTLLIFAALLFRP--AAAEEFSASFKGTDIQEFINTVSKNLNKTVIIDPSVRGTI 64 Query: 66 NVRSYDLLNDEQYYQFFLNVLQVYGYAIVEMENNVIKVIKDKDAKTAAIRVANDNEPGMG 125 VRSYD+LN+EQYYQFFL+VL VYG+A++ M N V+KV++ KDAKTAA+ VA+D PG+G Sbjct: 65 TVRSYDMLNEEQYYQFFLSVLDVYGFAVINMNNGVLKVVRSKDAKTAAVPVASDAAPGIG 124 Query: 126 DEMVTRIVALYNTEAKQLAPLLRQLNDNAGGGNVVNYDPSNVLMLSGRAAVVNKLVEIVR 185 DE+VTR+V L N A+ LAPLLRQLNDNAG G+VV+Y+PSNVL+++GRAAV+ +L+ IV Sbjct: 125 DEVVTRVVPLTNVAARDLAPLLRQLNDNAGVGSVVHYEPSNVLLMTGRAAVIKRLLTIVE 184 Query: 186 RVDKQGDTSVQVVPLEYASAGEMVRIIDTLYRATANQAQLPGQAPKVVADERINAVVVSG 245 RVD GD SV VPL +ASA ++V+++ L + T+ A VVADER NAV+VSG Sbjct: 185 RVDNAGDRSVVTVPLSWASAADVVKLVTELNKDTSKSALPGSMVANVVADERTNAVLVSG 244 Query: 246 DEKSRQRVVELIHRLDAEQASTGNTKVRYLRYAKAEDLVEVLTGFAQKLEGDKDPSAQAA 305 + SRQR++ +I +LD +QA+ GNTKV YL+YAKA DLVEVLTG + ++ +K A Sbjct: 245 EPNSRQRIIAMIKQLDRQQATQGNTKVIYLKYAKASDLVEVLTGISSTMQSEK--QAAKP 302 Query: 306 GGKRRNEINIMAHTETNALVISAEPDQMRTIESVINQLDIRRAQVLVEAIIVEVAEGDNV 365 I I AH +TNAL+++A PD M +E VI QLDIRR QVLVEAII EV + D + Sbjct: 303 VAALDKNIIIKAHGQTNALIVTAAPDVMNDLERVIAQLDIRRPQVLVEAIIAEVQDADGL 362 Query: 366 GFGVQWAAKAGGGTQFNNLGPTIGEIGAGVWAAQPIEGDLVCSGTNLDNCKKNPDKQGDV 425 G+QWA K G TQF N G I AG +G + S Sbjct: 363 NLGIQWANKNAGMTQFTNSGLPISTAIAGA-NQYNKDGTVSSS----------------- 404 Query: 426 TLLAQALGKVNGMAWGVAMGDFGALIQAVSSDTNSNVLATPSITTLDNQEASFIVGDEVP 485 LA AL NG+A G G++ L+ A+SS T +++LATPSI TLDN EA+F VG EVP Sbjct: 405 --LASALSSFNGIAAGFYQGNWAMLLTALSSSTKNDILATPSIVTLDNMEATFNVGQEVP 462 Query: 486 ILTGSTASSNNSNPFQTVERKEVGVKLKVVPQINEGNAVKLTIEQEVSGVNG-----NTG 540 +LTGS +++ N F TVERK VG+KLKV PQINEG++V L IEQEVS V ++ Sbjct: 463 VLTGSQ-TTSGDNIFNTVERKTVGIKLKVKPQINEGDSVLLEIEQEVSSVADAASSTSSD 521 Query: 541 VDISFATRRLTTTVMADSGQIVVLGGLINEEVQESVQKVPFLGDIPILGHLFKSSSSKKT 600 + +F TR + V+ SG+ VV+GGL+++ V ++ KVP LGDIP++G LF+S+S K + Sbjct: 522 LGATFNTRTVNNAVLVGSGETVVVGGLLDKSVSDTADKVPLLGDIPVIGALFRSTSKKVS 581 Query: 601 KKNLMIFIKPTIIRDGVTMEGIAGRKYNYFRALQLEQ--QERGVNLMPNTQVPVLEEWNQ 658 K+NLM+FI+PT+IRD + +Y F Q +Q +E ++ + + Q Sbjct: 582 KRNLMLFIRPTVIRDRDEYRQASSGQYTAFNDAQSKQRGKENNDAMLNQDLLEIYP--RQ 639 Query: 659 SEYLPPEVNAILERYKEGKGL 679 +V+A ++ + G L Sbjct: 640 DTAAFRQVSAAIDAFNLGGNL 660
>BCTERIALGSPC#Bacterial general secretion pathway protein C signature. Length = 272 Score = 179 bits (456), Expect = 4e-57 Identities = 69/288 (23%), Positives = 137/288 (47%), Gaps = 36/288 (12%) Query: 17 KLLSRIVFWLGFIVIMLLAAQITWKL-VPTHSSASAWSPTPVSVNGKGAGQVDLAGLQQL 75 ++ RI+F+L ++ A I W++ +P ++ S+ TP + L Sbjct: 12 SVIRRILFYLLMLLFCQQLAMIFWRIGLPDNAPVSSVQITPAQARQQPVT------LNDF 65 Query: 76 GLFGKADATSDKPKVEVVETVTDAPKTTLSIQLTGVVASTADQKGLAIIESSGSQETYSL 135 LFG + + ++ +++ P +TL++ LTGV+A D + +AII Q + + Sbjct: 66 TLFGVSPEKNKAGALDA-SQMSNLPPSTLNLSLTGVMAGDDDSRSIAIISKDNEQFSRGV 124 Query: 136 GDKIKGTSASLKEVYADRIIITNAGRYETLMLDGLVYTSQSPANQQLQQAKSNKADSAVS 195 +++ G +A + + DR+++ GRYE L L + Sbjct: 125 NEEVPGYNAKIVSIRPDRVVLQYQGRYEVLGLYSQEDSGSDGVPG--------------- 169 Query: 196 RVDQRKNAEISQELAESRTELLADPSKITDYIAISPVRQGDSVAGYRLNPGKDANLFKQA 255 A+++++L + + ++DY++ SP+ + + GYRLNPG ++ F + Sbjct: 170 -------AQVNEQLQQR------ASTTMSDYVSFSPIMNDNKLQGYRLNPGPKSDSFYRV 216 Query: 256 GFKANDLAKSINGYDLTIMSQALEMMSQLPELTEVSIMVEREGQLVEI 303 G + ND+A ++NG DL QA + M ++ ++ ++ VER+GQ +I Sbjct: 217 GLQDNDMAVALNGLDLRDAEQAKKAMERMADVHNFTLTVERDGQRQDI 264
>ECOLIPORIN#E.coli/Salmonella-type porin signature. Length = 383 Score = 33.3 bits (76), Expect = 0.004 Identities = 59/276 (21%), Positives = 100/276 (36%), Gaps = 67/276 (24%) Query: 411 DDTSVTLGYYNATQ-NIGMS----WMWNSYLMEVKGDNAALLDVVAADGTAYSDNGLYGY 465 D T + +G+ TQ N ++ W +N +G+ A +A G + D G + Y Sbjct: 53 DQTYMRVGFKGETQINDQLTGYGQWEYNVQANTTEGEGANSWTRLAFAGLKFGDYGSFDY 112 Query: 466 GVPYWGNCCQRNYDTDYSIKAPYLALASSFGDLSLDASVRYDSGDASG------------ 513 G RNY Y ++ + + FG S + Y +G A+G Sbjct: 113 G---------RNYGVLYDVEG-WTDMLPEFGGDSYTYADNYMTGRANGVATYRNTDFFGL 162 Query: 514 ----NYAGSVQSQVDMNLDGVISIPEQSVSSIDNANPQPVNYDWSYTSYSLGANYQFSSD 569 N+A Q + + ++I + ++ D+ N D + + Y Sbjct: 163 VDGLNFALQYQGKNESQSADDVNIGTNNRNNGDDIRYD--NGD----GFGISTTYDIGMG 216 Query: 570 LAAFGRLSHGGRANADRLLFGKVRADGSVAKEDAVDIVDQYELGVKYRYDDLSVFATAFY 629 +A + R N +++ G A G A D + G+KY D +++ Y Sbjct: 217 FSAGAAYTTSDRTN-EQVNAGGTIAGGDKA--------DAWTAGLKY--DANNIYLATMY 265 Query: 630 SET-------------------EEQNFEATSQRFFD 646 SET + QNFE T+Q FD Sbjct: 266 SETRNMTPYGKTDKGYDGGVANKTQNFEVTAQYQFD 301
>TCRTETA#Tetracycline resistance protein signature. Length = 399 Score = 59.8 bits (145), Expect = 6e-12 Identities = 69/368 (18%), Positives = 128/368 (34%), Gaps = 46/368 (12%) Query: 22 LMFFMFAMTSDAVGV-----IIPELISQFGLSMSQASAFHYMPMIFIAMSGLF---LGFL 73 L+ + + DAVG+ ++P L+ S + + + ++ M LG L Sbjct: 7 LIVILSTVALDAVGIGLIMPVLPGLLRDLVHSNDVTAHYGILLALYALMQFACAPVLGAL 66 Query: 74 ADKIGRKLTILLGLLLFALACFMFALGESFYYFLFLLAFVGTAIGVFKTGALGLIGDIST 133 +D+ GR+ +L+ L A+ + A F + L++ V G A I DI T Sbjct: 67 SDRFGRRPVLLVSLAGAAVDYAIMATA-PFLWVLYIGRIVAGITGATGAVAGAYIADI-T 124 Query: 134 SSKQHSSTMNTVEGYFGVGAMIGPAIVSYLLISGVSWKYLYFGAGC-----FCLVLCWL- 187 + + + FG G + GP + + G S +F A F L Sbjct: 125 DGDERARHFGFMSACFGFGMVAGPVLGGLM--GGFSPHAPFFAAAALNGLNFLTGCFLLP 182 Query: 188 ----AYRADYPQIKRSSTDAINLASTFKMMKNPYALGFSL-AIGLYVATEVAIYV----- 237 R + + + A ++ A+ F + +G A I+ Sbjct: 183 ESHKGERRPLRREALNPLASFRWARGMTVVAALMAVFFIMQLVGQVPAALWVIFGEDRFH 242 Query: 238 WMPTLLQSYQGDYTTLAAYALT-IFFTLRAGGRFLGGWVLERFPWQQVMFWFSFAISACY 296 W T + +LAA+ + G R +M + Sbjct: 243 WDATTIG------ISLAAFGILHSLAQAMITGPVAARLGERRA----LMLGMIADGTGYI 292 Query: 297 LGSMI---YGIEAAVVLLPLSGLFMSMMYPTLNSKGISCFPVDQHGSVAGVILFFTAVSA 353 L + + +VLL G+ M + S+ + ++ G + G + T++++ Sbjct: 293 LLAFATRGWMAFPIMVLLASGGIGMP-ALQAMLSRQVD---EERQGQLQGSLAALTSLTS 348 Query: 354 AVGPLLMG 361 VGPLL Sbjct: 349 IVGPLLFT 356
>TCRTETB#Tetracycline resistance protein TetB signature. Length = 458 Score = 111 bits (280), Expect = 7e-29 Identities = 85/430 (19%), Positives = 171/430 (39%), Gaps = 29/430 (6%) Query: 30 FLAAVDQTLLATATPAIVEDLGGLR-QASWITIGYMLAMAASVPIYGWLGDNFGRAKILM 88 F + +++ +L + P I D +W+ +ML + +YG L D G ++L+ Sbjct: 24 FFSVLNEMVLNVSLPDIANDFNKPPASTNWVNTAFMLTFSIGTAVYGKLSDQLGIKRLLL 83 Query: 89 IAIVIFALGSIVSA-SAGTMDHMIAGRILQGMGGGGLMSLSQSLIGELVPIRQRARFQGY 147 I+I GS++ +I R +QG G +L ++ +P R + G Sbjct: 84 FGIIINCFGSVIGFVGHSFFSLLIMARFIQGAGAAAFPALVMVVVARYIPKENRGKAFGL 143 Query: 148 FAAMFTLASVGGPVIGGIVVHAYSWHWLFWANIPLA-MLAVWRLNGLHKRSVKPVRQGKF 206 ++ + GP IGG++ H W +L IP+ ++ V L L K+ V+ +G F Sbjct: 144 IGSIVAMGEGVGPAIGGMIAHYIHWSYLL--LIPMITIITVPFLMKLLKKEVR--IKGHF 199 Query: 207 DLVGVVLFPTIITALLYWLSVAGQEFAWLSATSLGFAVFVVLGILGLLLWERRLASPFLP 266 D+ G++L I + + + S+ F + VL L + R++ PF+ Sbjct: 200 DIKGIILMSVGIVFFMLFTTSY----------SISFLIVSVLSFLIFVKHIRKVTDPFVD 249 Query: 267 LDLLAKKAVYMPLLTAALFAACLFAMIFFLPIYLQVGLHTNPAKTG-LLLLPMTFGIVTG 325 L + +L + + + +P ++ + A+ G +++ P T ++ Sbjct: 250 PGLGKNIPFMIGVLCGGIIFGTVAGFVSMVPYMMKDVHQLSTAEIGSVIIFPGTMSVIIF 309 Query: 326 STIAGRLLSKDVAPKWLPTFGMGLAFIGLLLISFVPPNANVIGGLGV-LVGIGLGTVMPS 384 I G L+ + P ++ G+ + L SF+ + + + V GL Sbjct: 310 GYIGGILVDR-RGPLYVLNIGVTFLSVSFLTASFLLETTSWFMTIIIVFVLGGLSFTKTV 368 Query: 385 VQLVVQSVSGKARLSQITAMVSLCRSMGAAIGTALFSVLLYSLLPLTGSELGIAAIKTLP 444 + +V S + ++++ + G A+ LL + + + LP Sbjct: 369 ISTIVSSSLKQQEAGAGMSLLNFTSFLSEGTGIAIVGGLL---------SIPLLDQRLLP 419 Query: 445 TEVVHHAFQY 454 EV + Y Sbjct: 420 MEVDQSTYLY 429
>TCRTETA#Tetracycline resistance protein signature. Length = 399 Score = 35.6 bits (82), Expect = 3e-04 Identities = 54/278 (19%), Positives = 101/278 (36%), Gaps = 39/278 (14%) Query: 43 PVSQVAFVFGLL----SLSLAVASSMAGKLQERFGVRNVTLGAGLLLGLGFLLTAQASNL 98 + V +G+L +L + + G L +RFG R V L + + + + A A L Sbjct: 37 HSNDVTAHYGILLALYALMQFACAPVLGALSDRFGRRPVLLVSLAGAAVDYAIMATAPFL 96 Query: 99 MMLYLCAGILVGFADGTGY--------LMTLSNCVKWFPERKGLISALAIGAYGLGSLGF 150 +LY+ I+ G TG + + F G +SA +G G + Sbjct: 97 WVLYI-GRIVAGITGATGAVAGAYIADITDGDERARHF----GFMSA----CFGFGMVAG 147 Query: 151 KYINVLLLENTGLETTFQLWGLIAMALVLCGGMLMKDA------PAQSAASQQAESRDFT 204 + L+ F + L G L+ ++ P + A S F Sbjct: 148 PVLGGLMGG-FSPHAPFFAAAALNGLNFLTGCFLLPESHKGERRPLRREALNPLAS--FR 204 Query: 205 LAEAMRKPQYWMLALMFLSACMSG----LYVIGVAKDIGEKMVDLPVLVAANAVAVIAMA 260 A M ++A+ F+ + L+VI + + +AA + + Sbjct: 205 WARGMT-VVAALMAVFFIMQLVGQVPAALWVIFGEDRFHWDATTIGISLAAFGI----LH 259 Query: 261 NLSGRLVLGILSDKIPRIRVISLAQIITLVGMVLLLFI 298 +L+ ++ G ++ ++ R + L I G +LL F Sbjct: 260 SLAQAMITGPVAARLGERRALMLGMIADGTGYILLAFA 297
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 67.9 bits (166), Expect = 3e-15 Identities = 24/132 (18%), Positives = 59/132 (44%), Gaps = 6/132 (4%) Query: 3 KAIIVEDEYLAREELE-YLVKSHSEIDIVASFEDGLEAFKYLQDHEVDVVFLDIQIPSID 61 ++ +D+ R L L ++ ++ I ++ + + D+V D+ +P + Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRW---IAAGDGDLVVTDVVMPDEN 61 Query: 62 GLLLAKNLHKSTHPPHVVFVTAHKEF--AVEAFELEAFDYILKPYNEPRIISLLQKIEQV 119 L + K+ V+ ++A F A++A E A+DY+ KP++ +I ++ + Sbjct: 62 AFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAE 121 Query: 120 GRQAPKPQHEAA 131 ++ P + + Sbjct: 122 PKRRPSKLEDDS 133
>PF06580#Sensor histidine kinase Length = 349 Score = 203 bits (517), Expect = 1e-62 Identities = 60/205 (29%), Positives = 110/205 (53%), Gaps = 13/205 (6%) Query: 345 EQLQEMTRKAEFTALQSKINPHFLFNALNAISSLIRIRPQQARELIANLADYLRYNLAKG 404 ++ M ++A+ AL+++INPHF+FNALN I +LI P +ARE++ +L++ +RY+L Sbjct: 152 WKMASMAQEAQLMALKAQINPHFMFNALNNIRALILEDPTKAREMLTSLSELMRYSLRYS 211 Query: 405 D-ELIDIQEEVKQVRDYVAIEQARFGDKLEVIFDVDD--VHFCVPCLLLQPLVENAILHG 461 + + + +E+ V Y+ + +F D+L+ ++ + VP +L+Q LVEN I HG Sbjct: 212 NARQVSLADELTVVDSYLQLASIQFEDRLQFENQINPAIMDVQVPPMLVQTLVENGIKHG 271 Query: 462 IQPRSAPGRVTIEVKKLDAGICVAVRDTGYGISQEVIDGVAAGRIESSSIGLTNVHQRVK 521 I G++ ++ K + + + V +TG ES+ GL NV +R++ Sbjct: 272 IAQLPQGGKILLKGTKDNGTVTLEVENTG--------SLALKNTKESTGTGLQNVRERLQ 323 Query: 522 LLYGE--GLQLKRLEPGTEVSFYLP 544 +LYG ++L + +P Sbjct: 324 MLYGTEAQIKLSEKQGKVNAMVLIP 348
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 93.0 bits (231), Expect = 4e-24 Identities = 36/112 (32%), Positives = 60/112 (53%), Gaps = 1/112 (0%) Query: 4 KVLVVDDEPQIHTFMRISLEAEGFEYISATSIATALKQYRSHQPHLIVLDLGLPDGDGIE 63 +LV DD+ I T + +L G++ ++ AT + + L+V D+ +PD + + Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64 Query: 64 LLHALRQQDK-TPVLVLTARDQEEEKIRLLEAGANDYLSKPFGIRELIVRIK 114 LL +++ PVLV++A++ I+ E GA DYL KPF + ELI I Sbjct: 65 LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIG 116
>NUCEPIMERASE#Nucleotide sugar epimerase signature. Length = 334 Score = 27.4 bits (61), Expect = 0.044 Identities = 13/28 (46%), Positives = 16/28 (57%), Gaps = 1/28 (3%) Query: 6 VIGLGRF-GVAVSRELIHLGHTVTGVDN 32 V G F G VS+ L+ GH V G+DN Sbjct: 5 VTGAAGFIGFHVSKRLLEAGHQVVGIDN 32
>CARBMTKINASE#Bacterial carbamate kinase signature. Length = 314 Score = 46.0 bits (109), Expect = 1e-07 Identities = 33/126 (26%), Positives = 51/126 (40%), Gaps = 16/126 (12%) Query: 116 KDTIFSLLEHGLL---------PIINENDAVTADKLKVGDNDNLSAMVAAAADADTLIIC 166 +TI L+E G++ P+I E+ + + V D D +A +AD +I Sbjct: 176 AETIKKLVERGVIVIASGGGGVPVILEDGEIKGVE-AVIDKDLAGEKLAEEVNADIFMIL 234 Query: 167 SDVNGLYTQNPHENPDAQLIKQVNEINAEIYAMAGGASSAVGTGGMRTKIQAAKKAISHG 226 +DVNG + Q +++V Y G G M K+ AA + I G Sbjct: 235 TDVNGAALY--YGTEKEQWLREVKVEELRKYYEEGH----FKAGSMGPKVLAAIRFIEWG 288 Query: 227 IETFII 232 E II Sbjct: 289 GERAII 294
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 57.1 bits (138), Expect = 2e-11 Identities = 42/217 (19%), Positives = 85/217 (39%), Gaps = 39/217 (17%) Query: 77 TRYKATIAELNAKAESQKLAWELAKHKYKRRIGLTNDNLVSKETFDEAFINTELARTSYE 136 YK+ + ++ ++ S K ++L +K I +L +T+ Sbjct: 269 RVYKSQLEQIESEILSAKEEYQLVTQLFKNEI------------------LDKLRQTTDN 310 Query: 137 LAQ--AQLNTAKIDLARTQIHAPENGTLINLSLR-NGNYVSKGNSVFSLV-KQDSLYITG 192 + +L + + I AP + + L + G V+ ++ +V + D+L +T Sbjct: 311 IGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAETLMVIVPEDDTLEVTA 370 Query: 193 YFEETKIPLVHIGQNAEVSL----MSGGHVLHGKVVSIGKAIANTNVTTNGQLLPQIGQT 248 + I +++GQNA + + + L GKV +I ++G Sbjct: 371 LVQNKDIGFINVGQNAIIKVEAFPYTRYGYLVGKVKNINLDAI---------EDQRLGLV 421 Query: 249 FNWVRLSQRIPVDIQLDNIPKDIELSVGMTVSIQLQT 285 FN + I + K+I LS GM V+ +++T Sbjct: 422 FNVII---SIEENCLSTGN-KNIPLSSGMAVTAEIKT 454 Score = 52.5 bits (126), Expect = 6e-10 Identities = 24/155 (15%), Positives = 57/155 (36%), Gaps = 9/155 (5%) Query: 9 LTLIVVAVAGIAGYWIWSHYLYSPWTRDGRVRA--EIITIAPDVSGWVNQLNVKDNQVVN 66 + ++ IA + T +G++ I P + V ++ VK+ + V Sbjct: 60 VAYFIMGFLVIAFILSVLGQVEIVATANGKLTHSGRSKEIKPIENSIVKEIIVKEGESVR 119 Query: 67 KGDVLFTVDDTRYKATIAELNAKAESQKLA---WELAKHKYKR----RIGLTNDNLVSKE 119 KGDVL + +A + + +L +++ + + L ++ Sbjct: 120 KGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELKLPDEPYFQNV 179 Query: 120 TFDEAFINTELARTSYELAQAQLNTAKIDLARTQI 154 + +E T L + + Q Q +++L + + Sbjct: 180 SEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRA 214
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 58.9 bits (142), Expect = 4e-13 Identities = 25/63 (39%), Positives = 35/63 (55%) Query: 1 MKVTKAQAQENREHIVKTASVLFRERGYDGVGIAELMSTAGFTHGGFYKHFKSKADLMAE 60 + TK +AQE R+HI+ A LF ++G + E+ AG T G Y HFK K+DL +E Sbjct: 2 ARKTKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSE 61 Query: 61 AAA 63 Sbjct: 62 IWE 64
>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase signature. Length = 261 Score = 73.9 bits (181), Expect = 9e-18 Identities = 49/185 (26%), Positives = 90/185 (48%), Gaps = 2/185 (1%) Query: 6 VLITGASTGIGAIYADRFARRGHDLVIVARDGAKLKALATRLRQEYRVNVDVLPADLTKS 65 ITGA+ GIG A A +G + V + KL+ + + L+ E R + + PAD+ S Sbjct: 11 AFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEAR-HAEAFPADVRDS 69 Query: 66 SDLA-IVEKRLQDDARIDTLINNAGIAQSGSFVEQTPDLIEKLIALNITALTRLANAVTP 124 + + I + ++ ID L+N AG+ + G + + E ++N T + + +V+ Sbjct: 70 AAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGVFNASRSVSK 129 Query: 125 RLVQQGKGAIVNVSSVVGLAPEYQMSVYGASKAFVLFLSQGMHQELSSKGIYVQALLPAG 184 ++ + G+IV V S P M+ Y +SKA + ++ + EL+ I + P Sbjct: 130 YMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCNIVSPGS 189 Query: 185 TYTEI 189 T T++ Sbjct: 190 TETDM 194
>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase signature. Length = 261 Score = 90.1 bits (223), Expect = 2e-23 Identities = 54/187 (28%), Positives = 89/187 (47%), Gaps = 10/187 (5%) Query: 6 VALVTGASSGIGEATAIKLAAAGYRVYGTSRRG--------ATSSDARFP-MLALDVTND 56 +A +TGA+ GIGEA A LA+ G + + ++AR DV + Sbjct: 10 IAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAFPADVRDS 69 Query: 57 QSVDAAVTELLRLEGRIDLLVNNAGFGVAPAGAEESSIEQAKSILDTNFFGIVRMTRAIV 116 ++D + R G ID+LVN AG + P S E+ ++ N G+ +R++ Sbjct: 70 AAIDEITARIEREMGPIDILVNVAGV-LRPGLIHSLSDEEWEATFSVNSTGVFNASRSVS 128 Query: 117 PYMRRQGAGRIINISSIIGVVPMPYVALYAASKHAVEGYSEALDHELRTRGIRVSLIEPA 176 YM + +G I+ + S VP +A YA+SK A +++ L EL IR +++ P Sbjct: 129 KYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCNIVSPG 188 Query: 177 FTKTKFE 183 T+T + Sbjct: 189 STETDMQ 195
>OMPADOMAIN#OMPA domain signature. Length = 346 Score = 90.4 bits (224), Expect = 7e-24 Identities = 33/118 (27%), Positives = 51/118 (43%), Gaps = 12/118 (10%) Query: 77 SILFPNDSAYIAPEYYPQIEEVAVFLQQF--PTTKVTIEGHTSRTGTDERNLVLSQERAD 134 +LF + A + PE ++++ L V + G+T R G+D N LS+ RA Sbjct: 220 DVLFNFNKATLKPEGQAALDQLYSQLSNLDPKDGSVVVLGYTDRIGSDAYNQGLSERRAQ 279 Query: 135 AVTAVLAERFSIDRSRLTAIGYGPSRPVVLERTPEAEIR---------NRRVVAEVTG 183 +V L + I +++A G G S PV + R +RRV EV G Sbjct: 280 SVVDYLISK-GIPADKISARGMGESNPVTGNTCDNVKQRAALIDCLAPDRRVEIEVKG 336
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 310 bits (795), Expect = e-103 Identities = 87/431 (20%), Positives = 195/431 (45%), Gaps = 11/431 (2%) Query: 29 RLIIWALAAMVVCFLLWAGFAKLDKVTTGSGKVIPSSQVQVIQSLDGGIMQELYVQEGEM 88 RL+ + + +V + + +++ V T +GK+ S + + I+ ++ I++E+ V+EGE Sbjct: 58 RLVAYFIMGFLVIAFILSVLGQVEIVATANGKLTHSGRSKEIKPIENSIVKEIIVKEGES 117 Query: 89 VTKGQPLVRIDDTRFRSDFAQQEQEVLGLKTNAIRMRAELDSILISDMTSDWREQVLVTK 148 V KG L+++ +D + + +L + R + SI E + + Sbjct: 118 VRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSI----------ELNKLPE 167 Query: 149 KALVFPESIITAEPALVKRQQEEYNGRLDNLSNQLEILVRQIQQRQQEIDDLASKTTTLT 208 L V R + NQ + +++ E + ++ Sbjct: 168 LKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYE 227 Query: 209 TSMQLISRELELTRPLAKKGIVPEVELLKLERTVNDLQGELNSMRLLRPKVKAAMDEAIL 268 ++ L+ L K + + +L+ E + EL + ++++ + A Sbjct: 228 NLSRVEKSRLDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKE 287 Query: 269 KRREAVFVYAADLRAQLNETQTRLSRMNEAQVGAQDKVSKAIITSPVNGTIKTTHINTLG 328 + + ++ ++ +L +T + + +++ ++I +PV+ ++ ++T G Sbjct: 288 EYQLVTQLFKNEILDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEG 347 Query: 329 GVVQPGVDIIEIVPSEDQLLIETKILPKDIAFLHPGLPAVVKITAYDFTRYGGLKGTVEH 388 GVV ++ IVP +D L + + KDI F++ G A++K+ A+ +TRYG L G V++ Sbjct: 348 GVVTTAETLMVIVPEDDTLEVTALVQNKDIGFINVGQNAIIKVEAFPYTRYGYLVGKVKN 407 Query: 389 ISADTSQDEEGNSFYLIRVRTAESSLTKNDGTQMPIIPGMLTSVDVITGQRSILEYILNP 448 I+ D +D+ + + + E+ L+ +P+ GM + ++ TG RS++ Y+L+P Sbjct: 408 INLDAIEDQRLGLVFNVIISIEENCLST-GNKNIPLSSGMAVTAEIKTGMRSVISYLLSP 466 Query: 449 ILRAKDTALRE 459 + + +LRE Sbjct: 467 LEESVTESLRE 477
>CABNDNGRPT#NodO calcium binding signature. Length = 479 Score = 86.2 bits (213), Expect = 2e-18 Identities = 53/228 (23%), Positives = 75/228 (32%), Gaps = 16/228 (7%) Query: 7809 PYDTDGNVQTNIDADDLADAILGDQVNAIPGSDRFDGGAGDDVIFGDAIHFAGISGQGYA 7868 +T + + + D I Q + G++ F S Sbjct: 231 ENETGADYNGHYGGAPMIDDIAAIQ--RLYGANMTTRTGDSVYGFN--------SNTDRD 280 Query: 7869 AIKAYVADKLGINEASDAQVHRYISEHTDEFDQS--GTNDKADILFGGAGNDILFGQGGN 7926 A + K I DA +Q + G GN + Sbjct: 281 FYTATDSSKALIFSVWDAGGTDTFDFSGYSNNQRINLNEGSFSDVGGLKGNVSIAHGVTI 340 Query: 7927 DYLDGGAGKDTLYGGTGNDTLIGGAGNDTLIGGLGNDVLRGDGGADTFVWRYADADK--G 7984 + GG+G D L G + ++ L GGAGND L GG G D L G G DTFV+ Sbjct: 341 ENAIGGSGNDILVGNSADNILQGGAGNDVLYGGAGADTLYGGAGRDTFVYGSGQDSTVAA 400 Query: 7985 TDHIVDFNVNEDKLDLSDLLQGETANTLDEYLSFRLDNGSTVIDIDAN 8032 D I DF DK+DLS + + F ++ DA Sbjct: 401 YDWIADFQKGIDKIDLSAFRNEGQLSFVQ--DQFTGKGQEVMLQWDAA 446 Score = 49.2 bits (117), Expect = 5e-07 Identities = 31/89 (34%), Positives = 40/89 (44%), Gaps = 3/89 (3%) Query: 7254 GDFTTAPFNTGTRTIDNTSGQDQLLGTGGNDHLVSANGGGDLLDGMDGDDILVGSDAVQG 7313 F + ++ R N + G GN + + G G+DILVG+ A Sbjct: 302 DTFDFSGYSNNQRINLNEGSFSDVGGLKGNVSIAHGVTI-ENAIGGSGNDILVGNSA--D 358 Query: 7314 DSLYGGTGNDVLVAGLGNDGLYGDAGTDI 7342 + L GG GNDVL G G D LYG AG D Sbjct: 359 NILQGGAGNDVLYGGAGADTLYGGAGRDT 387 Score = 45.3 bits (107), Expect = 1e-05 Identities = 31/120 (25%), Positives = 46/120 (38%), Gaps = 3/120 (2%) Query: 7221 ADKPVVNVILTDNGIPLYSNFKTSGITTEQFRTGDFTTAPFNTGTRTIDNTSGQDQLLGT 7280 + K ++ + G + S G F+ G +I + + +G Sbjct: 287 SSKALIFSVWDAGGTDTFDFSGYSNNQRINLNEGSFSDVGGLKGNVSIAHGVTIENAIGG 346 Query: 7281 GGNDHLVSANGGGDLLDGMDGDDILVGSDAVQGDSLYGGTGNDVLVAGLGNDGLYGDAGT 7340 GND LV N ++L G G+D+L G D+LYGG G D V G G D Sbjct: 347 SGNDILV-GNSADNILQGGAGNDVLYGGAG--ADTLYGGAGRDTFVYGSGQDSTVAAYDW 403 Score = 38.0 bits (88), Expect = 0.001 Identities = 23/101 (22%), Positives = 42/101 (41%), Gaps = 8/101 (7%) Query: 7264 GTRTIDNTSGQDQLLGTGGNDHLVSANGGGDLLD-----GMDGDDILVGSDAVQGDSLYG 7318 ++ + +D T + L+ + D G + + ++ D + G Sbjct: 269 SVYGFNSNTDRDFYTATDSSKALIFSVWDAGGTDTFDFSGYSNNQRINLNEGSFSD-VGG 327 Query: 7319 GTGNDVLVAGLGNDGLYGDAGTDIAVLLGNRADYIIEKGAG 7359 GN + G+ + G +G DI L+GN AD I++ GAG Sbjct: 328 LKGNVSIAHGVTIENAIGGSGNDI--LVGNSADNILQGGAG 366
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 29.4 bits (66), Expect = 0.026 Identities = 14/77 (18%), Positives = 31/77 (40%), Gaps = 6/77 (7%) Query: 81 FMLYQQMQQQLLAQDAKNIALQDQLQQALLQPNQRIGQLEQQQLNDAKT-----YQELTK 135 F +Q + Q K A + A + + + ++E+ +L+D + Sbjct: 195 FSTWQNQKYQKELNLDKKRA-ERLTVLARINRYENLSRVEKSRLDDFSSLLHKQAIAKHA 253 Query: 136 LAEDQNQLQDRVNKLAQ 152 + E +N+ + VN+L Sbjct: 254 VLEQENKYVEAVNELRV 270 Score = 28.6 bits (64), Expect = 0.047 Identities = 9/72 (12%), Positives = 27/72 (37%), Gaps = 5/72 (6%) Query: 81 FMLYQQMQQQLLAQDAKNIALQDQLQQALLQPNQRIGQLEQQQLNDAKTYQELTKLAEDQ 140 + + + + + + +Q++ +L + + Q N+ L KL + Sbjct: 254 VLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQLFKNEI-----LDKLRQTT 308 Query: 141 NQLQDRVNKLAQ 152 + + +LA+ Sbjct: 309 DNIGLLTLELAK 320
>TYPE3IMSPROT#Type III secretion system inner membrane S protein family signature. Length = 354 Score = 28.2 bits (63), Expect = 0.044 Identities = 15/61 (24%), Positives = 25/61 (40%), Gaps = 1/61 (1%) Query: 126 GIDTIAPAHRLDRETAGVILMTVAPETRALYHQLFIDDAI-RKDYQAIAKLTPEIIQQYQ 184 D R E GV ++ P RALY +D I + +A A++ + +Q Sbjct: 287 YTDAQVQTVRKIAEEEGVPILQRIPLARALYWDALVDHYIPAEQIEATAEVLRWLERQNI 346 Query: 185 Q 185 + Sbjct: 347 E 347
>NUCEPIMERASE#Nucleotide sugar epimerase signature. Length = 334 Score = 73.3 bits (180), Expect = 6e-17 Identities = 44/182 (24%), Positives = 71/182 (39%), Gaps = 24/182 (13%) Query: 3 KVMVTGATGLLGRAVVKQLELTGHEVV-----------------ATGFSRASERVHKLDL 45 K +VTGA G +G V K+L GH+VV ++ + HK+DL Sbjct: 2 KYLVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLKQARLELLAQPGFQFHKIDL 61 Query: 46 TAPLAVEKFIAREQPQVIVHCAAERRPDVSEQNPQAALALNLTASQALAKAAKANN-AWL 104 + A + + S +NP A NLT + + + N L Sbjct: 62 ADREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFLNILEGCRHNKIQHL 121 Query: 105 IYISTDYVFDGTQ--PKYAEDAATHPVNFYGESKLKGEEIVLDTSADFAV----LRLPIL 158 +Y S+ V+ + P +D+ HPV+ Y +K E + S + + LR + Sbjct: 122 LYASSSSVYGLNRKMPFSTDDSVDHPVSLYAATKKANELMAHTYSHLYGLPATGLRFFTV 181 Query: 159 YG 160 YG Sbjct: 182 YG 183
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 92.6 bits (230), Expect = 2e-24 Identities = 26/129 (20%), Positives = 64/129 (49%) Query: 3 RLLIVEDDLSLASILGRRLTRHGFECRLTHDASDALLVAREFRPSHILLDMKLAEANGLG 62 +L+ +DD ++ ++L + L+R G++ R+T +A+ ++ D+ + + N Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64 Query: 63 LIVPLRNLLPKVTMVLLTGYASIATAVEAIRLGADNYLAKPVDTQTLLAALEMQGHSYTL 122 L+ ++ P + +++++ + TA++A GA +YL KP D L+ + Sbjct: 65 LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKR 124 Query: 123 QEDEVDDSP 131 + +++D Sbjct: 125 RPSKLEDDS 133 Score = 47.1 bits (112), Expect = 9e-09 Identities = 13/39 (33%), Positives = 22/39 (56%) Query: 135 KRLEWEHIQQVLNANQGNVSATARQLGMHRRTLQRKLLK 173 +E+ I L A +GN A LG++R TL++K+ + Sbjct: 434 AEMEYPLILAALTATRGNQIKAADLLGLNRNTLRKKIRE 472
>THERMOLYSIN#Thermolysin metalloprotease (M4) family signature. Length = 544 Score = 363 bits (933), Expect = e-119 Identities = 134/490 (27%), Positives = 192/490 (39%), Gaps = 51/490 (10%) Query: 44 SQFNL--DAGSQLKVEKKLDLGQGKQKQRLQQYFHDVPVYGFSVATSQSSMGFYSDMSGR 101 + F L A +L + G R +Q G + + S +SG Sbjct: 64 NTFQLGGQARERLSLIGNKLDELGHTVMRFEQAIAASLCMGAVLVAHVNDGELSS-LSGT 122 Query: 102 VLKNIEKSADFVKPTLTANKALDIAIRGKSEK-AVAGLKAENKQAKLWLYLDDAAKTRLV 160 ++ N++K + ++ +A IA + +++ AE + + D RL Sbjct: 123 LIPNLDKRTLKTEAAISIQQAEMIAKQDVADRVTKERPAAEEGKPTRLVIYPDEETPRLA 182 Query: 161 YVTSFVVYGDEPSRPFTMIDAHSGEVLKRWEGINHA-ASGTGPGGNIKTGQYEYGTDFSY 219 Y + P MIDA G+VL +W ++ A G P T G Sbjct: 183 YEVNVRFLTPVPGNWIYMIDAADGKVLNKWNQMDEAKPGGAQPVAGTSTVGVGRG----- 237 Query: 220 LDVEVSGDT---CTMNSPNVKTVNLNGATSGATAFSYTCPRNTV-----------KEING 265 V GD T S L T G+ F+Y TV + Sbjct: 238 ----VLGDQKYINTTYSSYYGYYYLQDNTRGSGIFTYDGRNRTVLPGSLWADGDNQFFAS 293 Query: 266 AYSPLNDAHYFGNVIYNMYSEWYN---TAPLTFQLTMRVHYSSNYENAFWDGSAMTFGDG 322 + DAHY+ V+Y+ Y + + VHY Y NAFW+GS M +GDG Sbjct: 294 YDAAAVDAHYYAGVVYDYYKNVHGRLSYDGSNAAIRSTVHYGRGYNNAFWNGSQMVYGDG 353 Query: 323 -ATTFYPLV-SLDVSAHEVSHGFTEQNSGLIYDAQSGGMNEAFSDMAGEAAEFYMHGTND 380 TF P +DV HE++H T+ +GL+Y +SG +NEA SD+ G EFY + D Sbjct: 354 DGQTFLPFSGGIDVVGHELTHAVTDYTAGLVYQNESGAINEAMSDIFGTLVEFYANRNPD 413 Query: 381 WLVGADIFK---GNGALRYMADPTLDGISIGHIDDYYDGID---VHHSSGVFNKAFYTLA 434 W +G DI+ ALR M+DP G + Y D VH +SG+ NKA Y L+ Sbjct: 414 WEIGEDIYTPGVAGDALRSMSDPAKYGDPDHYSKRYTGTQDNGGVHTNSGIINKAAYLLS 473 Query: 435 N--------LPGWDTRKAFQTFVVANQLYWTADSLFWQGACGVKSAATDLG----LSADD 482 + G K + F A Y T S F Q AA DL + Sbjct: 474 QGGVHYGVSVTGIGRDKMGKIFYRALVYYLTPTSNFSQLRAACVQAAADLYGSTSQEVNS 533 Query: 483 VVTAFAAVGI 492 V AF AVG+ Sbjct: 534 VKQAFNAVGV 543
>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase signature. Length = 261 Score = 58.1 bits (140), Expect = 3e-12 Identities = 44/241 (18%), Positives = 89/241 (36%), Gaps = 47/241 (19%) Query: 3 VLIVGGSGGIGQAMVKRVQEAYPNATVHATYRHHLPQDRQNNIQW----------YQLDV 52 I G + GIG+A V + H + P+ + + + DV Sbjct: 11 AFITGAAQGIGEA----VARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAFPADV 66 Query: 53 TNEVEIKQLSEQLTE----LDWIINCVGILHTQDKGPEKSLQSLDIDFFQHNLTLNTLPS 108 + I +++ ++ +D ++N G+L G + SL + ++ ++N+ Sbjct: 67 RDSAAIDEITARIEREMGPIDILVNVAGVLRP---GL---IHSLSDEEWEATFSVNSTGV 120 Query: 109 VMLAKHFCHALKQSDSARFAVISAKVDSITDNRLGGWYSYRASKAALNMFLKTLAIEWQR 168 ++ + S + + + + +Y +SKAA MF K L +E Sbjct: 121 FNASRSVSKYMMDRRSGSIVTVGSNPAGVPRTSMA---AYASSKAAAVMFTKCLGLELAE 177 Query: 169 TMKHCVVLSLHPGTTDTPLSQP------------------FQQSVPKGKLFTPEYVANCL 210 C ++S PG+T+T + F+ +P KL P +A+ + Sbjct: 178 YNIRCNIVS--PGSTETDMQWSLWADENGAEQVIKGSLETFKTGIPLKKLAKPSDIADAV 235 Query: 211 L 211 L Sbjct: 236 L 236
>PF06580#Sensor histidine kinase Length = 349 Score = 28.7 bits (64), Expect = 0.015 Identities = 11/53 (20%), Positives = 20/53 (37%), Gaps = 2/53 (3%) Query: 25 LGAYAAGFLVLFAALGGYSYWQVSELQQAQQLAAQQ--KLQFDTQKQALEAQI 75 L +V F Y W + + ++ + + + Q AL+AQI Sbjct: 118 LSIIFNVVVVTFMWSLLYFGWHFFKNYKQAEIDQWKMASMAQEAQLMALKAQI 170
>BCTERIALGSPD#Bacterial general secretion pathway protein D signature. Length = 660 Score = 177 bits (450), Expect = 3e-50 Identities = 72/293 (24%), Positives = 129/293 (44%), Gaps = 26/293 (8%) Query: 257 PQAGLVTIRAFPSELRQVRTFLNSAESHLQRQVILEAKILEVTLSDGYQQGIQWDNVLGH 316 Q + + A P + + + + + QV++EA I EV +DG GIQW N Sbjct: 316 GQTNALIVTAAPDVMNDLERVIAQLDIR-RPQVLVEAIIAEVQDADGLNLGIQWANKNAG 374 Query: 317 VGN-------TNVNFGTSKGPGLNDKITSAIGGVTS------LSIKGSDFTTMINLLDTQ 363 + + + + ++S++ S ++ ++ L + Sbjct: 375 MTQFTNSGLPISTAIAGANQYNKDGTVSSSLASALSSFNGIAAGFYQGNWAMLLTALSSS 434 Query: 364 GDVDVLSSPRVTASNNQKAVIKVGTDEYFVTDVSSTTVAGTTPVTTPQVELTPFFSGIAL 423 D+L++P + +N +A VG + +T S T +G T + + GI L Sbjct: 435 TKNDILATPSIVTLDNMEATFNVGQEVPVLT--GSQTTSGDNIFNTVERKTV----GIKL 488 Query: 424 DVTPQIDNDGNVLLHVHPSVIDVKEQTKDIKVSDASLELPLAQSEIRESDTVIRAASGDV 483 V PQI+ +VLL + V V + S S +L + R + + SG+ Sbjct: 489 KVKPQINEGDSVLLEIEQEVSSVADAA-----SSTSSDLGATFN-TRTVNNAVLVGSGET 542 Query: 484 VIIGGLMKSENIEVVSQVPLLGDIPFLGELFKNRSKQNKKTELIILLKPTVVG 536 V++GGL+ + +VPLLGDIP +G LF++ SK+ K L++ ++PTV+ Sbjct: 543 VVVGGLLDKSVSDTADKVPLLGDIPVIGALFRSTSKKVSKRNLMLFIRPTVIR 595
>SYCDCHAPRONE#Gram-negative bacterial type III secretion SycD chaperone signature. Length = 168 Score = 29.1 bits (65), Expect = 0.022 Identities = 10/70 (14%), Positives = 28/70 (40%) Query: 339 GQFSLSEQAYRQLLQQEPQQAKWWMGLAYALDSQQQFPQARQAYRTALGHRGLSAQASAF 398 G++ + + ++ L + +++++GL + Q+ A +Y + Sbjct: 50 GKYEDAHKVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAIMDIKEPRFPFH 109 Query: 399 IEQRLTQLGD 408 + L Q G+ Sbjct: 110 AAECLLQKGE 119
>BCTERIALGSPF#Bacterial general secretion pathway protein F signature. Length = 408 Score = 302 bits (775), Expect = e-102 Identities = 116/407 (28%), Positives = 207/407 (50%), Gaps = 6/407 (1%) Query: 1 MPIYQYRGRSGQGQSVTGQLDAASESAAADMLLARGIIPLEVKVAKVVK----SFSLAKL 56 M Y Y+ QG+ G +A S A +L RG++PL V + + S L+ Sbjct: 1 MAQYHYQALDAQGKKCRGTQEADSARQARQLLRERGLVPLSVDENRGDQQKSGSTGLSLR 60 Query: 57 FGGKVALEELQIFTRQMYSLTRSGIPILRAIAGLSETAHSQRMKDALNDISEQLTAGRPL 116 +++ +L + TRQ+ +L + +P+ A+ +++ + + + + ++ G L Sbjct: 61 RKIRLSTSDLALLTRQLATLVAASMPLEEALDAVAKQSEKPHLSQLMAAVRSKVMEGHSL 120 Query: 117 SSSMNQHPDVFDSLFVSMVHVGENTGKLEDAFIQLSGYIEREQETRRRIKSAMRYPMFVL 176 + +M P F+ L+ +MV GE +G L+ +L+ Y E+ Q+ R RI+ AM YP VL Sbjct: 121 ADAMKCFPGSFERLYCAMVAAGETSGHLDAVLNRLADYTEQRQQMRSRIQQAMIYPC-VL 179 Query: 177 IAIALAMV-ILNIMVIPKFAEMFSRFGADLPWATKVLIGTSNLFVNYWALMLVALIGTII 235 +A+A+V IL +V+PK E F LP +T+VL+G S+ + ML+AL+ + Sbjct: 180 TVVAIAVVSILLSVVVPKVVEQFIHMKQALPLSTRVLMGMSDAVRTFGPWMLLALLAGFM 239 Query: 236 GIRYWHHTEKGEKQWDKWKLHIPAVGSIIERSTLARYCRSFSMMLSAGVPMTQALSLVAD 295 R EK + + LH+P +G I ARY R+ S++ ++ VP+ QA+ + D Sbjct: 240 AFRVMLRQEKRRVSFHRRLLHLPLIGRIARGLNTARYARTLSILNASAVPLLQAMRISGD 299 Query: 296 AVDNAYMHDKIVGMRRGIESGDSMLRVSNQSKLFTPLVLQMVAVGEETGQIDQLLNDAAD 355 + N Y ++ + G S+ + Q+ LF P++ M+A GE +G++D +L AAD Sbjct: 300 VMSNDYARHRLSLATDAVREGVSLHKALEQTALFPPMMRHMIASGERSGELDSMLERAAD 359 Query: 356 FYEGEVDYDLKNLTAKLEPILIGFVAVIVLVLALGIYLPMWDMLNVV 402 + E + EP+L+ +A +VL + L I P+ + ++ Sbjct: 360 NQDREFSSQMTLALGLFEPLLVVSMAAVVLFIVLAILQPILQLNTLM 406
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 43.7 bits (103), Expect = 6e-08 Identities = 15/36 (41%), Positives = 27/36 (75%) Query: 4 KQTGFSLIELVIVIVILGLLAATAIPRFLNVTDDAE 39 KQ GF+L+E+++VIVI+G+LA+ +P + + A+ Sbjct: 6 KQRGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKAD 41
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 47.2 bits (112), Expect = 2e-09 Identities = 18/53 (33%), Positives = 32/53 (60%), Gaps = 4/53 (7%) Query: 1 MKRQQGFTLIELVVVIIILGILAVTAAPKFINLQGDAR----VSALNGLKASI 49 +Q+GFTL+E++VVI+I+G+LA P + + A VS + L+ ++ Sbjct: 4 TDKQRGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQKAVSDIVALENAL 56
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 39.9 bits (93), Expect = 8e-07 Identities = 14/33 (42%), Positives = 22/33 (66%) Query: 1 MSKQAGFTLVELVTTIILISILAVVVLPRLFTQ 33 KQ GFTL+E++ I++I +LA +V+P L Sbjct: 4 TDKQRGFTLLEIMVVIVIIGVLASLVVPNLMGN 36
>BCTERIALGSPH#Bacterial general secretion pathway protein H signature. Length = 170 Score = 36.8 bits (85), Expect = 2e-05 Identities = 16/58 (27%), Positives = 33/58 (56%), Gaps = 6/58 (10%) Query: 23 QQGFTLIELVIGMLVIAIAIVMLTSMLFPQA--DRAAKTLHRVKSA-ELA--HSVMNE 75 Q+GFTL+E+++ +L++ ++ M+ + FP + D AA+TL R ++ + Sbjct: 3 QRGFTLLEMMLILLLMGVSAGMVL-LAFPASRDDSAAQTLARFEAQLRFVQQRGLQTG 59
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 30.6 bits (69), Expect = 0.004 Identities = 10/18 (55%), Positives = 17/18 (94%) Query: 14 QGFTLVEMVTVILILGIL 31 +GFTL+E++ VI+I+G+L Sbjct: 8 RGFTLLEIMVVIVIIGVL 25
>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein signature. Length = 347 Score = 558 bits (1440), Expect = 0.0 Identities = 315/348 (90%), Positives = 332/348 (95%), Gaps = 1/348 (0%) Query: 1 MFKKLRGIFSNDLSIDLGTANTLIYVRGEGIVLNEPSVVAIRGERSGSGQKSVAAVGTEA 60 M KK RG+FSNDLSIDLGTANTLIYV+G+GIVLNEPSVVAIR +R KSVAAVG +A Sbjct: 1 MLKKFRGMFSNDLSIDLGTANTLIYVKGQGIVLNEPSVVAIRQDR-AGSPKSVAAVGHDA 59 Query: 61 KQMLGRTPGNIQAIRPMKDGVIADFYVTEKMLQHFIKQVHNNSFFRPSPRVLVCVPVGAT 120 KQMLGRTPGNI AIRPMKDGVIADF+VTEKMLQHFIKQVH+NSF RPSPRVLVCVPVGAT Sbjct: 60 KQMLGRTPGNIAAIRPMKDGVIADFFVTEKMLQHFIKQVHSNSFMRPSPRVLVCVPVGAT 119 Query: 121 QVERRAIRESAMGAGAREVYLIEEPMAAAIGAGLPVSEATGSMVVDIGGGTTEVAIISLN 180 QVERRAIRESA GAGAREV+LIEEPMAAAIGAGLPVSEATGSMVVDIGGGTTEVA+ISLN Sbjct: 120 QVERRAIRESAQGAGAREVFLIEEPMAAAIGAGLPVSEATGSMVVDIGGGTTEVAVISLN 179 Query: 181 GVVYSSSVRIGGDKFDDAIINYVRRNYGSLIGEATAERIKHTIGTAYPGDEVLEIEVRGR 240 GVVYSSSVRIGGD+FD+AIINYVRRNYGSLIGEATAERIKH IG+AYPGDEV EIEVRGR Sbjct: 180 GVVYSSSVRIGGDRFDEAIINYVRRNYGSLIGEATAERIKHEIGSAYPGDEVREIEVRGR 239 Query: 241 NLAEGVPRSFTLNSNEILEALQEPLSGIVSAVMVALEQSPPELASDISERGMVLTGGGAL 300 NLAEGVPR FTLNSNEILEALQEPL+GIVSAVMVALEQ PPELASDISERGMVLTGGGAL Sbjct: 240 NLAEGVPRGFTLNSNEILEALQEPLTGIVSAVMVALEQCPPELASDISERGMVLTGGGAL 299 Query: 301 LRDLDRLLMQETGIPVMVADDPLTCVARGGGKALEMIDMHGGDLFSEE 348 LR+LDRLLM+ETGIPV+VA+DPLTCVARGGGKALEMIDMHGGDLFSEE Sbjct: 300 LRNLDRLLMEETGIPVVVAEDPLTCVARGGGKALEMIDMHGGDLFSEE 347
>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature. Length = 1541 Score = 31.6 bits (71), Expect = 0.005 Identities = 21/97 (21%), Positives = 35/97 (36%), Gaps = 6/97 (6%) Query: 237 EVLTEDGQSYARVTAQPLAALDRIRYVLLIWPSPDSGVTLPNQPTAPAADQSLSEEASKI 296 +V TE Q +VT+Q ++ V P + N PT + S+ + Sbjct: 1113 KVETEKTQEVPKVTSQVSPKQEQSETVQ-----PQAEPARENDPTV-NIKEPQSQTNTTA 1166 Query: 297 GSASPAEGTSAETTKPVTTPAATVAKPATETTSPATE 333 + PA+ TS+ +PVT + T Sbjct: 1167 DTEQPAKETSSNVEQPVTESTTVNTGNSVVENPENTT 1203
>PF03544#Gram-negative bacterial tonB protein Length = 243 Score = 36.1 bits (83), Expect = 7e-04 Identities = 17/115 (14%), Positives = 32/115 (27%), Gaps = 11/115 (9%) Query: 1283 ILPVVGVDRPAAPTEAASHNTDITQPVETKSEPQLQ-----EAQSESLELQDIKPEEARS 1337 +L P A + + P + + +Q + E +P + Sbjct: 32 LLYTSVHQVIELPAPAQPISVTMVAPADLEPPQAVQPPPEPVVEPEPEPEPIPEPPKEAP 91 Query: 1338 EESKSEEPKPATDQMKAPDLKLVQPQATP------SPEAPNTPATPENQPAVEPI 1386 + +PKP ++ + P SP PA P + A Sbjct: 92 VVIEKPKPKPKPKPKPVKKVEQPKRDVKPVESRPASPFENTAPARPTSSTATAAT 146
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 48.3 bits (115), Expect = 8e-10 Identities = 17/57 (29%), Positives = 29/57 (50%), Gaps = 3/57 (5%) Query: 7 KRVQGFTLIELVVVIIILGILAVIAAPKFMNLQRDAKVNAVKGYLGQMQDMTKMLHM 63 + +GFTL+E++VVI+I+G+LA + P M + A + + L M Sbjct: 5 DKQRGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQKAV---SDIVALENALDM 58
>TCRTETB#Tetracycline resistance protein TetB signature. Length = 458 Score = 85.3 bits (211), Expect = 5e-20 Identities = 73/358 (20%), Positives = 139/358 (38%), Gaps = 48/358 (13%) Query: 48 LWVGIAIGAYGLTQAVLQIPMGILSDKYGRKPIILIGLVLFAIGSLIAANADSIYGV-VF 106 WV A+ LT ++ G LSD+ G K ++L G+++ GS+I S + + + Sbjct: 52 NWV---NTAFMLTFSIGTAVYGKLSDQLGIKRLLLFGIIINCFGSVIGFVGHSFFSLLIM 108 Query: 107 GRAVQGMGAIA--AAVLALAADLTRDEQRTKVMAIIGMCIGGSFALSLLVGPIVAQHVGL 164 R +QG GA A A V+ + A E R K +IG + + +G ++A ++ Sbjct: 109 ARFIQGAGAAAFPALVMVVVARYIPKENRGKAFGLIGSIVAMGEGVGPAIGGMIAHYIHW 168 Query: 165 SGLFFLTAILAVTGMLIVQFLVPNPISHAP---KGDTLATPARLKRML-------TDPQL 214 S L + I +T +++ L KG L + + ML + + Sbjct: 169 SYLLLIPMITIITVPFLMKLLKKEVRIKGHFDIKGIILMSVGIVFFMLFTTSYSISFLIV 228 Query: 215 FRLDAGIFILHL-----------------VLTAVFVALPLDLVDAGLVKEKHWMLYF--- 254 L IF+ H+ + V + AG V +M+ Sbjct: 229 SVLSFLIFVKHIRKVTDPFVDPGLGKNIPFMIGVLCGGIIFGTVAGFVSMVPYMMKDVHQ 288 Query: 255 --PAFVGAFFL---MVPLIIIG------VKRKNTKAMFQIALVIMIVALLAMAAFSN-NL 302 A +G+ + + +II G V R+ + I + + V+ L + Sbjct: 289 LSTAEIGSVIIFPGTMSVIIFGYIGGILVDRRGPLYVLNIGVTFLSVSFLTASFLLETTS 348 Query: 303 WVLSFAVVLFFTGFNYLEASLPSLIAKFCPVGEKGSAMGVYSTSQFLGAFCGGMLGGG 360 W ++ +V G ++ + + ++++ E G+ M + + + FL G + GG Sbjct: 349 WFMTIIIVFVLGGLSFTKTVISTIVSSSLKQQEAGAGMSLLNFTSFLSEGTGIAIVGG 406 Score = 30.2 bits (68), Expect = 0.016 Identities = 18/111 (16%), Positives = 42/111 (37%) Query: 274 RKNTKAMFQIALVIMIVALLAMAAFSNNLWVLSFAVVLFFTGFNYLEASLPSLIAKFCPV 333 + K + ++I + + +L A + G A + ++A++ P Sbjct: 75 QLGIKRLLLFGIIINCFGSVIGFVGHSFFSLLIMARFIQGAGAAAFPALVMVVVARYIPK 134 Query: 334 GEKGSAMGVYSTSQFLGAFCGGMLGGGAFQLVGAVGVFIVAVILMSIWLFL 384 +G A G+ + +G G +GG + + ++ +I + FL Sbjct: 135 ENRGKAFGLIGSIVAMGEGVGPAIGGMIAHYIHWSYLLLIPMITIITVPFL 185
>PF03544#Gram-negative bacterial tonB protein Length = 243 Score = 29.2 bits (65), Expect = 0.013 Identities = 18/98 (18%), Positives = 33/98 (33%), Gaps = 4/98 (4%) Query: 125 PMGGGMPQNAGYQSAPQQAAPAQNQYAPAPQAAPAYQAPAQQQYAAPAPAQQQYGQQQAQ 184 P+ M A + P + P P+ P + P + P + + + Sbjct: 49 PISVTMVAPADLEPPQAVQPPPEPVVEPEPEPEPIPEPPKEAPVVIEKPKP----KPKPK 104 Query: 185 PQQGGYAPKPQAAPAPAYQAPAAPAQRPAPQPQQNFTP 222 P+ +P+ P PA+P + AP + T Sbjct: 105 PKPVKKVEQPKRDVKPVESRPASPFENTAPARPTSSTA 142
>TCRTETA#Tetracycline resistance protein signature. Length = 399 Score = 61.4 bits (149), Expect = 2e-12 Identities = 66/306 (21%), Positives = 114/306 (37%), Gaps = 16/306 (5%) Query: 12 VLLYPTGIDMYLVGLPQIAQDLGASEAQLHIAFSVYLGGMAATML----FAGSIADRLGR 67 V L GI + + LP + +DL S + + + L A G+++DR GR Sbjct: 14 VALDAVGIGLIMPVLPGLLRDLVHSN-DVTAHYGILLALYALMQFACAPVLGALSDRFGR 72 Query: 68 KPVTLFGAIVFALASYLGGMAETSNQFLLIRFMQGIGAGSCYVVAFAILRDTLDDKRRAK 127 +PV L A+ + A + R + GI G+ VA A + D D RA+ Sbjct: 73 RPVLLVSLAGAAVDYAIMATAPFLWVLYIGRIVAGI-TGATGAVAGAYIADITDGDERAR 131 Query: 128 VLSMINGITCIIPVIAPVIGHVIMLKFPWQSLFSTMAGMGLLVCLLCIFILRETKPAQSR 187 ++ V PV+G + M F + F A + L L F+L E+ + R Sbjct: 132 HFGFMSACFGFGMVAGPVLGGL-MGGFSPHAPFFAAAALNGLNFLTGCFLLPESHKGERR 190 Query: 188 IEDVNRQLAPQESFRQSFFLSRLVMTTLGVTTILSYVNVSPMLIMGQMGFDRGQYSNVM- 246 L P SFR + + +V + V I+ V P + G DR + Sbjct: 191 -PLRREALNPLASFRWARGM-TVVAALMAVFFIMQLVGQVPAALWVIFGEDRFHWDATTI 248 Query: 247 -----ALTALVSMLVSFSTPFALAVLKEKSLMLISQLLFAAAALVFVLTQVQYFSLNVNL 301 A L S+ + T A L E+ +++ ++ + + + + + Sbjct: 249 GISLAAFGILHSLAQAMITGPVAARLGERRALMLG-MIADGTGYILLAFATRGWMAFPIM 307 Query: 302 LGFGFV 307 + Sbjct: 308 VLLASG 313
>ACRIFLAVINRP#Acriflavin resistance protein family signature. Length = 1034 Score = 492 bits (1267), Expect = e-159 Identities = 213/1050 (20%), Positives = 441/1050 (42%), Gaps = 60/1050 (5%) Query: 3 IAEYSIRHKVISWMFVLLLLVGGGVSFTGLGQLEFPEFTIKEALVITAYPGASPEQVEEE 62 +A + IR + +W+ ++L++ G ++ L ++P V YPGA + V++ Sbjct: 1 MANFFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDT 60 Query: 63 VTLPLEDALQQLDAIKHVTSI-NSAGLSQIQIEIKESYDKTSLPQVWDEVRRKVNDTAGS 121 VT +E + +D + +++S +SAG I + + T +V+ K+ Sbjct: 61 VTQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQ---SGTDPDIAQVQVQNKLQLATPL 117 Query: 122 LPPGTTAPQVMDDFGD---VYGILFNLSGPDYSNRELSNYAD-YLRRELVLVPGVKKVSV 177 LP + + + F P + ++S+Y ++ L + GV V + Sbjct: 118 LPQEVQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQL 177 Query: 178 AGNVTEQVVIEISQQKLSALGLDQSYIYGLVNNQNVVSNAGSLVIGDN------RIRIHP 231 G + I + L+ L + + QN AG L I Sbjct: 178 FGA-QYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIA 236 Query: 232 TGEFSNVQDLARLIVSPPGSTELIYLGDIANIEKDYDETPNVLYHNKGEAALSLGISFSS 291 F N ++ ++ + ++ L D+A +E + + N G+ A LGI ++ Sbjct: 237 QTRFKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARIN-GKPAAGLGIKLAT 295 Query: 292 GVNVVEVGQKVSNRLAELESQRPIGMNLATVYNQSQAVDETVNGFLINLLESIAIVIAVL 351 G N ++ + + +LAEL+ P GM + Y+ + V +++ + L E+I +V V+ Sbjct: 296 GANALDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVM 355 Query: 352 LLFMG-LRSGLLMGLILLLTILGTFIVMKVLGIELQLISLGALIIALGMLVDNAIVVTEG 410 LF+ +R+ L+ + + + +LGTF ++ G + +++ +++A+G+LVD+AIVV E Sbjct: 356 YLFLQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVEN 415 Query: 411 ILIGLRRGKTR-LEAAKQIVAQTQWPLLGATVIAIIAFAPIGLSQNAAGEFCRSLFQVLM 469 + + K EA ++ ++Q Q L+G ++ F P+ + G R ++ Sbjct: 416 VERVMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIV 475 Query: 470 ISLFISWITAITLTPFFCHLLFKDAPSDE-EAQDPYKGWF-------FSLYRASLTLALR 521 ++ +S + A+ LTP C L K ++ E + + GWF + Y S+ L Sbjct: 476 SAMALSVLVALILTPALCATLLKPVSAEHHENKGGFFGWFNTTFDHSVNHYTNSVGKILG 535 Query: 522 FRLVSILLVVAMLFSAVVGFGHIKNVFFPASNTPIFFVDIWMPEGTDIKATERFTADIEK 581 +L+ ++ VV F + + F P + +F I +P G + T++ + Sbjct: 536 STGRYLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQVTD 595 Query: 582 LMLSLNEQKDVGLKHLTTVIGQGSQR------FVL--PYQPEKGYPAFAQFIVEMQDLAA 633 L NE+ +V Q FV P++ G A+ ++ A Sbjct: 596 YYLK-NEKANVESVFTVNGFSFSGQAQNAGMAFVSLKPWEERNGDENSAEAVIH----RA 650 Query: 634 VKAYMPELETLLNQRFPQAQYRLKNMENGPSPAAKIEARFYGDNPEVLRALGDQAEAIFH 693 + + P + + ++ + + + +A Sbjct: 651 KMELGKIRDGFV---IPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQ 707 Query: 694 AEPSMDGIRHNWRNQVPLIRPQLENAQARETGISKQDLDNALLVNFSGKQIGLYRETSHL 753 S+ +R N + +++ +A+ G+S D++ + G + + + + Sbjct: 708 HPASLVSVRPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRV 767 Query: 754 LPIVARAPAEERLQADSLWKLQIWSSEHNTFVPATQVVSNFNTEWEN--PLVMRRDRMRM 811 + +A A+ R+ + + KL + S + VP + + + W P + R + + Sbjct: 768 KKLYVQADAKFRMLPEDVDKLYV-RSANGEMVPFSAFTT---SHWVYGSPRLERYNGLPS 823 Query: 812 LAVMADPKLGSD-ETADSVLRKVKDKVEAISLPAGYHLEWGGEFETAGEAQTAVFSSIPM 870 + + + G+ A +++ + K LPAG +W G + + + + Sbjct: 824 MEIQGEAAPGTSSGDAMALMENLASK-----LPAGIGYDWTGMSYQERLSGNQAPALVAI 878 Query: 871 GYLAMFLITVFLFNSVRQPLVIWFTVPLALIGVSAGLLLFDAPFSFMALLGLLSLSGMVI 930 ++ +FL L+ S P+ + VPL ++GV LF+ ++GLL+ G+ Sbjct: 879 SFVVVFLCLAALYESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSA 938 Query: 931 KNGIVLVDQIN-LELSEGKPAYFALVDSCVSRVRPVMMAAITTMLGMIPLISDAFFGS-- 987 KN I++V+ L EGK A + + R+RP++M ++ +LG++PL GS Sbjct: 939 KNAILIVEFAKDLMEKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGA 998 Query: 988 ---MAITIIFGLGFASLLTLIVLPVMYSLV 1014 + I ++ G+ A+LL + +PV + ++ Sbjct: 999 QNAVGIGVMGGMVSATLLAIFFVPVFFVVI 1028 Score = 74.5 bits (183), Expect = 1e-15 Identities = 39/209 (18%), Positives = 95/209 (45%), Gaps = 13/209 (6%) Query: 822 SDETADSVLRKVKDKVEAI--SLPAGYHLEWGGEFETAGEAQTAVFSSIPMGYLAMFL-- 877 + A + +K K+ + P G ++ ++T Q ++ + + A+ L Sbjct: 295 TGANALDTAKAIKAKLAELQPFFPQG--MKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVF 352 Query: 878 ITVFLF-NSVRQPLVIWFTVPLALIGVSAGLLLFDAPFSFMALLGLLSLSGMVIKNGIVL 936 + ++LF ++R L+ VP+ L+G A L F + + + G++ G+++ + IV+ Sbjct: 353 LVMYLFLQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVV 412 Query: 937 VDQINLELSEGKPAYFALVDSCVSRVR-PVMMAAITTMLGMIPL-----ISDAFFGSMAI 990 V+ + + E K + +S+++ ++ A+ IP+ + A + +I Sbjct: 413 VENVERVMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSI 472 Query: 991 TIIFGLGFASLLTLIVLPVMYSLVFNIKA 1019 TI+ + + L+ LI+ P + + + + Sbjct: 473 TIVSAMALSVLVALILTPALCATLLKPVS 501
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 45.6 bits (108), Expect = 2e-07 Identities = 27/178 (15%), Positives = 62/178 (34%), Gaps = 28/178 (15%) Query: 104 EAEHELLAADFKRKTELLNRKLISQSEFDSTQAQLKSAKAALAAARDQLSYTRLTAPFSG 163 + E++L+ FK + + T + LA ++ + + AP S Sbjct: 286 KEEYQLVTQLFKNEI---------LDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSV 336 Query: 164 TIAKRLVDNH-QIVQANQGVLTL-QNNNLLDVSIQVPEAMAAGLKQYTDQAHFAAKVRFS 221 + + V +V + ++ + ++ L+V+ V + A ++ Sbjct: 337 KVQQLKVHTEGGVVTTAETLMVIVPEDDTLEVTALVQNKDIGFI-----NVGQNAIIKVE 391 Query: 222 AFPEQSF---DAKFKEYSTQVTPGTQ---AYEVVFSLPQP------QDIQLLPGMSAE 267 AFP + K K + + + V+ S+ + ++I L GM+ Sbjct: 392 AFPYTRYGYLVGKVKNINLDAIEDQRLGLVFNVIISIEENCLSTGNKNIPLSSGMAVT 449 Score = 31.0 bits (70), Expect = 0.007 Identities = 14/104 (13%), Positives = 36/104 (34%), Gaps = 2/104 (1%) Query: 68 SGQLTELTLVEGQRVAQGSLLAQLDDRDAKNNLMTREAEHELLAADFKRK-TELLNRKLI 126 + + E+ + EG+ V +G +L +L A+ + + ++ + R + +L Sbjct: 104 NSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELN 163 Query: 127 SQSEFD-STQAQLKSAKAALAAARDQLSYTRLTAPFSGTIAKRL 169 E + ++ L + + + K L Sbjct: 164 KLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKEL 207
>SECFTRNLCASE#Bacterial translocase SecF protein signature. Length = 333 Score = 30.6 bits (69), Expect = 0.012 Identities = 23/114 (20%), Positives = 44/114 (38%), Gaps = 14/114 (12%) Query: 169 MALAAVINLILDPLLIFGIGPFPRLEIQGAAIATLFAWLIALSLSGYLLIVRRKMLEWAA 228 AL AV+ L+ D LL G+ +L+ +A L + S++ +++ Sbjct: 178 FALGAVVALVHDVLLTVGLFAVLQLKFDLTTVAALLT-ITGYSINDTVVV---------- 226 Query: 229 FDIDRMRANWTKLAHIAQPAALMNLINP-LANAVIMAMLAHIDHSAVAAFGAGT 281 DR+R N K + + +N L+ V+ M + + +G Sbjct: 227 --FDRLRENLIKYKTMPLRDVMNLSVNETLSRTVMTGMTTLLALVPMLIWGGDV 278
>PYOCINKILLER#Pyocin S killer protein signature. Length = 617 Score = 29.8 bits (66), Expect = 0.030 Identities = 15/39 (38%), Positives = 17/39 (43%), Gaps = 1/39 (2%) Query: 512 KETGWNIHHIVERVKGGS-DEMDNLVLLHPNCHRQIHSG 549 IHH V GG M NLV + P H +IH G Sbjct: 577 GRIKIEIHHKVRVADGGGVYNMGNLVAVTPKRHIEIHKG 615
>RTXTOXINA#Gram-negative bacterial RTX toxin determinant A family signature. Length = 1024 Score = 29.5 bits (66), Expect = 0.042 Identities = 21/75 (28%), Positives = 30/75 (40%), Gaps = 14/75 (18%) Query: 143 KGAKGNNIFNDAIVSCESLNLTGSSTIDGYDSRKGAYGDSFNN----DQGNSQLNKHGKG 198 G+K +IF+ A G I+G D YGD N+ G+ QL G G Sbjct: 732 FGSKFTDIFHGA---------DGDDLIEGNDGNDRLYGDKGNDTLSGGNGDDQLYG-GDG 781 Query: 199 NVTTVEPNADVTLSG 213 N + + L+G Sbjct: 782 NDKLIGVAGNNYLNG 796
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 34.5 bits (79), Expect = 9e-05 Identities = 18/60 (30%), Positives = 32/60 (53%), Gaps = 6/60 (10%) Query: 12 IKLTSRQTGFSLSELMIAMV-LGLIIMIAVINFF-----APLKTTVEESKRLENAADTLR 65 ++ T +Q GF+L E+M+ +V +G++ + V N A + V + LENA D + Sbjct: 1 MRATDKQRGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQKAVSDIVALENALDMYK 60
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 38.7 bits (90), Expect = 2e-06 Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 7/49 (14%) Query: 7 QGFTLVELMVTVAIIGILGSLALPSY-------RDVMAREQLTAAANEL 48 +GFTL+E+MV + IIG+L SL +P+ A + A N L Sbjct: 8 RGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQKAVSDIVALENAL 56
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 47.2 bits (112), Expect = 7e-10 Identities = 17/64 (26%), Positives = 35/64 (54%) Query: 5 EKGFTLIELMIVVAVIGILAAIAIPSFSEYLKQGRRFDAQQYLMTSVQALERNYSRQGKY 64 ++GFTL+E+M+V+ +IG+LA++ +P+ ++ + A ++ AL+ Y Sbjct: 7 QRGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQKAVSDIVALENALDMYKLDNHHY 66 Query: 65 PAAQ 68 P Sbjct: 67 PTTN 70
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 424 bits (1092), Expect = e-147 Identities = 162/506 (32%), Positives = 247/506 (48%), Gaps = 41/506 (8%) Query: 3 TILIVDDNHAICQALGLMLELNDYRVLICHSPEDALGLLTTQDVDLVIQDMNFTRDTTSG 62 TIL+ DD+ AI L L Y V I + + D DLV+ D+ Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVM-----PD 59 Query: 63 EEGRQLFYALRERQGDLPIILMTAWTQLETAVELVKAGAADYMGKPWDDAKVLNSITNLI 122 E L +++ + DLP+++M+A TA++ + GA DY+ KP+D +++ I + Sbjct: 60 ENAFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRAL 119 Query: 123 ALYKLSRANHRLERVNHQRQVAIADADLCGIVFGSGAMQRCIDLALQLARSDVSVLITGP 182 A K + + + +V S AMQ + +L ++D++++ITG Sbjct: 120 AEPKRRPSKLEDDSQDGM-----------PLVGRSAAMQEIYRVLARLMQTDLTLMITGE 168 Query: 183 NGAGKDKLADILHANSPLKNKPFIKVNVGALPMDLLEAELFGAEAGAFTGATKARIGRFE 242 +G GK+ +A LH +N PF+ +N+ A+P DL+E+ELFG E GAFTGA GRFE Sbjct: 169 SGTGKELVARALHDYGKRRNGPFVAINMAAIPRDLIESELFGHEKGAFTGAQTRSTGRFE 228 Query: 243 AADGGTLFLDEIGNLPLSGQVKLLRVLQTGEFERLGSHKTQKVKVRVISATNADLAQDIA 302 A+GGTLFLDEIG++P+ Q +LLRVLQ GE+ +G + VR+++ATN DL Q I Sbjct: 229 QAEGGTLFLDEIGDMPMDAQTRLLRVLQQGEYTTVGGRTPIRSDVRIVAATNKDLKQSIN 288 Query: 303 EGRFREDLFYRLNVIELALSPLNQRTDDILPLVQHFI-------GSDFSLSKPALQALLH 355 +G FREDL+YRLNV+ L L PL R +DI LV+HF+ + AL+ + Sbjct: 289 QGLFREDLYYRLNVVPLRLPPLRDRAEDIPDLVRHFVQQAEKEGLDVKRFDQEALELMKA 348 Query: 356 HRWPGNVRELENACKRAVLLAKSHVLTEADFGLAPVVSAARSATSHISAASAPRRLDQRQ 415 H WPGNVRELEN +R L V+T + + +++ Sbjct: 349 HPWPGNVRELENLVRRLTALYPQDVITREIIEN------------ELRSEIPDSPIEKAA 396 Query: 416 FEPRSFEQRQSDPQPVYVPSSITANATFSDSSARDQTQSANEAIEVSREDIEAALKQHHG 475 S Q+ + + + +A E+ I AAL G Sbjct: 397 ARSGSLSISQAVEENMRQYFASFGDALPPSGLYDRVLA------EMEYPLILAALTATRG 450 Query: 476 VIARVAKALGLSRQALYRRMDKFGLD 501 + A LGL+R L +++ + G+ Sbjct: 451 NQIKAADLLGLNRNTLRKKIRELGVS 476
>GPOSANCHOR#Gram-positive coccus surface protein anchor signature. Length = 539 Score = 29.3 bits (65), Expect = 0.047 Identities = 14/47 (29%), Positives = 27/47 (57%), Gaps = 4/47 (8%) Query: 54 ADLEKTNAAVELALKNTEQLQLAAAMQARQRTEQIKAELQKLEQLKQ 100 ADLE + + ++ + L A+ +A++ Q++AE QKLE+ + Sbjct: 298 ADLEHQSQVLNANRQSLRR-DLDASREAKK---QLEAEHQKLEEQNK 340
>cdtoxinb#Cytolethal distending toxin B signature. Length = 269 Score = 28.8 bits (64), Expect = 0.019 Identities = 15/50 (30%), Positives = 23/50 (46%) Query: 144 ETNTSTGGSGVEYYGIGASEMYREDQVTIYLRAVDVHTGKVMMSVSTSKR 193 T + G V S R QV IY AVD G+V +++ +++R Sbjct: 74 GTLIPSPGIPVRELIWNLSTNSRPQQVYIYFSAVDALGGRVNLALVSNRR 123
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 72.7 bits (178), Expect = 3e-18 Identities = 29/146 (19%), Positives = 52/146 (35%), Gaps = 7/146 (4%) Query: 2 TDKRQAILDTALALFVSQGFHGTSTASIAKQAGVATGTLFHHFSSKEALMESLFLTIKQE 61 + RQ ILD AL LF QG TS IAK AGV G ++ HF K L ++ + Sbjct: 10 QETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWELSESN 69 Query: 62 FADALLLNT-HNGSDLKLNALQLWQSAIDWSLDNPVKQLFFQQYSMSPM------IAAKV 114 + L D ++ ++ ++ ++L + + + Sbjct: 70 IGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFVGEMAVVQQA 129 Query: 115 RDQAMNSILGFISELIKQGQREGLIA 140 + I + +K ++ Sbjct: 130 QRNLCLESYDRIEQTLKHCIEAKMLP 155
>PF07299#Fibronectin-binding protein (FBP) Length = 219 Score = 28.7 bits (64), Expect = 0.038 Identities = 18/75 (24%), Positives = 34/75 (45%), Gaps = 7/75 (9%) Query: 319 SATDEAIDSQHRKLATQLITHTSEDMLLMQEEIFGPLLPIISYDTLDEAIQYINHRARPL 378 +A D + + LA + I H E++ Q+E+ +L + + + + + IN Sbjct: 32 TANDRGVIQALKSLAIEKIIHVFENLTDEQKELIDTVLTVQNREDAESFLLKINP----- 86 Query: 379 ALYVMSFDEPTQQKI 393 YV+ F E T Q + Sbjct: 87 --YVIPFQEVTAQTL 99
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 32.2 bits (73), Expect = 6e-04 Identities = 10/24 (41%), Positives = 18/24 (75%), Gaps = 2/24 (8%) Query: 13 QRGFSLIEVLVALVIL--VIGLIG 34 QRGF+L+E++V +VI+ + L+ Sbjct: 7 QRGFTLLEIMVVIVIIGVLASLVV 30
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 55.3 bits (133), Expect = 7e-13 Identities = 21/63 (33%), Positives = 37/63 (58%) Query: 1 MKQSEGFTLIELMIVVVIIGILASIAYPSYTAYLAKGARGDGIAAVMRIANLQEQFYLDN 60 + GFTL+E+M+V+VIIG+LAS+ P+ K + ++ ++ + N + + LDN Sbjct: 4 TDKQRGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQKAVSDIVALENALDMYKLDN 63 Query: 61 REY 63 Y Sbjct: 64 HHY 66
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 36.0 bits (83), Expect = 2e-05 Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 2/50 (4%) Query: 1 MRK--KKQGFTLVELMVTIAVAAILLTIGVPSMISLYEGIRANTEIERIQ 48 MR K++GFTL+E+MV I + +L ++ VP+++ E + I Sbjct: 1 MRATDKQRGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQKAVSDIV 50
>BCTERIALGSPG#Bacterial general secretion pathway protein G signature. Length = 145 Score = 30.2 bits (68), Expect = 0.002 Identities = 10/28 (35%), Positives = 20/28 (71%) Query: 5 QKGFSLIELMTSLSILTILLTGGIPSLT 32 Q+GF+L+E+M + I+ +L + +P+L Sbjct: 7 QRGFTLLEIMVVIVIIGVLASLVVPNLM 34
>SECA#SecA protein signature. Length = 901 Score = 32.9 bits (75), Expect = 0.003 Identities = 37/175 (21%), Positives = 65/175 (37%), Gaps = 46/175 (26%) Query: 220 SQVVYPVEQRRKRELLSELIGK-KNWQQVLVFTATRDAADTLVKELNLDGIPSEVVHGEK 278 +VY E + + ++ ++ + Q VLV T + + ++ + EL GI V++ + Sbjct: 424 PDLVYMTEAEKIQAIIEDIKERTAKGQPVLVGTISIEKSELVSNELTKAGIKHNVLNAKF 483 Query: 279 GQGSRRRALREFVAGDVR---VLVATEVAARGLDI---------------PSLEYVVNYD 320 A VA V +AT +A RG DI P+ E + Sbjct: 484 ---HANEA--AIVAQAGYPAAVTIATNMAGRGTDIVLGGSWQAEVAALENPTAEQIEKIK 538 Query: 321 LPFLAED---------YV-----H---RI-----GRTGRAGKTGVAISFVSREEE 353 + ++ H RI GR+GR G G + ++S E+ Sbjct: 539 ADWQVRHDAVLEAGGLHIIGTERHESRRIDNQLRGRSGRQGDAGSSRFYLSMEDA 593
>FLAGELLIN#Flagellin signature. Length = 507 Score = 30.4 bits (68), Expect = 0.019 Identities = 14/87 (16%), Positives = 36/87 (41%), Gaps = 4/87 (4%) Query: 282 QLSSAMEEMSSTITEVAQNTHLTSTSINTAYDLCLKSSANMKANTQKVEQLAKSVADAAN 341 +++ +T+ ++N + + T + + N Q+V +L+ + N Sbjct: 48 AIANRFTSNIKGLTQASRNANDGISIAQTTE----GALNEINNNLQRVRELSVQATNGTN 103 Query: 342 NAHQLNKEAEQVANAMGEIDSIAEQTN 368 + L +++ + EID ++ QT Sbjct: 104 SDSDLKSIQDEIQQRLEEIDRVSNQTQ 130
>MICOLLPTASE#Microbial collagenase metalloprotease (M9) signature. Length = 1104 Score = 46.6 bits (110), Expect = 4e-07 Identities = 32/168 (19%), Positives = 59/168 (35%), Gaps = 11/168 (6%) Query: 542 WEIDADNGDILNAMHEGLGHGEGTTPPVNKAPIANAGADVNVTGPADVTLNGSGSRDPEN 601 ++D + + + + G+ T VNK P A +D +V ++ +G+ S+D + Sbjct: 744 HKVDGNGNYVYDVVFHGMNTDTNTDVHVNKEPKAVIKSDSSVIVEEEINFDGTESKDEDG 803 Query: 602 GALTYLWTQVSDPTIAIANADMANAAIQLAATQTDVAYSFSLKVTDPEGLSATDSVTVTN 661 Y W + + +N A Y L VTD G T+S + Sbjct: 804 EIKAYEWD--------FGDGEKSNEAKATHKYNKTGEYEVKLTVTDNNGGINTESKKIKV 855 Query: 662 KADTPNQAPVVSVAAT---ATVEAGKTVSIVASASDADGDALTYAWTV 706 D P + S + K+ +V + + Y + V Sbjct: 856 VEDKPVEVINESEPNNDFEKANQIAKSNMLVKGTLSEEDYSDKYYFDV 903
>INFPOTNTIATR#Macrophage infectivity potentiator signature. Length = 233 Score = 137 bits (345), Expect = 3e-43 Identities = 65/132 (49%), Positives = 86/132 (65%), Gaps = 2/132 (1%) Query: 25 KAAQENIRLGNEFLAQNKTKEGVITTASGLQYQVLTQGDGTVHPKASDTVTVHYHGTLID 84 K A+EN G+ FL+ NK+K G++ SGLQY+++ G G P SDTVTV Y GTLID Sbjct: 99 KKAEENKAKGDAFLSANKSKPGIVVLPSGLQYKIIDAGTGA-KPGKSDTVTVEYTGTLID 157 Query: 85 GTVFDSSVDRGEPIAFPLNRVIKGWTEGVQLMVVGDKVRFFIPSELAYGNRST-GKIGGG 143 GTVFDS+ G+P F +++VI GWTE +QLM G F+P++LAYG RS G IG Sbjct: 158 GTVFDSTEKAGKPATFQVSQVIPGWTEALQLMPAGSTWEVFVPADLAYGPRSVGGPIGPN 217 Query: 144 SVLIFDVELLKI 155 LIF + L+ + Sbjct: 218 ETLIFKIHLISV 229
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 58.9 bits (142), Expect = 5e-13 Identities = 20/112 (17%), Positives = 43/112 (38%), Gaps = 5/112 (4%) Query: 11 SSDKRQQLVTTAFKLFYFQSVHGVGINQILQESAIAKKTLYHHFASKDELVEAVVRYRDE 70 + + RQ ++ A +LF Q V + +I + + + + +Y HF K +L + + Sbjct: 9 AQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWELSES 68 Query: 71 IFYQWLSERVNALPAG-----REGICGLFRALDDWFNQKVPQLCEFRGCFFI 117 + E P RE + + + +++ F C F+ Sbjct: 69 NIGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFV 120
>PREPILNPTASE#Type IV prepilin cysteine protease (C20) family signature. Length = 290 Score = 26.7 bits (59), Expect = 0.040 Identities = 23/101 (22%), Positives = 34/101 (33%), Gaps = 12/101 (11%) Query: 37 LMPLLLVL-IFLAGLIGAAQQHMLP-----YGIAGMYLTLSLLTFIAYAIDKSAAKRGKW 90 L+P L L + GL+ + G YL L L + + GK Sbjct: 156 LLPDQLTLPLLWGGLLFNLLGGFVSLGDAVIGAMAGYLVLWSLYWAFKLL------TGKE 209 Query: 91 RTKESTLHLLALMGGWPGALFAQNVLRHKSVKASFRNVFWL 131 LLA +G W G VL S+ +F + + Sbjct: 210 GMGYGDFKLLAALGAWLGWQALPIVLLLSSLVGAFMGIGLI 250
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 59.3 bits (143), Expect = 4e-13 Identities = 29/163 (17%), Positives = 62/163 (38%), Gaps = 5/163 (3%) Query: 8 DRQEKLI-LAMELFWQKGFAETSISDLVGHLGINRFSLYNSFGDKQNLYRECLRFYLDNY 66 + ++ ++ +A+ LF Q+G + TS+ ++ G+ R ++Y F DK +L+ E N Sbjct: 11 ETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWELSESNI 70 Query: 67 SFGASDTLLHEKAGLAE-IEAYLARFVALQREQKYGCFMQNAVLEKSL--DDESVLQECQ 123 + + L + ++ + + K + +V+Q+ Q Sbjct: 71 GELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFVGEMAVVQQAQ 130 Query: 124 RLFC-RLQASFTQVLRDCQARGELLPHVQPHQVAAFLVLQLQG 165 R C Q L+ C L + + A + + G Sbjct: 131 RNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYISG 173
>FERRIBNDNGPP#Ferrichrome-binding periplasmic protein signature. Length = 296 Score = 27.6 bits (61), Expect = 0.046 Identities = 13/46 (28%), Positives = 22/46 (47%), Gaps = 2/46 (4%) Query: 50 PALQFIEQMQPSILALSPRLTAVPKKVGGSLMRPQRDSRFSKDKTP 95 P L+ + +M+PS + S P+ + + + P R FS K P Sbjct: 87 PNLELLTEMKPSFMVWSAGYGPSPEML--ARIAPGRGFNFSDGKQP 130
>TCRTETB#Tetracycline resistance protein TetB signature. Length = 458 Score = 29.5 bits (66), Expect = 0.029 Identities = 28/165 (16%), Positives = 60/165 (36%), Gaps = 4/165 (2%) Query: 3 SPQTEKANLLLLGLAFILIGLNLRPILASVGPLLPSIQEDISLSFTLASMLTLLPVLAMG 62 S + N +L+ L + L ++ +V LP I D + + + +L Sbjct: 6 SQSNLRHNQILIWLCILSFFSVLNEMVLNVS--LPDIANDFNKPPASTNWVNTAFMLTFS 63 Query: 63 LGCFAGFSIAKRLGFNTVMTGSLILLIIATAMRFWAMD-ANWLICSALLAGVGIA-LIQT 120 +G ++ +LG ++ +I+ + + F + LI + + G G A Sbjct: 64 IGTAVYGKLSDQLGIKRLLLFGIIINCFGSVIGFVGHSFFSLLIMARFIQGAGAAAFPAL 123 Query: 121 IMPAMIKLNFGERVPFMMGLYVTAIMGGAALAASSAPFIGMNLGW 165 +M + + E GL + + G + + I + W Sbjct: 124 VMVVVARYIPKENRGKAFGLIGSIVAMGEGVGPAIGGMIAHYIHW 168
>BACINVASINB#Salmonella/Shigella invasin protein B signature. Length = 593 Score = 32.8 bits (74), Expect = 0.005 Identities = 49/223 (21%), Positives = 82/223 (36%), Gaps = 21/223 (9%) Query: 383 IDNMNTLSDDLAKLLTNISQNAHSLDSSA---TQTNEQGQRIANAATAQISRVDETKALA 439 D ++ D K LT SLD + Q ++ AT +D+ Sbjct: 150 TDTAKSVYDAATKKLTQAQNKLQSLDPADPGYAQAEAAVEQAGKEATEAKEALDKATDAT 209 Query: 440 EQMFTSSSLVTEQASESAKQISQASKYG--NQVKQIADDNRTKIAELSARLSSSVEVMSR 497 + T + E+A + + NQV Q DN + +A L+ ++ +E++ + Sbjct: 210 VKAGTDAKAKAEKADNILTKFQGTANAASQNQVSQGEQDNLSNVARLTMLMAMFIEIVGK 269 Query: 498 LSIQSDNIGSILTTISSIAEQTNLLALNAAIEAARAGEHGRGFAVVADEVRSLASRTQAA 557 + +S N LAL A++ R E + A +E R A T Sbjct: 270 NTEES---------------LQNDLALFNALQEGRQAEMEKKSAEFQEETRK-AEETNRI 313 Query: 558 TAEIQTMITALQKETSMAANAITTGQNQANECVGQSQNLQDAI 600 I ++ AL S+ A T G + A VG + + D I Sbjct: 314 MGCIGKVLGALLTIVSVVAAVFTGGASLALAAVGLAVMVADEI 356
>PF07824#Type III secretion chaperone Length = 120 Score = 28.3 bits (63), Expect = 0.011 Identities = 13/54 (24%), Positives = 22/54 (40%) Query: 80 AIGLDLTKRDLQSKLKAKGLPWERAKAFDGAALFSPFVPIDDAEAPLHFTLSIN 133 A+G+ D Q+ + + K D L PF + + L + LS+N Sbjct: 11 ALGIPSIDTDDQAIMLDDDVLIYIEKEGDSINLLCPFCALPENINDLIYALSLN 64
>PERTACTIN#Pertactin signature. Length = 922 Score = 28.1 bits (62), Expect = 0.045 Identities = 10/28 (35%), Positives = 15/28 (53%) Query: 9 GGTKLMLAQVEGKTLLDTWRYPVPADGN 36 LA +GK + T+RY + A+GN Sbjct: 530 SAATFTLANKDGKVDIGTYRYRLAANGN 557
>TCRTETB#Tetracycline resistance protein TetB signature. Length = 458 Score = 29.8 bits (67), Expect = 0.020 Identities = 22/110 (20%), Positives = 46/110 (41%), Gaps = 5/110 (4%) Query: 48 AFFIAYGVTSIPAGILVDKYGEKRVIILAFSLAFIGAVT-FVCLPTFSIAMFSLFCIGTG 106 AF + + + + G L D+ G KR+++ + G+V FV FS+ + + F G G Sbjct: 57 AFMLTFSIGTAVYGKLSDQLGIKRLLLFGIIINCFGSVIGFVGHSFFSLLIMARFIQGAG 116 Query: 107 ----MSLLQVAVNPLLRQAAGPEHFAFFSVLAQLAFGGAATLAPLVYQHF 152 +L+ V V + + + F + + G + ++ + Sbjct: 117 AAAFPALVMVVVARYIPKENRGKAFGLIGSIVAMGEGVGPAIGGMIAHYI 166
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 74.3 bits (182), Expect = 2e-18 Identities = 29/162 (17%), Positives = 59/162 (36%), Gaps = 6/162 (3%) Query: 31 SDARQRLITAALSLFSHRSYPTVSTREIAREAEVDAALIRYYFGSKAGLFEQMVRETLEP 90 + RQ ++ AL LFS + + S EIA+ A V I ++F K+ LF ++ + Sbjct: 10 QETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWELSESN 69 Query: 91 VFTRLREISAAEAPNN---VGEIMQTYYRVMAPNPGLPRLIIRVLQEGDGSEPYRIILSV 147 + E A + + EI+ L+ + + + ++ Sbjct: 70 IGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFVGEMAVVQQA 129 Query: 148 FEQVLTLSRQWLESTL---VNSGLLKEGVDPDLARLSFVSLM 186 + S +E TL + + +L + A + + Sbjct: 130 QRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYI 171
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 55.6 bits (134), Expect = 9e-11 Identities = 31/176 (17%), Positives = 61/176 (34%), Gaps = 17/176 (9%) Query: 51 TVERDRLTLTAPVGELITRVNVVEGQQVKAGEVLLTLDSTSANARLALRQAELEQAKAKL 110 T + ++ + V EG+ V+ G+VLL L + A A Q+ L Q A+L Sbjct: 91 THSGRSKEIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQ--ARL 148 Query: 111 SEAVTGARLEDIERAKAVLDGANASVKEAQRAFERTNRLYATKVLSQADLDTARAARDTS 170 + IE + + F+ + +VL L + T Sbjct: 149 EQTRYQILSRSIEL-----NKLPELKLPDEPYFQNVS---EEEVLRLTSL--IKEQFSTW 198 Query: 171 LAKQAEAEQSLRLLENGTRSEQLEQAKAAVAAASASVAIEQKALADLSLVAARDSV 226 ++ + E +L + + A + +E+ L D S + + ++ Sbjct: 199 QNQKYQKELNLD-----KKRAERLTVLARINRYENLSRVEKSRLDDFSSLLHKQAI 249 Score = 47.9 bits (114), Expect = 3e-08 Identities = 30/232 (12%), Positives = 77/232 (33%), Gaps = 15/232 (6%) Query: 73 VEGQQVKAGEVLLTLDSTSANARLALRQAELEQAKAKLSEAVTGARLEDIERAKAVLDGA 132 V ++V L+ ++ + ++ L++ +A+ + AR+ E V Sbjct: 179 VSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVL--ARINRYENLSRVEKSR 236 Query: 133 NASVKE-AQRAFERTNRLYATK---VLSQADLDTARAARDTSLAKQAEAEQSLRLLENGT 188 + + + + V + +L ++ + ++ A++ +L+ Sbjct: 237 LDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQLF 296 Query: 189 RSEQLEQAKAAVAAASASVAIEQKALADLS---LVAARDSVVDTLP-WRVGDRIAAGTQL 244 ++E L++ + K + A V L G + L Sbjct: 297 KNEILDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAETL 356 Query: 245 IGLLASEHPY-VRVYLPATWLDRVKAGDKVNIRVDG----REMPIAGTVRNI 291 + ++ + V + + + G I+V+ R + G V+NI Sbjct: 357 MVIVPEDDTLEVTALVQNKDIGFINVGQNAIIKVEAFPYTRYGYLVGKVKNI 408
>adhesinb#Adhesin B signature. Length = 310 Score = 29.4 bits (66), Expect = 0.017 Identities = 15/87 (17%), Positives = 26/87 (29%), Gaps = 12/87 (13%) Query: 220 SPQQLMAAMGARVVEISGDDL------------RNLKQSLISESAVLSAAQIGSRLRVLV 267 P+ + A ++ +G +L N K+ + +S L Sbjct: 73 LPEDVKKTSQADLIFYNGINLETGGNAWFTKLVENAKKKENKDYYAVSEGVDVIYLEGQS 132 Query: 268 RSDIEDPLAWLKPRVASRTMEEVRASL 294 EDP AWL + + L Sbjct: 133 EKGKEDPHAWLNLENGIIYAQNIAKRL 159
>ABC2TRNSPORT#ABC-2 type transport system membrane protein signature. Length = 262 Score = 38.4 bits (89), Expect = 2e-05 Identities = 40/160 (25%), Positives = 70/160 (43%), Gaps = 11/160 (6%) Query: 191 GVILTMTMVMFT----SAAIVREREQGNMEFLITTPVRPLELMLGKIVPYVMVGFVQVTI 246 G++ T M T AA R Q E ++ T +R +++LG++ + Sbjct: 72 GMVATSAMTAATFETIYAAFGRMEGQRTWEAMLYTQLRLGDIVLGEMAWAATKAALAGAG 131 Query: 247 ILSAGHLLFDVP---IRGGLDSIALAAMLFICASLTLGLVISTIAKTQLQSMQMTVFILL 303 I L + L IAL + F +LG+V++ +A + + ++ Sbjct: 132 IGVVAAALGYTQWLSLLYALPVIALTGLAFA----SLGMVVTALAPSYDYFIFYQTLVIT 187 Query: 304 PSILLSGFMFPYEAMPIAAQWIAEALPATHFMRMSRAIVL 343 P + LSG +FP + +PI Q A LP +H + + R I+L Sbjct: 188 PILFLSGAVFPVDQLPIVFQTAARFLPLSHSIDLIRPIML 227
>SACTRNSFRASE#Streptothricin acetyltransferase signature. Length = 173 Score = 27.6 bits (61), Expect = 0.018 Identities = 15/50 (30%), Positives = 24/50 (48%), Gaps = 3/50 (6%) Query: 87 VTKQARGQGVASKLVKEIISLAHKIGVKNLYLQTEDLTGG---LYLQHGF 133 V K R +GV + L+ + I A + L L+T+D+ Y +H F Sbjct: 97 VAKDYRKKGVGTALLHKAIEWAKENHFCGLMLETQDINISACHFYAKHHF 146
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 30.2 bits (68), Expect = 0.017 Identities = 15/70 (21%), Positives = 29/70 (41%), Gaps = 13/70 (18%) Query: 64 KLPTPHELRAHLDDYVIGQDRAKKVLSVAVYNHYKRLKNASPKDGVELGKSNILLIGPTG 123 + P+ E + ++G+ S A+ Y+ L D +++ G +G Sbjct: 124 RRPSKLEDDSQDGMPLVGR-------SAAMQEIYRVLARLMQTD------LTLMITGESG 170 Query: 124 SGKTLLAETL 133 +GK L+A L Sbjct: 171 TGKELVARAL 180
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 34.4 bits (79), Expect = 0.002 Identities = 45/211 (21%), Positives = 76/211 (36%), Gaps = 37/211 (17%) Query: 262 NMPAEAKEKALAELNKLRMMSP---MSAEATV---VRSY----VDWMTSVPWSQRSKIKR 311 MP E L + K R P MSA+ T +++ D++ P+ I Sbjct: 56 VMPDENAFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPK-PFDLTELIGI 114 Query: 312 D---------LAKAQEVLDTDHFGLEKVKERILEYLAVQSRVRQLKGPILCLVGPPGVGK 362 E D L + E V +R+ Q ++ + G G GK Sbjct: 115 IGRALAEPKRRPSKLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTDLTLM-ITGESGTGK 173 Query: 363 TSLGQSIAKATGRK---YVRVALGGVRD---EAEIRGHRRTYIGSMPGKVIQKMAKVGVK 416 + +++ R+ +V + + + E+E+ GH + G+ G + + Sbjct: 174 ELVARALHDYGKRRNGPFVAINMAAIPRDLIESELFGHEK---GAFTGAQTRSTGRFEQA 230 Query: 417 N--PLFLLDEIDKMSSDMRGDPASALLEVLD 445 LFL DEI M D + + LL VL Sbjct: 231 EGGTLFL-DEIGDMPMDAQ----TRLLRVLQ 256
>DNABINDINGHU#Prokaryotic integration host factor signature. Length = 91 Score = 119 bits (300), Expect = 4e-39 Identities = 53/88 (60%), Positives = 69/88 (78%) Query: 2 NKSELIEKIASGADISKAAAGRALDSFIAAVTEGLKEGDKISLVGFGTFEVRERAERTGR 61 NK +LI K+A +++K + A+D+ +AV+ L +G+K+ L+GFG FEVRERA R GR Sbjct: 3 NKQDLIAKVAEATELTKKDSAAAVDAVFSAVSSYLAKGEKVQLIGFGNFEVRERAARKGR 62 Query: 62 NPQTGEEIKIAAAKIPAFKAGKALKDAV 89 NPQTGEEIKI A+K+PAFKAGKALKDAV Sbjct: 63 NPQTGEEIKIKASKVPAFKAGKALKDAV 90
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 29.0 bits (65), Expect = 0.022 Identities = 13/28 (46%), Positives = 16/28 (57%) Query: 42 TLAIVGEAGSGKSTLARILVGAEPRSGG 69 TL I GE+G+GK +AR L R G Sbjct: 162 TLMITGESGTGKELVARALHDYGKRRNG 189
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 30.2 bits (68), Expect = 0.011 Identities = 9/16 (56%), Positives = 14/16 (87%) Query: 38 LVGESGSGRSLLARAI 53 + GESG+G+ L+ARA+ Sbjct: 165 ITGESGTGKELVARAL 180
>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein signature. Length = 347 Score = 30.9 bits (70), Expect = 0.010 Identities = 16/36 (44%), Positives = 23/36 (63%) Query: 122 NLVIDIGGGSTEVVIGKKNTPTQLSSLRCGCVSFNE 157 ++V+DIGGG+TEV + N SS+R G F+E Sbjct: 161 SMVVDIGGGTTEVAVISLNGVVYSSSVRIGGDRFDE 196
>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein signature. Length = 347 Score = 41.3 bits (97), Expect = 6e-06 Identities = 24/81 (29%), Positives = 42/81 (51%), Gaps = 11/81 (13%) Query: 192 AAKRAGFVDVDFLFEPLAAGMDYEATLTDNKTVLVVDVGGGTTDCSVVKMGPAHKQKADR 251 +A+ AG +V + EP+AA + +++ +VVD+GGGTT+ +V+ + Sbjct: 129 SAQGAGAREVFLIEEPMAAAIGAGLPVSEATGSMVVDIGGGTTEVAVISLN--------- 179 Query: 252 SEDFLGHSGQRIGGNDLDIAL 272 + S RIGG+ D A+ Sbjct: 180 --GVVYSSSVRIGGDRFDEAI 198
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 64.1 bits (156), Expect = 4e-14 Identities = 29/136 (21%), Positives = 53/136 (38%), Gaps = 7/136 (5%) Query: 3 RIAIVEDEAAIRENYKDVLQQHGYSVQTYADRPSAMLAFNTRLPDLAIIDIGLGNEIDGG 62 I + +D+AAIR L + GY V+ ++ + DL + D+ + +E Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDE--NA 62 Query: 63 FMLCQSLRAMSSTLPIIFLTARDSDFDTVCGLRLGADDYLSKEVSFPHLTARLAALFRRS 122 F L ++ LP++ ++A+++ + GA DYL K L Sbjct: 63 FDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGI-----IGR 117 Query: 123 ELAASQTAQENLLERG 138 LA + L + Sbjct: 118 ALAEPKRRPSKLEDDS 133
>OMPADOMAIN#OMPA domain signature. Length = 346 Score = 65.3 bits (159), Expect = 2e-14 Identities = 27/92 (29%), Positives = 47/92 (51%), Gaps = 2/92 (2%) Query: 152 ELALGLNVQFRTGSYEVESHFLPQLDDVAEVM-NLSP-ELNLELKGYADRRGDVSYNQAL 209 L +V F ++ LD + + NL P + ++ + GY DR G +YNQ L Sbjct: 214 HFTLKSDVLFNFNKATLKPEGQAALDQLYSQLSNLDPKDGSVVVLGYTDRIGSDAYNQGL 273 Query: 210 SEQRLLEVRGYLMKQGVAAERMTTQAFGALSP 241 SE+R V YL+ +G+ A++++ + G +P Sbjct: 274 SERRAQSVVDYLISKGIPADKISARGMGESNP 305
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 72.2 bits (177), Expect = 1e-15 Identities = 28/164 (17%), Positives = 65/164 (39%), Gaps = 6/164 (3%) Query: 255 KVLLVDDQQSMVDYFSSLLRSHGLMVKGLSSAEQVLPALEQFEPDLFIFDLYMPEVNGLE 314 +L+ DD ++ + L G V+ S+A + + + DL + D+ MP+ N + Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64 Query: 315 LAKMIRQLDKYTSSPILVLSSDDTMQNKVSIIQAGSDDLISKQTAPSLFVA---QVISRA 371 L I++ P+LV+S+ +T + + G+ D + K + + + ++ Sbjct: 65 LLPRIKKARPDL--PVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEP 122 Query: 372 QRGHDIRSSASRDSLTELLNHTQILVAARRCYNVAKRINSQVCI 415 +R + L+ + + R + + + I Sbjct: 123 KRRPS-KLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTDLTLMI 165 Score = 54.1 bits (130), Expect = 9e-10 Identities = 29/135 (21%), Positives = 59/135 (43%), Gaps = 2/135 (1%) Query: 131 HIAIIEDDNNVGVMITKQLREFGFSVQHFLDFTSFLVVQNESPFDLILLDLILPDWTEEA 190 I + +DD + ++ + L G+ V+ + + DL++ D+++PD Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64 Query: 191 LFEAATEFEKNNTRVFVLSSRGDFDMRLLAIRANVSEYFVKPAETTLLVRKIHQSLKMSE 250 L + + + V V+S++ F + A +Y KP + T L+ I ++L + Sbjct: 65 LLPRIKK-ARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPK 123 Query: 251 KQPLKVLLVDDQQSM 265 ++P L D Q M Sbjct: 124 RRP-SKLEDDSQDGM 137
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 69.1 bits (169), Expect = 5e-15 Identities = 30/118 (25%), Positives = 52/118 (44%), Gaps = 6/118 (5%) Query: 3 IKVLVVDDSALMRSLLGKMIEADPELSLVGLAADAYEAKDLVNQFRPDVITLDIEMPKVD 62 +LV DD A +R++L + + V + ++A + D++ D+ MP + Sbjct: 4 ATILVADDDAAIRTVLNQALSRAGYD--VRITSNAATLWRWIAAGDGDLVVTDVVMPDEN 61 Query: 63 GLTFLDRLMKARPTAVVMISSLTEQG-ADATFNALALGAVDFIPKPKLDSPQGIHDYQ 119 L R+ KARP V++ ++ Q A GA D++PKP D + I Sbjct: 62 AFDLLPRIKKARPDLPVLV--MSAQNTFMTAIKASEKGAYDYLPKP-FDLTELIGIIG 116
>PF06580#Sensor histidine kinase Length = 349 Score = 42.2 bits (99), Expect = 5e-06 Identities = 24/151 (15%), Positives = 51/151 (33%), Gaps = 52/151 (34%) Query: 435 EIDKGMIEKLVDPLT--HLVRNSLDHGIEKPEKRLAAGKSEAGVLSLKASQRGGNIVIAV 492 +I+ +++ V P+ LV N + HGI + + G + LK ++ G + + V Sbjct: 245 QINPAIMDVQVPPMLVQTLVENGIKHGIAQ--------LPQGGKILLKGTKDNGTVTLEV 296 Query: 493 HDNGAGLNRERIIQKARENGLQVADNSSDKQVWQLIFAAGFSTALEVTDVSGRGVGMDVV 552 + G+ + G G+ V Sbjct: 297 ENTGSLALKNTK--------------------------------------ESTGTGLQNV 318 Query: 553 RRNIEALGG---RIDIESVEGQGSTFEIQLP 580 R ++ L G +I + +G+ + + +P Sbjct: 319 RERLQMLYGTEAQIKLSEKQGKVNAM-VLIP 348
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 86.0 bits (213), Expect = 5e-23 Identities = 29/122 (23%), Positives = 52/122 (42%), Gaps = 3/122 (2%) Query: 1 MSK-KILVVDDSAAIRQMVEATLKSVSYQVVLAKDGREALDICNGQRFDFILTDQNMPRM 59 M+ ILV DD AAIR ++ L Y V + + D ++TD MP Sbjct: 1 MTGATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDE 60 Query: 60 DGLTLIKSLRAMSAFMRTPIIMLTTEAGDDMKAQGKAAGATGWMVKPFDPQKLLAITAKV 119 + L+ ++ P+++++ + + GA ++ KPFD +L+ I + Sbjct: 61 NAFDLLPRIKKAR--PDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRA 118 Query: 120 LG 121 L Sbjct: 119 LA 120
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 65.2 bits (159), Expect = 3e-13 Identities = 28/104 (26%), Positives = 48/104 (46%) Query: 11 ILVIDDDAIASQRISDFIHSKGYNVIVCSDLEEGLFEITQNTVDLILINYWLKDGTALAL 70 ILV DDDA ++ + GY+V + S+ I DL++ + + D A L Sbjct: 6 ILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFDL 65 Query: 71 LDNLNKDKKETPVIVMSETKENQSVLACFRMGVLDFVVKPINVE 114 L + K + + PV+VMS + + G D++ KP ++ Sbjct: 66 LPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLT 109
>PHPHTRNFRASE#Phosphoenolpyruvate-protein phosphotransferase signature. Length = 572 Score = 535 bits (1380), Expect = 0.0 Identities = 191/555 (34%), Positives = 309/555 (55%), Gaps = 5/555 (0%) Query: 3 ITGIIVSSGIAFGQALHLIHTEHHLDYRPIPLSKIPQQQGKFAKALQELQAQLTH--SQA 60 ITGI SSG+A +A IH E ++D ++ + + K AL++ + +L Q Sbjct: 5 ITGIAASSGVAIAKAF--IHLEPNVDIEKTSITDVSTEIEKLTAALEKSKEELRAIKDQT 62 Query: 61 ALDSDSENYQLIEADLLLLEDDELIEQVNDAIRTLQLSASVAVERIFAHQANELQSLDDP 120 ++ ++ A LL+L+D EL++ + I Q++A A++ + + +S+D+ Sbjct: 63 EASMGADKAEIFAAHLLVLDDPELVDGIKGKIENEQMNAEYALKEVSDMFVSMFESMDNE 122 Query: 121 YLANRAQDVRCLGQRVVAAINGHLAQGLEKLDRPTILLAQDLTPAEFALLPRENLCGVVL 180 Y+ RA D+R + +RV+ + G L + T+++A+DLTP++ A L ++ + G Sbjct: 123 YMKERAADIRDVSKRVLGHLIGVETGSLATIAEETVIIAEDLTPSDTAQLNKQFVKGFAT 182 Query: 181 KTGGLTSHTAILARAAGIPAILSCQFDADSIPNGTPLVLDALNGELCVNPNPDQQARLTV 240 GG TSH+AI++R+ IPA++ + + I +G +++D + G + VNP ++ Sbjct: 183 DIGGRTSHSAIMSRSLEIPAVVGTKEVTEKIQHGDMVIVDGIEGIVIVNPTEEEVKAYEE 242 Query: 241 TFHHEQARRAALQTYKDVPAQTQDGHTVGLMANVGNLNDITHVSDVGADGIGLFRTEFML 300 + ++ P+ T+DG V L AN+G D+ V G +GIGL+RTEF+ Sbjct: 243 KRAAFEKQKQEWAKLVGEPSTTKDGAHVELAANIGTPKDVDGVLANGGEGIGLYRTEFLY 302 Query: 301 MDVSTLPDEKAQYSLYCDALHALGGKTFTIRTLDIGADKELPCLCQEIEDNPALGLRGIR 360 MD LP E+ Q+ Y + + + GK IRTLDIG DKEL L E NP LG R IR Sbjct: 303 MDRDQLPTEEEQFEAYKEVVQRMDGKPVVIRTLDIGGDKELSYLQLPKELNPFLGFRAIR 362 Query: 361 YTLAHPDLFKTQLRAILRAANHGPIRLMFPMVNQVEELDEVFALIAQCQDALEEEEKGYG 420 L D+F+TQLRA+LRA+ +G +++MFPM+ +EEL + A++ + +D L E Sbjct: 363 LCLEKQDIFRTQLRALLRASTYGNLKVMFPMIATLEELRQAKAIMQEEKDKLLSEGVDVS 422 Query: 421 E-LSYGIVVETPAAVFNLNAMLPRLDFVSIGTNDLTQYAMAADRTNPQLTRDYPSLSPAI 479 + + GI+VE P+ N +DF SIGTNDL QY MAADR N +++ Y PAI Sbjct: 423 DSIEVGIMVEIPSTAVAANLFAKEVDFFSIGTNDLIQYTMAADRMNERVSYLYQPYHPAI 482 Query: 480 LALINMTIVQAKAANVKVSLCGELASSPQIAPLLIGMGLDELSVNLSSLLEVKAAICQGN 539 L L++M I A + V +CGE+A PLL+G+GLDE S++ +S+L ++ + + + Sbjct: 483 LRLVDMVIKAAHSEGKWVGMCGEMAGDEVAIPLLLGLGLDEFSMSATSILPARSQLLKLS 542 Query: 540 IQQFSALAHTALQQD 554 ++ A AL D Sbjct: 543 KEELKPFAQKALMLD 557
>TCRTETA#Tetracycline resistance protein signature. Length = 399 Score = 36.7 bits (85), Expect = 2e-04 Identities = 31/161 (19%), Positives = 60/161 (37%), Gaps = 10/161 (6%) Query: 33 MVWPFLAVILYE--KFALSATEVGMVLSSAAIISVFTSFVGSSLSDRIGRHKLMYVTGTL 90 ++ P L +L + G++L+ A++ + V +LSDR GR ++ V+ Sbjct: 23 LIMPVLPGLLRDLVHSNDVTAHYGILLALYALMQFACAPVLGALSDRFGRRPVLLVSLAG 82 Query: 91 YIISFSLLAEANSVKGYVVVMTLCSMATSLWRPLTSAAIGDIIAD---PKTRELAMQSLY 147 + ++++A A + + + T A G IAD R + Sbjct: 83 AAVDYAIMATAP-----FLWVLYIGRIVAGITGATGAVAGAYIADITDGDERARHFGFMS 137 Query: 148 FIVNVGCAVGPMLGVWLGLTGKQSSFYLTAVAFAVLLIMLY 188 G GP+LG +G + F+ A + + Sbjct: 138 ACFGFGMVAGPVLGGLMGGFSPHAPFFAAAALNGLNFLTGC 178 Score = 33.3 bits (76), Expect = 0.002 Identities = 26/130 (20%), Positives = 50/130 (38%), Gaps = 9/130 (6%) Query: 320 AMVIISTQFLLLKLMARFSLVKRIQIGLLLLICSQVWLAFNPLDLFWGW-IGAIVVMSVA 378 + ++ + + AR + + +G++ + LAF GW I+V+ + Sbjct: 257 ILHSLAQAMITGPVAARLGERRALMLGMIADGTGYILLAF----ATRGWMAFPIMVLLAS 312 Query: 379 ETILFPTMNVHIDRLAPDHLRGAYFGA-ASFYDLGFALAPLGGGIILDHFGGQW---LFL 434 I P + + R + +G G+ A+ L + PL I W ++ Sbjct: 313 GGIGMPALQAMLSRQVDEERQGQLQGSLAALTSLTSIVGPLLFTAIYAASITTWNGWAWI 372 Query: 435 TGAALSALVI 444 GAAL L + Sbjct: 373 AGAALYLLCL 382
>FLAGELLIN#Flagellin signature. Length = 507 Score = 30.0 bits (67), Expect = 0.035 Identities = 22/195 (11%), Positives = 52/195 (26%), Gaps = 3/195 (1%) Query: 367 QSTNAMNSQLHELEQLATAMHEMATTSSDVARNAQGASSAAKEADEATNVGSKVVSDTTN 426 + N L + + E + + +G + K + + + Sbjct: 240 DAENNTAVDLFKTTKSTAGTAEAKAIAGAIKGGKEGDTFDYKGVTFTIDTKTGNDGNGKV 299 Query: 427 AINALSSKIDMAVAEVNTLGSATDNIATILKVINDIADQTNLLALNAAI--EAARAGDSG 484 + K+ + VA++ + D + + E+A+ D Sbjct: 300 STTINGEKVTLTVADITAGAANVDAATLQSSKNVYTSVVNGQFTFDDKTKNESAKLSDLE 359 Query: 485 RGFAVVADEVRTLAQRTQQSTTQIRNMIEQLQTGARAVAEVMSQSKDNAKDAVTLAQGAN 544 AV + T+ + + +T S +DA + Sbjct: 360 ANNAVKGESKITVNGAEYTANAAGDKVTLAGKTMFIDKTAS-GVSTLINEDAAAAKKSTA 418 Query: 545 TALDKIREAILQISD 559 L I A+ ++ Sbjct: 419 NPLASIDSALSKVDA 433
>ECOLNEIPORIN#E.coli/Neisseria porin superfamily signature. Length = 331 Score = 48.3 bits (115), Expect = 2e-08 Identities = 59/326 (18%), Positives = 110/326 (33%), Gaps = 49/326 (15%) Query: 63 SLYGSLRPTLEYQDKADDVWD----------IGDALSRLGVKADTEFTPNWHAIAQGEWK 112 +LYG+++ +E I D S++G K + AI Q E K Sbjct: 22 TLYGTIKAGVETSRSVAHNGAQAASVETGTGIVDLGSKIGFKGQEDLGNGLKAIWQVEQK 81 Query: 113 VRLDDNGRFGEARLAFAGIGSPFGQITFGRQRPVQY--------TLVAEYIDIFNNA--- 161 + R +F G+ FG++ GR V ++Y+ + A Sbjct: 82 ASIAGTDSGWGNRQSFIGLKGGFGKLRVGRLNSVLKDTGDINPWDSKSDYLGVNKIAEPE 141 Query: 162 NSPFGYNQESPFF--VNNALIYELKLKPVTVMASAIFDGNSGGSGADTINVGAGFDKNGL 219 +SP F ++ ++ Y L N+G +++ + G + G Sbjct: 142 ARLISVRYDSPEFAGLSGSVQYALN-------------DNAGRHNSESYHAGFNYKNGGF 188 Query: 220 HLGAAYLQQDVYANANRTG---KEQLTGAVISYEFSSGIYAAVGYQAKDYEFETAVNRTG 276 + + + K Q+ V Y+ + +YA+V Q +D + Sbjct: 189 FVQYGGAYKR-HHQVQENVNIEKYQIHRLVSGYD-NDALYASVAVQQQDAKLVEENYSHN 246 Query: 277 STFDSA--LAIPFANAYKLKLGYFWFKDG-IEDTSSQD-YDGYNLTLEWQIAANVRTHLE 332 S + A LA F N ++ Y G + T+ + YD + E+ + + Sbjct: 247 SQTEVAATLAYRFGNV-TPRVSYAHGFKGSFDATNYNNDYDQVVVGAEYDFSKRTSALVS 305 Query: 333 Y-LQQNNDQRED--DTIIALGIRYDF 355 Q T +G+R+ F Sbjct: 306 AGWLQEGKGESKFVSTAGGVGLRHKF 331
>PF04183#IucA / IucC family Length = 580 Score = 618 bits (1596), Expect = 0.0 Identities = 165/593 (27%), Positives = 291/593 (49%), Gaps = 22/593 (3%) Query: 41 LTPAYWQAANRHLVKKILCEFTHEKIITPTLYGQKAGLNHYELRLNNSTYYFSARHYQLD 100 + W NR LV K+L E +E++ + G + Y + L + + F A Sbjct: 1 MNHKDWDLVNRRLVAKMLSELEYEQVFHA----ESQGDDRYCINLPGAQWRFIAERGIWG 56 Query: 101 HLAIDADSIRVSVAGQEQILDAMSLIISLKNDLGISETLLPTYLEEITSTLYSKAYKL-A 159 L IDA ++R ++ + A +L++ LK L +S+ + +++++ +TL L A Sbjct: 57 WLWIDAQTLRC----ADEPVLAQTLLMQLKQVLSMSDATVAEHMQDLYATLLGDLQLLKA 112 Query: 160 HQAIPAATLARADYQSIEAGMTEGHPVFIANNGRIGFDMQDYRQFAPESAVPMQLVWLGV 219 + + A+ L + ++ + GHP F+ N GR G+ + ++APE A +L WL V Sbjct: 113 RRGLSASDLINLNADRLQC-LLSGHPKFVFNKGRRGWGKEALERYAPEYANTFRLHWLAV 171 Query: 220 RKSKTTFAALENLSHDALLKKELG-QQFNDFQQHLKSQQHDPQDFYFMPVHPWQWREKIA 278 ++ + + LL + Q+F F Q + D ++ +PVHPWQW++KIA Sbjct: 172 KREHMIWRCDNEMDIHQLLTAAMDPQEFARFSQVWQENGLD-HNWLPLPVHPWQWQQKIA 230 Query: 279 RVFAGDIARGDLVYLGEGNEQYQVQQSIRTFFNLASPQKCYVKTALSILNMGFMRGLSPL 338 F D A G +V LGE +Q+ QQS+RT N + +K L+I N RG+ Sbjct: 231 TDFIADFAEGRMVSLGEFGDQWLAQQSLRTLTNASRRGGLDIKLPLTIYNTSCYRGIPGR 290 Query: 339 YMSCTPQINAWVANLVESDPYFTQQGFVILKEIAAIGYHHHYYEQALTQDSAYKKMLSAL 398 Y++ P + W+ + +D Q G VIL E AA H Y Y++ML + Sbjct: 291 YIAAGPLASRWLQQVFATDATLVQSGAVILGEPAAGYVSHEGYAALARAPYRYQEMLGVI 350 Query: 399 WRESPLPHIEPKQNLMTMAALLHTDHEDKALIAALIAASGLPAKEWVNRYLNLYLSPLLH 458 WRE+P ++P ++ + MA L+ D ++ L A I SGL A+ W+ + + + PL H Sbjct: 351 WRENPCRWLKPDESPVLMATLMECDENNQPLAGAYIDRSGLDAETWLTQLFRVVVVPLYH 410 Query: 459 AFFAYDLVFMPHGENLILVLDEYVPVKILMKDIGEEVAVLNG----AKPLPDDVKRLAVS 514 Y + + HG+N+ L + E VP ++L+KD ++ ++ LP +V+ + Sbjct: 411 LLCRYGVALIAHGQNITLAMKEGVPQRVLLKDFQGDMRLVKEEFPEMDSLPQEVRDVTSR 470 Query: 515 LEEEMKLNYILLDIFDCIFRYLAPLLDEQTSVSESQFWELVADNVRDYQAQHPHLAAKFA 574 L + ++ + F + R+++PL+ + V E +F++L+A + DY +HP ++ +FA Sbjct: 471 LSADYLIHDLQTGHFVTVLRFISPLMV-RLGVPERRFYQLLAAVLSDYMKKHPQMSERFA 529 Query: 575 QYDLFKDSFVRTCLNRIQLNNNQQMIDLADREKNL-RFAGGIDNPLAAFRQSH 626 + LF+ +R LN ++L DL + L + + NPL Q + Sbjct: 530 LFSLFRPQIIRVVLNPVKL----TWPDLDGGSRMLPNYLEDLQNPLWLVTQEY 578
>PRTACTNFAMLY#Pertactin virulence factor family signature. Length = 910 Score = 31.6 bits (71), Expect = 0.014 Identities = 31/130 (23%), Positives = 43/130 (33%), Gaps = 21/130 (16%) Query: 224 DSGSVRGRAVAAYQDKDSFQDRYEQQRTTLYGIVETDIGDSTLFTLGVDYQDATPSGTMS 283 D+G GR A Q D+ R Q + G F LG D+ A G Sbjct: 645 DAGGAWGRGFAQRQQLDNRAGRRFDQ--KVAG-----------FELGADHAVAVAGGRWH 691 Query: 284 GGLPLFYSDGSRTNYDRATSTAPDWGSAHTQGLNTFASLEHRFDNGWNLKGTYTYGDNSL 343 G Y+ G R G HT ++ + D+G+ L T Sbjct: 692 LGGLAGYTRGDRG--------FTGDGGGHTDSVHVGGYATYIADSGFYLDATLRASRLEN 743 Query: 344 EFDVLWATGY 353 +F V + GY Sbjct: 744 DFKVAGSDGY 753
>2FE2SRDCTASE#Ferric iron reductase signature. Length = 262 Score = 107 bits (269), Expect = 4e-29 Identities = 69/242 (28%), Positives = 98/242 (40%), Gaps = 71/242 (29%) Query: 127 KALHSLWGQWYFGLLVPPMMEWIFNAPETDLESIHWQPQSIFMQVHPSGRVAKFECNIAK 186 K L SLW QWY GL+VPP+M + + + P+ + H +GRVA F ++ + Sbjct: 89 KPLISLWAQWYIGLMVPPLMLALLTQEKA----LDVSPEHFHAEFHETGRVACFWVDVCE 144 Query: 187 HQPNTALTFKKYHGFEPLCQTNTKSSFKTDTKVHSPLSLYKPTVDKELALQGLILNLLQP 246 + T HSP + LI L P Sbjct: 145 DKNATP---------------------------HSPQHRM----------ETLISQALVP 167 Query: 247 SVERLLTLSPVPVKLYWSHLGYLIHWYLGELG--LTEQHSQQLKQALFRRTTFLDGSTNP 304 V+ L + KL WS+ GYLI+WYL E+ L E + L+ ALF T +G NP Sbjct: 168 VVQALEATGEINGKLIWSNTGYLINWYLTEMKQLLGEATVESLRHALFFEKTLTNGEDNP 227 Query: 305 LYNSINLLIEPVQSSADSSKDSSVKTSTTLNSKPSPKIHCIRRTCCLRYQLANTGQCHDC 364 L+ ++ L +D + +RRTCC RY+L + QC DC Sbjct: 228 LWRTVVL------------RDGLL----------------VRRTCCQRYRLPDVQQCGDC 259 Query: 365 PL 366 L Sbjct: 260 TL 261
>adhesinmafb#Neisseria meningitidis: adhesin MafB signature. Length = 467 Score = 25.4 bits (55), Expect = 0.044 Identities = 9/44 (20%), Positives = 14/44 (31%) Query: 54 AGFSGSLVVADFESLVAAKHWADADPYIEAGVYQSVVVKPFKRV 97 G GS+ + + A W +P V V +V Sbjct: 279 IGGLGSVAGFEKNTREAVDRWIQENPNAAETVEAVFNVAAAAKV 322
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 89.9 bits (223), Expect = 7e-22 Identities = 29/114 (25%), Positives = 50/114 (43%), Gaps = 4/114 (3%) Query: 8 VLLVEDDPVFRQIVASFLDSRGAQVTQACDGEEGLSFFKSQHFDVVLADLSMPKLGGLDM 67 +L+ +DD R ++ L G V + + + D+V+ D+ MP D+ Sbjct: 6 ILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFDL 65 Query: 68 LKEMTRLAPLVPSVVISGNNVMADVVEALRIGASDYLVKPVSDLFIIEQAIKQS 121 L + + P +P +V+S N ++A GA DYL KP F + + I Sbjct: 66 LPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKP----FDLTELIGII 115
>VACJLIPOPROT#VacJ lipoprotein signature. Length = 251 Score = 232 bits (594), Expect = 6e-79 Identities = 96/265 (36%), Positives = 142/265 (53%), Gaps = 20/265 (7%) Query: 1 MKLKWMGLSLGLLLLPKVQAAEVPVSDTIQQETPAKVQITYDDPRDPFEGFNRAMWDFNY 60 MKL+ L+LG LL +D + DP EGFNR M++FN+ Sbjct: 1 MKLRLSALALGTTLL---VGCASSGTDQQGRS-------------DPLEGFNRTMYNFNF 44 Query: 61 LYLDRYLYRPVAHGYNDYVPMPAKTGINNFVQNLEEPSSLVNNVLQGKWGWAANAGGRFT 120 LD Y+ RPVA + DYVP PA+ G++NF NLEEP+ +VN LQG RF Sbjct: 45 NVLDPYIVRPVAVAWRDYVPQPARNGLSNFTGNLEEPAVMVNYFLQGDPYQGMVHFTRFF 104 Query: 121 INTTVGLLGVIDVADMMGMSRKQDE---FNEVLGYYGVPNGPYFMAPFAGPYVVRELASD 177 +NT +G+ G IDVA M ++ E F LG+YGV GPY PF G + +R+ D Sbjct: 105 LNTILGMGGFIDVAGMANPKLQRTEPHRFGSTLGHYGVGYGPYVQLPFYGSFTLRDDGGD 164 Query: 178 WVDGLYFPLSELTMWQTIVKWGLKNLHSRASAIDQERLVDNALDPYAFVKDAYLQHMDYK 237 D LY LS LT ++ KW L+ + +RA +D + L+ + DPY V++AY Q D+ Sbjct: 165 MADALYPVLSWLTWPMSVGKWTLEGIETRAQLLDSDGLLRQSSDPYIMVREAYFQRHDFI 224 Query: 238 VYDGNV-PQKQDDDELLEQYMQELE 261 G + PQ+ + + ++ +++++ Sbjct: 225 ANGGELKPQENPNAQAIQDDLKDID 249
>TYPE3IMSPROT#Type III secretion system inner membrane S protein family signature. Length = 354 Score = 58.2 bits (141), Expect = 1e-13 Identities = 16/93 (17%), Positives = 34/93 (36%), Gaps = 9/93 (9%) Query: 10 AVALSYDG--HNAPKIVATGEGLIAEEIIALAKANGVYIHQDPHLSHFL-QLLELGDEIP 66 A+ + Y P + + + +A+ GV I Q L+ L + IP Sbjct: 268 AIGILYKRGETPLPLVTFKYTDAQVQTVRKIAEEEGVPILQRIPLARALYWDALVDHYIP 327 Query: 67 KELYLLIAELIAFVYMLDGKFPEQWNNMHQKIV 99 E AE++ ++ + + H +++ Sbjct: 328 AEQIEATAEVLRWLERQNIE------KQHSEML 354
>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature. Length = 1541 Score = 32.0 bits (72), Expect = 0.004 Identities = 24/151 (15%), Positives = 46/151 (30%), Gaps = 4/151 (2%) Query: 19 EDDAPSQAVSPQSIVKADSNQNVATNQTEAALLDAAILAENGRTAASQAHERAITPTVQL 78 ++ + + Q+ A S QT A + E A + + P ++ Sbjct: 1070 KEAKSNVKANTQTNEVAQSGSETKETQTTETKETATVEKE--EKAKVETEKTQEVP--KV 1125 Query: 79 QPKATPRQNEFVEPVSKIASQVDKQALEKLLAPVLKAKTVEPTPSFVEVTPAVDVQPVVE 138 + +P+Q + + + + P + T T + T + QPV E Sbjct: 1126 TSQVSPKQEQSETVQPQAEPARENDPTVNIKEPQSQTNTTADTEQPAKETSSNVEQPVTE 1185 Query: 139 VPQAQPALEEPVNDEIIAEEVVEPVVVPETQ 169 N E +P V E+ Sbjct: 1186 STTVNTGNSVVENPENTTPATTQPTVNSESS 1216
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 66.4 bits (162), Expect = 4e-14 Identities = 31/168 (18%), Positives = 65/168 (38%), Gaps = 9/168 (5%) Query: 2 AIKVLVVDDSSFFRRRVSEIVNQDPELEVIATASNGAEAVKMAAELNPQVITMDIEMPVM 61 +LV DD + R +++ +++ + SN A + A + ++ D+ MP Sbjct: 3 GATILVADDDAAIRTVLNQALSR--AGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDE 60 Query: 62 DGITAVREIMAKCP-TPILMFSSLTHDGAKATLDALDAGALDFLPKRFEDIATNKDDAIL 120 + + I P P+L+ S+ + + A + GA D+LPK F D+ Sbjct: 61 NAFDLLPRIKKARPDLPVLVMSA--QNTFMTAIKASEKGAYDYLPKPF-DLTELIGIIGR 117 Query: 121 LLQQRVKALGRRRMFRPIARPVVTSTPSVRPTSSVLGTTSIASHTPAT 168 L + + + P+V + +++ + + T T Sbjct: 118 ALAEPKRRPSKLEDDSQDGMPLVGRSAAMQ---EIYRVLARLMQTDLT 162
>PF06580#Sensor histidine kinase Length = 349 Score = 45.2 bits (107), Expect = 6e-07 Identities = 18/105 (17%), Positives = 37/105 (35%), Gaps = 23/105 (21%) Query: 435 TLNKEIDLIMV---------GEETDLDKNLVEALADPLVH------LVRNSVDHGIEMPN 479 +L E+ ++ + + + A+ D V LV N + HGI Sbjct: 217 SLADELTVVDSYLQLASIQFEDRLQFENQINPAIMDVQVPPMLVQTLVENGIKHGIA--- 273 Query: 480 EREASGKPRTGTITLSASQEGDHILLKIEDDGAGMDPEKLKKIAI 524 P+ G I L +++ + L++E+ G+ + Sbjct: 274 -----QLPQGGKILLKGTKDNGTVTLEVENTGSLALKNTKESTGT 313
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 89.9 bits (223), Expect = 3e-24 Identities = 33/105 (31%), Positives = 51/105 (48%), Gaps = 3/105 (2%) Query: 6 KILIVDDFSTMRRIIKNLLRDLGFNNTQEADDGSTALPMLQKGDFDFVVTDWNMPGMQGI 65 IL+ DD + +R ++ L G++ + +T + GD D VVTD MP Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRI-TSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63 Query: 66 DLLKAIRADDSLKHLPVLMVTAEAKREQIIAAAQAGVNGYVVKPF 110 DLL I+ LPVL+++A+ I A++ G Y+ KPF Sbjct: 64 DLLPRIKKAR--PDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPF 106
>PF05272#Virulence-associated E family protein Length = 892 Score = 30.8 bits (69), Expect = 0.013 Identities = 9/25 (36%), Positives = 12/25 (48%) Query: 240 VKQGGVVALVGPTGVGKTTSLAKLA 264 K V L G G+GK+T + L Sbjct: 593 CKFDYSVVLEGTGGIGKSTLINTLV 617
>TYPE3IMSPROT#Type III secretion system inner membrane S protein family signature. Length = 354 Score = 326 bits (838), Expect = e-112 Identities = 94/347 (27%), Positives = 179/347 (51%), Gaps = 2/347 (0%) Query: 6 SGERSEEPTGRRLEQAREKGQIARSKELGTAAVLISAACGFYMLGPSLAKSLTRVFETVF 65 SGE++E+PT +++ AR+KGQ+A+SKE+ + A++++ + L + +++ + Sbjct: 2 SGEKTEQPTPKKIRDARKKGQVAKSKEVVSTALIVALSAMLMGLSDYYFEHFSKLM--LI 59 Query: 66 TMDRAQVFDTEEMFNVWGVVAGEIVWPMAKIMLLIVVVAFIGNVALGGMNFSTQAMMPKA 125 +++ + ++ + V V E + ++ + ++A +V G S +A+ P Sbjct: 60 PAEQSYLPFSQALSYVVDNVLLEFFYLCFPLLTVAALMAIASHVVQYGFLISGEAIKPDI 119 Query: 126 SKMSPAAGLKRMFGVQALVELTKGIAKFSVVAFSAYLLLSFYFNEILLLSSDHLPGNVYH 185 K++P G KR+F +++LVE K I K +++ ++++ +L L + + Sbjct: 120 KKINPIEGAKRIFSIKSLVEFLKSILKVVLLSILIWIIIKGNLVTLLQLPTCGIECITPL 179 Query: 186 ALDLLVWMFILLCSSILLIVVIDVPFQLWNHNKQLKMTKQEVKDEYKDTEGKPEVKGRVR 245 +L + ++ ++I + D F+ + + K+LKM+K E+K EYK+ EG PE+K + R Sbjct: 180 LGQILRQLMVICTVGFVVISIADYAFEYYQYIKELKMSKDEIKREYKEMEGSPEIKSKRR 239 Query: 246 QMQRELAQRRMMAEVPNADVIVVNPEHFAVAIKYDVQRSVAPFVVAKGVDDVAFKIREIA 305 Q +E+ R M V + V+V NP H A+ I Y + P V K D +R+IA Sbjct: 240 QFHQEIQSRNMRENVKRSSVVVANPTHIAIGILYKRGETPLPLVTFKYTDAQVQTVRKIA 299 Query: 306 RAHNVTIVSAPPLARAIYHTTKLDQQIPEGLFTAVAQILAYVFQLRQ 352 V I+ PLARA+Y +D IP A A++L ++ + Sbjct: 300 EEEGVPILQRIPLARALYWDALVDHYIPAEQIEATAEVLRWLERQNI 346
>TYPE3IMRPROT#Type III secretion system inner membrane R protein family signature. Length = 261 Score = 122 bits (309), Expect = 5e-36 Identities = 93/249 (37%), Positives = 145/249 (58%), Gaps = 1/249 (0%) Query: 9 VQTIAAYMWPLFRVASMLMVMVVFGAATTPTRVRLLLAMAITFAIAPVLPPVQNADLFSL 68 + + Y WPL RV +++ + + P RV+L LAM ITFAIAP LP + +FS Sbjct: 10 LSWLNLYFWPLLRVLALISTAPILSERSVPKRVKLGLAMMITFAIAPSLP-ANDVPVFSF 68 Query: 69 SAVFITAQQIIIGVAMGFVTQMVMQVFVLTGQIIGMQTSLGFASMVDPGSGQQTPVIGNF 128 A+++ QQI+IG+A+GF Q G+IIG+Q L FA+ VDP S PV+ Sbjct: 69 FALWLAVQQILIGIALGFTMQFAFAAVRTAGEIIGLQMGLSFATFVDPASHLNMPVLARI 128 Query: 129 FLLLATLIFLAVDGHLLMIRMLVVSFETLPISNQGLTLTSYRALADWGSYMFGAALTMSI 188 +LA L+FL +GHL +I +LV +F TLPI + L ++ AL GS +F L +++ Sbjct: 129 MDMLALLLFLTFNGHLWLISLLVDTFHTLPIGGEPLNSNAFLALTKAGSLIFLNGLMLAL 188 Query: 189 SAIIALLLVNLSFGVMTRAAPQLNIFSIGFPITMIGGLFILWLTLTPVMAHFDEVWAAAQ 248 I LL +NL+ G++ R APQL+IF IGFP+T+ G+ ++ + + + +++ Sbjct: 189 PLITLLLTLNLALGLLNRMAPQLSIFVIGFPLTLTVGISLMAALMPLIAPFCEHLFSEIF 248 Query: 249 VLLCDMLAL 257 LL D+++ Sbjct: 249 NLLADIISE 257
>TYPE3IMQPROT#Type III secretion system inner membrane Q protein family signature. Length = 86 Score = 48.6 bits (116), Expect = 2e-11 Identities = 22/78 (28%), Positives = 41/78 (52%) Query: 4 EALIDIFREALSVIVIMVSAIVLPGLGIGLIVAVFQAATSINEQTLSFLPRLIITLLALM 63 + L+ +AL +++I+ + IGL+V +FQ T + EQTL F +L+ L L Sbjct: 2 DDLVFAGNKALYLVLILSGWPTIVATIIGLLVGLFQTVTQLQEQTLPFGIKLLGVCLCLF 61 Query: 64 FMGHWLVETLMDFFVEMV 81 + W E L+ + +++ Sbjct: 62 LLSGWYGEVLLSYGRQVI 79
>FLGBIOSNFLIP#Escherichia coli: Flagellar biosynthetic protein FliP signature. Length = 245 Score = 278 bits (712), Expect = 4e-97 Identities = 126/244 (51%), Positives = 183/244 (75%), Gaps = 3/244 (1%) Query: 4 RILALVGFVILLCMPSAWAADGVLPAVTVTTGPDGSTEYSVTMQILLLMTSLSFLPAMLI 63 R+L++ ++ L P A+A LP +T P G +S+ +Q L+ +TSL+F+PA+L+ Sbjct: 3 RLLSVAPVLLWLITPLAFAQ---LPGITSQPLPGGGQSWSLPVQTLVFITSLTFIPAILL 59 Query: 64 MLTSFTRIIIVLSILRQAIGLQQTPSNQVLIGMSLFMTFFIMAPVFDRIYDEGVKPYIEE 123 M+TSFTRIIIV +LR A+G P NQVL+G++LF+TFFIM+PV D+IY + +P+ EE Sbjct: 60 MMTSFTRIIIVFGLLRNALGTPSAPPNQVLLGLALFLTFFIMSPVIDKIYVDAYQPFSEE 119 Query: 124 QLTLQQAFEKGKEPIRSFMLGQVRTTDLKTFIEISGYKNIKSPEEAPMSVLIPAFITSEL 183 ++++Q+A EKG +P+R FML Q R DL F ++ ++ PE PM +L+PA++TSEL Sbjct: 120 KISMQEALEKGAQPLREFMLRQTREADLGLFARLANTGPLQGPEAVPMRILLPAYVTSEL 179 Query: 184 KTAFQIGFMLFVPFLVLDLVVASILMAMGMMMLSPMIVSLPFKIMLFVLVDGWSLVLGTL 243 KTAFQIGF +F+PFL++DLV+AS+LMA+GMMM+ P ++LPFK+MLFVLVDGW L++G+L Sbjct: 180 KTAFQIGFTIFIPFLIIDLVIASVLMALGMMMVPPATIALPFKLMLFVLVDGWQLLVGSL 239 Query: 244 ANSF 247 A SF Sbjct: 240 AQSF 243
>FLGMOTORFLIN#Flagellar motor switch protein FliN signature. Length = 137 Score = 109 bits (273), Expect = 6e-34 Identities = 53/119 (44%), Positives = 79/119 (66%) Query: 7 DDWAAAMAEQALEEANAIELDELVDDSRPISKAEAAKLDTILDIPVTISMEVGRSYISIR 66 D WA A+ EQ + +D I+DIPV +++E+GR+ ++I+ Sbjct: 17 DLWADALNEQKATTTKSAADAVFQQLGGGDVSGAMQDIDLIMDIPVKLTVELGRTRMTIK 76 Query: 67 NLLQLNQGSVVELDRVAGEPLDVMVNGTLIAHGEVVVVNDKFGIRLTDVISQTERIKKL 125 LL+L QGSVV LD +AGEPLD+++NG LIA GEVVVV DK+G+R+TD+I+ +ER+++L Sbjct: 77 ELLRLTQGSVVALDGLAGEPLDILINGYLIAQGEVVVVADKYGVRITDIITPSERMRRL 135
>FLGMOTORFLIM#Flagellar motor switch protein FliM signature. Length = 344 Score = 248 bits (635), Expect = 1e-82 Identities = 87/327 (26%), Positives = 164/327 (50%), Gaps = 12/327 (3%) Query: 1 MSDLLSQDEIDALLHGVDDVDDDDEIDSAG----HDARSYDFSSQDRIVRGRMPTLEIVN 56 M+++LSQDEID LL + D E D+ YDF D+ + +M TL +++ Sbjct: 1 MTEVLSQDEIDQLLTAISSGDASIE-DARPISDTRKITLYDFRRPDKFSKEQMRTLSLMH 59 Query: 57 ERFARHLRISMFNMMRRAAEVSINGVQMLKFGEYVHTLFVPTSLNMVRFSPLKGTALITM 116 E FAR S+ +R V + V L + E++ ++ P++L ++ PLKG A++ + Sbjct: 60 ETFARLTTTSLSAQLRSMVHVHVASVDQLTYEEFIRSIPTPSTLAVITMDPLKGNAVLEV 119 Query: 117 EARLVFILVDNFFGGDGRFHAKIEGREFTPTERRIVQLLLKIIFEDYKDAWAPVMDVEFD 176 + + F ++D FGG G+ R+ T E +++ ++ I + +++W V+D+ Sbjct: 120 DPSITFSIIDRLFGGTGQAAKVQ--RDLTDIENSVMEGVIVRILANVRESWTQVIDLRPR 177 Query: 177 YLDSEVNPAMANIVSPTEVVVINSFHIEVDGGGGDFHITMPYSMIEPIRELLDAG--VQS 234 E NP A IV P+E+VV+ + +V G + +PY IEPI L + S Sbjct: 178 LGQIETNPQFAQIVPPSEMVVLVTLETKVGEEEGMMNFCIPYITIEPIISKLSSQFWFSS 237 Query: 235 DKQDTDMRWSQALHDEIMDVKVGFDANIVEHELTLKDVMNFKAGDIIPIE---LPEYIMM 291 ++ + ++ L D++ V + A + L+++D++ + GDII + + + ++ Sbjct: 238 VRRSSTTQYMGVLRDKLSTVDMDVVAEVGSLRLSVRDILGLRVGDIIRLHDTHVGDPFVL 297 Query: 292 KIEDLPTYRCKMGRSRDNLALKIYEKI 318 I + + C+ G +A +I E+I Sbjct: 298 SIGNRKKFLCQPGVVGKKIAAQILERI 324
>FLGHOOKFLIK#Flagellar hook-length control protein signature. Length = 375 Score = 52.1 bits (124), Expect = 4e-09 Identities = 36/132 (27%), Positives = 65/132 (49%), Gaps = 5/132 (3%) Query: 592 MKQQLITMVSQGIQHAEIRLDPPELGHMLVKIQVHGDQTQVQFHVTQTQTRDLVEQAMPR 651 + Q + QG Q AE+RL P +LG + + ++V +Q Q+Q R +E A+P Sbjct: 244 LSQHISLFTRQGQQSAELRLHPQDLGEVQISLKVDDNQAQIQMVSPHQHVRAALEAALPV 303 Query: 652 LRELLQEQGMQLADSHVSQGGQGERREGSFGDGGGSSGADVDEISAEE-----LHLGLNQ 706 LR L E G+QL S++S +++ + A+ + ++ E+ + + L Sbjct: 304 LRTQLAESGIQLGQSNISGESFSGQQQAASQQQQSQRTANHEPLAGEDDDTLPVPVSLQG 363 Query: 707 ASSVNSGIDYYA 718 + NSG+D +A Sbjct: 364 RVTGNSGVDIFA 375
>FLGFLIJ#Flagellar FliJ protein signature. Length = 147 Score = 44.0 bits (103), Expect = 2e-08 Identities = 39/145 (26%), Positives = 70/145 (48%) Query: 1 MANADPLLLVLKLANDAEEQAALLLKSAQLECQKRLNQLSALNNYRLEYMKQMQSQQGQA 60 MA L + LA E AA LL + CQ+ QL L +Y+ EY + S Sbjct: 1 MAEHGALATLKDLAEKEVEDAARLLGEMRRGCQQAEEQLKMLIDYQNEYRNNLNSDMSAG 60 Query: 61 ISASHYHQFHRFIRQIDDAITQQNRVVADGEKQKEYRQQHWLEKQKKRKAVELLLASKEK 120 I+++ + + +FI+ ++ AITQ + + ++ + W EK+++ +A + L + Sbjct: 61 ITSNRWINYQQFIQTLEKAITQHRQQLNQWTQKVDIALNSWREKKQRLQAWQTLQERQST 120 Query: 121 KRQVVEQKREQKMTDEFASQQFYRR 145 + E + +QK DEFA + R+ Sbjct: 121 AALLAENRLDQKKMDEFAQRAAMRK 145
>FLGFLIH#Flagellar assembly protein FliH signature. Length = 228 Score = 89.1 bits (220), Expect = 6e-23 Identities = 57/201 (28%), Positives = 102/201 (50%), Gaps = 4/201 (1%) Query: 50 AAKPTTVESVSPPTMAEIEDIRAQAEEEGFA---EGKQQGYEQGLEKGRLEGLEQGHTEG 106 A + P IE+ E++ + +QGY+ G+ +GR +G +QG+ EG Sbjct: 16 APPQAEFVPIVEPEETIIEEAEPSLEQQLAQLQMQAHEQGYQAGIAEGRQQGHKQGYQEG 75 Query: 107 LAQGHEQGLETGLAQAKVLLSRFEALLTQFEKPLQLLDGDIELSLLNLSMTLAKSVIGHE 166 LAQG EQGL +Q + +R + L+++F+ L LD I L+ +++ A+ VIG Sbjct: 76 LAQGLEQGLAEAKSQQAPIHARMQQLVSEFQTTLDALDSVIASRLMQMALEAARQVIGQT 135 Query: 167 LKTHPEQVLSALRLGIESLPIKEQAVTIRLHPDDVILVEQLYSTAQLTRSKWELEVDPTL 226 ++ ++ ++ P+ +R+HPDD+ V+ + A L+ W L DPTL Sbjct: 136 PTVDNSALIKQIQQLLQQEPLFSGKPQLRVHPDDLQRVDDMLG-ATLSLHGWRLRGDPTL 194 Query: 227 SAGDCILSSHRSLVDLTLSSR 247 G C +S+ +D ++++R Sbjct: 195 HPGGCKVSADEGDLDASVATR 215
>FLGMOTORFLIG#Flagellar motor switch protein FliG signature. Length = 344 Score = 286 bits (733), Expect = 3e-97 Identities = 109/350 (31%), Positives = 195/350 (55%), Gaps = 7/350 (2%) Query: 1 MAENKTKEVAPAAAPAFNIKDISGVEKTAILLLSLSEADAASILKHLEPKQVQKVGMAMA 60 M E K KE+ ++ ++G +K AILL+S+ ++ + K+L ++++ + +A Sbjct: 1 MEEKKEKEIL-------DVSALTGKQKAAILLVSIGSEISSKVFKYLSQEEIESLTFEIA 53 Query: 61 AMDEFGQEKVIGVHKLFLDDIQKYSSIGFNSEEFVRKALTAALGEDKAGNLIEQIIMGSG 120 ++ E V F + + I ++ R+ L +LG KA ++I + Sbjct: 54 KLETITSELKDNVLLEFKELMMAQEFIQKGGIDYARELLEKSLGTQKAVDIINNLGSALQ 113 Query: 121 AKGLDSLKWMDARQVATIIQNEHPQIQTIVLSYLEPDQAAEIFGQFPENTRLDLMMRIAN 180 ++ + ++ D + IQ EHPQ ++LSYL+P +A+ I P + ++ RIA Sbjct: 114 SRPFEFVRRADPANILNFIQQEHPQTIALILSYLDPQKASFILSSLPTEVQTNVARRIAL 173 Query: 181 LEEVQPAALQELNDIMEKQFAGQGGAQAAKMGGLKAAANIMNYLDTGIESQLMETMRESD 240 ++ P ++E+ ++EK+ A GG+ I+N D E ++E++ E D Sbjct: 174 MDRTSPEVVREVERVLEKKLASLSSEDYTSAGGVDNVVEIINMADRKTEKFIIESLEEED 233 Query: 241 EEMAQQIQDLMFVFENLIDVDDRGIQALLREVQQDVLMKALKGTDDQLKEKILGNMSKRA 300 E+A++I+ MFVFE+++ +DDR IQ +LRE+ L KALK D ++EKI NMSKRA Sbjct: 234 PELAEEIKKKMFVFEDIVLLDDRSIQRVLREIDGQELAKALKSVDIPVQEKIFKNMSKRA 293 Query: 301 AELLRDDLEAMGPIRISEVEVAQKEILSIARRLSDSGEIMLGGGGGDEFL 350 A +L++D+E +GP R +VE +Q++I+S+ R+L + GEI++ GG ++ L Sbjct: 294 ASMLKEDMEFLGPTRRKDVEESQQKIVSLIRKLEEQGEIVISRGGEEDVL 343
>FLGMRINGFLIF#Flagellar M-ring protein signature. Length = 559 Score = 305 bits (782), Expect = 5e-99 Identities = 161/560 (28%), Positives = 266/560 (47%), Gaps = 42/560 (7%) Query: 29 NLGGVDMMRQVTMILALAICLALAVFVMLWAQEPEYRPL-GKMETQEMVQVLDVLDKNKV 87 L + ++ +I+A + +A+ V ++LWA+ P+YR L + Q+ ++ L + + Sbjct: 15 WLNRLRANPRIPLIVAGSAAVAIVVAMVLWAKTPDYRTLFSNLSDQDGGAIVAQLTQMNI 74 Query: 88 KYQIDVD--VIKVPEDKYQEVKMMLSRAGVDSPAASQDFLNQDSGFGVSQRMEQARLKHS 145 Y+ I+VP DK E+++ L++ G+ A L FG+SQ EQ + + Sbjct: 75 PYRFANGSGAIEVPADKVHELRLRLAQQGLPKGGAVGFELLDQEKFGISQFSEQVNYQRA 134 Query: 146 QEENLARAIEQLQSVSRAKVILALPKENVFARNASKPSATVVINTRRG-GLGQGEVDAIV 204 E LAR IE L V A+V LA+PK ++F R PSA+V + G L +G++ A+V Sbjct: 135 LEGELARTIETLGPVKSARVHLAMPKPSLFVREQKSPSASVTVTLEPGRALDEGQISAVV 194 Query: 205 DIVASAVQGLEPSRVTVTDSNGRLLNSGSQDGASATARRELELVQQKEAEYRTKIESILV 264 +V+SAV GL P VT+ D +G LL + G +L+ E+ + +IE+IL Sbjct: 195 HLVSSAVAGLPPGNVTLVDQSGHLLTQSNTSGRDL-NDAQLKFANDVESRIQRRIEAILS 253 Query: 265 PILGPDNFTSQVDVSMDFTAVEQTSKRYNPDLPALRSEMTVENNTT-----GGSSGGIPG 319 PI+G N +QV +DF EQT + Y+P+ A ++ + G GG+PG Sbjct: 254 PIVGNGNVHAQVTAQLDFANKEQTEEHYSPNGDASKATLRSRQLNISEQVGAGYPGGVPG 313 Query: 320 ALSNQPP---------------MESNIPQDAT-KATESVTAGNSHREATRNFELDTTISH 363 ALSNQP N PQ +T + S ++ R T N+E+D TI H Sbjct: 314 ALSNQPAPPNEAPIATPPTNQQNAQNTPQTSTSTNSNSAGPRSTQRNETSNYEVDRTIRH 373 Query: 364 TRQQVGAVRRISVSVAVDFKPGAAGENGQVARVARTEQELTNIRRLLEGAVGFSSQRGDV 423 T+ VG + R+SV+V V++K A G+ + T ++ I L A+GFS +RGD Sbjct: 374 TKMNVGDIERLSVAVVVNYKTLADGKP-----LPLTADQMKQIEDLTREAMGFSDKRGDT 428 Query: 424 LEVVTVPFMDQLVEDLPALELWEQPWFWRAIKLGIGALVILVLILAVVRPMLKRLIYPDS 483 L VV PF + L W+Q F + L L+L V + ++ + P Sbjct: 429 LNVVNSPF-SAVDNTGGELPFWQQQSFIDQLLAAGRWL----LVLVVAWILWRKAVRPQL 483 Query: 484 VNMPEDGRLGNELAEIEDQYAADTLGMLNTQEAEYSYADDGSIHIPNLHKDDDMIKAIRA 543 E+ + E A++ + L+ + E + + + M + IR Sbjct: 484 TRRVEEAKAAQEQAQVRQETEEAVEVRLS--KDEQLQQRRANQRLGA----EVMSQRIRE 537 Query: 544 LVANEPELSTQVVKNWLQDN 563 + N+P + V++ W+ ++ Sbjct: 538 MSDNDPRVVALVIRQWMSND 557
>FLGHOOKFLIE#Flagellar hook-basal body complex protein FliE signature. Length = 103 Score = 56.6 bits (136), Expect = 6e-14 Identities = 29/86 (33%), Positives = 45/86 (52%) Query: 26 QPNIMQQVNNTSGADFGQLLSQAVGNVSGLQSTSSNLATRLEMGDTTVTLSDTVIAREKA 85 Q+ F L A+ +S Q+ + A + +G+ V L+D + +KA Sbjct: 18 MSARAQESLPQPTISFAGQLHAALDRISDTQTAARTQAEKFTLGEPGVALNDVMTDMQKA 77 Query: 86 SVAFEATVQVRNKLVEAYKEIMSMPV 111 SV+ + +QVRNKLV AY+E+MSM V Sbjct: 78 SVSMQMGIQVRNKLVAAYQEVMSMQV 103
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 456 bits (1176), Expect = e-161 Identities = 167/483 (34%), Positives = 248/483 (51%), Gaps = 42/483 (8%) Query: 1 MSEAKLLLVEDDASLREALLDTLMLAQYECIDVASGEDAILALKQHQFDLVISDVQMQGI 60 M+ A +L+ +DDA++R L L A Y+ ++ + DLV++DV M Sbjct: 1 MTGATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDE 60 Query: 61 GGLGLLNFLQQHHPKLPVLLMTAYATIGSAVDAIKLGAVDYLAKPFAPEVLLNQVSRYLP 120 LL +++ P LPVL+M+A T +A+ A + GA DYL KPF L+ + R L Sbjct: 61 NAFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALA 120 Query: 121 LKQNVDQPVVAD-----------EKSLALLALAQRVAASDASVMILGPSGSGKEVLARYI 169 + + D + + R+ +D ++MI G SG+GKE++AR + Sbjct: 121 EPKRRPSKLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVARAL 180 Query: 170 HQHSSRADQAFVAINCAAIPENMLEATLFGYEKGAFTGAYQACPGKFEQAQGGTLLLDEI 229 H + R + FVAIN AAIP +++E+ LFG+EKGAFTGA G+FEQA+GGTL LDEI Sbjct: 181 HDYGKRRNGPFVAINMAAIPRDLIESELFGHEKGAFTGAQTRSTGRFEQAEGGTLFLDEI 240 Query: 230 SEMDLGLQAKLLRVLQEREVERLGGRKTIKLDVRVLATSNRDLKAVVAAGGFREDLYYRI 289 +M + Q +LLRVLQ+ E +GGR I+ DVR++A +N+DLK + G FREDLYYR+ Sbjct: 241 GDMPMDAQTRLLRVLQQGEYTTVGGRTPIRSDVRIVAATNKDLKQSINQGLFREDLYYRL 300 Query: 290 NVFPLAWPALSQRPADILPLARHLLVKHAKALNVADVPELDENARRRLLSHRWPGNVREL 349 NV PL P L R DI L RH + + A+ + V D+ A + +H WPGNVREL Sbjct: 301 NVVPLRLPPLRDRAEDIPDLVRHFV-QQAEKEGLD-VKRFDQEALELMKAHPWPGNVREL 358 Query: 350 DNVIQRALILRAGQVITANDIIIDAQDVILG--------------------------GED 383 +N+++R L VIT I + + I Sbjct: 359 ENLVRRLTALYPQDVITREIIENELRSEIPDSPIEKAAARSGSLSISQAVEENMRQYFAS 418 Query: 384 LDQFAAEPDGLGEELKAQEHVIILETLNQCQGSRKLVAEKLGISARTLRYKMARMRDMGI 443 L E+ +IL L +G++ A+ LG++ TLR K +R++G+ Sbjct: 419 FGDALPPSGLYDRVLAEMEYPLILAALTATRGNQIKAADLLGLNRNTLRKK---IRELGV 475 Query: 444 QLP 446 + Sbjct: 476 SVY 478
>PF06580#Sensor histidine kinase Length = 349 Score = 32.5 bits (74), Expect = 0.002 Identities = 19/95 (20%), Positives = 37/95 (38%), Gaps = 19/95 (20%) Query: 256 LVMNSIEAGAT------EIRIQAAEEGEQLLLNVIDNGKGLDANMQQKVLEPFFTTKSQG 309 LV N I+ G +I ++ ++ + L V + G N + + Sbjct: 263 LVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSLALKNTK------------ES 310 Query: 310 TGLGLA-VVQSVVRNHGGQLQLSCLPNKGCTVSLV 343 TG GL V + + +G + Q+ +G ++V Sbjct: 311 TGTGLQNVRERLQMLYGTEAQIKLSEKQGKVNAMV 345
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 435 bits (1119), Expect = e-151 Identities = 170/481 (35%), Positives = 263/481 (54%), Gaps = 21/481 (4%) Query: 7 RILLIGPPSERLNRLCCIFDFLGEQIVQI-DAEKLSASLQDTRFRALVILTDVMDAEM-- 63 IL+ + L G + +A L + +++TDV+ + Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGD--LVVTDVVMPDENA 62 Query: 64 ---LKNIAGQHPWQPMLLL---GNVDDLQVSNILG---NIEEPLTYPQLTELLHFCQVFG 114 L I P P+L++ ++ G + +P +L ++ Sbjct: 63 FDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEP 122 Query: 115 QVKRPQVPTSANQTKLFRSLVGRSDGIANVRHLINQVATSEATVLVLGQSGTGKEVVARN 174 + + ++ + LVGRS + + ++ ++ ++ T+++ G+SGTGKE+VAR Sbjct: 123 KRRPSKLEDDSQD---GMPLVGRSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVARA 179 Query: 175 IHYLSERRDGPFIPVNCGAIPPELLESELFGHEKGSFTGAISSRKGRFELAEGGTLFLDE 234 +H +RR+GPF+ +N AIP +L+ESELFGHEKG+FTGA + GRFE AEGGTLFLDE Sbjct: 180 LHDYGKRRNGPFVAINMAAIPRDLIESELFGHEKGAFTGAQTRSTGRFEQAEGGTLFLDE 239 Query: 235 IGDMPLQMQVKLLRVLQERVFERVGGTKTINADVRVVAATHRDLETMISVNEFREDLYYR 294 IGDMP+ Q +LLRVLQ+ + VGG I +DVR+VAAT++DL+ I+ FREDLYYR Sbjct: 240 IGDMPMDAQTRLLRVLQQGEYTTVGGRTPIRSDVRIVAATNKDLKQSINQGLFREDLYYR 299 Query: 295 LNVFPIEMPALCDRKDDVPLLLQELVSRVYNEGRGKVRFTQRAIESLKEHAWSGNVRELS 354 LNV P+ +P L DR +D+P L++ V + EG RF Q A+E +K H W GNVREL Sbjct: 300 LNVVPLRLPPLRDRAEDIPDLVRHFVQQAEKEGLDVKRFDQEALELMKAHPWPGNVRELE 359 Query: 355 NLVERLTILYPGGLVDVNDLPVKYRHIDVPEYCVEMSEEQQERDALASIFSDEEPVEIPE 414 NLV RLT LYP ++ + + R ++P+ +E + + +++ EE + Sbjct: 360 NLVRRLTALYPQDVITREIIENELRS-EIPDSPIEKAAARSGSLSISQAV--EENMRQYF 416 Query: 415 TRFPSELPPEGVNLKDLLAELEIDMIRQALELQDNVVARAAEMLGIRRTTLVEKMRKYGM 474 F LPP G+ +LAE+E +I AL +AA++LG+ R TL +K+R+ G+ Sbjct: 417 ASFGDALPPSGL-YDRVLAEMEYPLILAALTATRGNQIKAADLLGLNRNTLRKKIRELGV 475 Query: 475 T 475 + Sbjct: 476 S 476
>FLAGELLIN#Flagellin signature. Length = 507 Score = 209 bits (534), Expect = 4e-64 Identities = 158/508 (31%), Positives = 236/508 (46%), Gaps = 29/508 (5%) Query: 2 AISVNTNVTSMKAQNQLNGANSKLSTSMERLSSGMRINSAKDDAAGLQISNRFTSQINGI 61 A +NTN S+ QN LN + S LS+++ERLSSG+RINSAKDDAAG I+NRFTS I G+ Sbjct: 1 AQVINTNSLSLLTQNNLNKSQSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGL 60 Query: 62 GVAMRNANDGISIAQTAEGAMSESTNILQRMRDLSLQSANGSNSADDRASMQKEVIALQS 121 A RNANDGISIAQT EGA++E N LQR+R+LS+Q+ NG+NS D S+Q E+ Sbjct: 61 TQASRNANDGISIAQTTEGALNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLE 120 Query: 122 ELTRISDTTSFGGQKLLNGSFGTQSFQVGAQANETIDVSLKSVGAADIGNYKAKALGTAA 181 E+ R+S+ T F G K+L+ QVGA ETI + L+ + +G G Sbjct: 121 EIDRVSNQTQFNGVKVLSQDN-QMKIQVGANDGETITIDLQKIDVKSLGLDGFNVNGPKE 179 Query: 182 GDYGNGFSNTADNGVAGGTMILTKGSKSTTVTALAGDTALETASRINKAGTSVKATAQTV 241 G+ ++ N T + V + A T + +K + T Sbjct: 180 ATVGD-LKSSFKNVTGYDTYAVGANKYRVDVNSGAVVTDTTAPTVPDKVYVNAANGQLTT 238 Query: 242 VQADVTTAFATGTLTMNVNDGTTTSALDLSGVSDNEQLTKLINEFSGESGVSAKLEDGKV 301 A+ TA T + A+ + E T + + Sbjct: 239 DDAENNTAVDLFKTTKSTAGTAEAKAIAGAIKGGKEGDTFDYKGVTFTIDTKTGNDGNGK 298 Query: 302 TITSSTGKDISFA---------------------------GGATGTGGLSVSNMSSGVLT 334 T+ G+ ++ G + + + Sbjct: 299 VSTTINGEKVTLTVADITAGAANVDAATLQSSKNVYTSVVNGQFTFDDKTKNESAKLSDL 358 Query: 335 GTDTIVGGTAKVVTAAGSVSLSSSSDFTLGGTGAGELSTDTGGNFTGVNLVDISTAAGAQ 394 + V G +K+ + +++ D + G T +N + Sbjct: 359 EANNAVKGESKITVNGAEYTANAAGDKVTLAGKTMFIDKTASGVSTLINEDAAAAKKSTA 418 Query: 395 AALATIDGAISGIDSSRADLGAVQNRMNFTISNLNNIQSNVTDARSRIQDVDFASETAQL 454 LA+ID A+S +D+ R+ LGA+QNR + I+NL N +N+ ARSRI+D D+A+E + + Sbjct: 419 NPLASIDSALSKVDAVRSSLGAIQNRFDSAITNLGNTVTNLNSARSRIEDADYATEVSNM 478 Query: 455 TKQQILSQTSSAMLAQANQIPQTALSLL 482 +K QIL Q +++LAQANQ+PQ LSLL Sbjct: 479 SKAQILQQAGTSVLAQANQVPQNVLSLL 506
>FLAGELLIN#Flagellin signature. Length = 507 Score = 214 bits (545), Expect = 1e-65 Identities = 154/508 (30%), Positives = 229/508 (45%), Gaps = 29/508 (5%) Query: 2 AISVNTNVTSMKAQNQLNGANSRLSTSMERLSSGMRINSAKDDAAGLQISNRMSSQINGI 61 A +NTN S+ QN LN + S LS+++ERLSSG+RINSAKDDAAG I+NR +S I G+ Sbjct: 1 AQVINTNSLSLLTQNNLNKSQSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGL 60 Query: 62 GVAMRNANDGISIAQTAEGAMQESTNILQRMRDLSLQSANGSNSGDDRAAMQKELSALQS 121 A RNANDGISIAQT EGA+ E N LQR+R+LS+Q+ NG+NS D ++Q E+ Sbjct: 61 TQASRNANDGISIAQTTEGALNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLE 120 Query: 122 ELTRISDTTSFGGQKLLDGSYGTQSFQVGAQANETIDVSLKSVGAADIGNYKAKALGTAA 181 E+ R+S+ T F G K+L QVGA ETI + L+ + +G G Sbjct: 121 EIDRVSNQTQFNGVKVLSQD-NQMKIQVGANDGETITIDLQKIDVKSLGLDGFNVNGPKE 179 Query: 182 GDYGNGFSNTADNGVAGGTMILTKGSKSTTVTALAGDTALETASRINKAGTSVKATAQTV 241 G+ ++ N T + V + A T + +K + T Sbjct: 180 ATVGD-LKSSFKNVTGYDTYAVGANKYRVDVNSGAVVTDTTAPTVPDKVYVNAANGQLTT 238 Query: 242 VQADVTTAFATGTLTMNVNDGTTTSALDLSGVSDNEQLTKLINEFSGESGVSAKLEDGKV 301 A+ TA T + A+ + E T + + Sbjct: 239 DDAENNTAVDLFKTTKSTAGTAEAKAIAGAIKGGKEGDTFDYKGVTFTIDTKTGNDGNGK 298 Query: 302 TITSSTGKDISFA---------------------------GGATGTGGLSVSNMSSGVLT 334 T+ G+ ++ G + + + Sbjct: 299 VSTTINGEKVTLTVADITAGAANVDAATLQSSKNVYTSVVNGQFTFDDKTKNESAKLSDL 358 Query: 335 GTDTIVGGTAKVVTAAGSVSLSSSSDFTLGGTGAGELSTDTGGNFTGVNLVDISTAAGAQ 394 + V G +K+ + +++ D + G T +N + Sbjct: 359 EANNAVKGESKITVNGAEYTANAAGDKVTLAGKTMFIDKTASGVSTLINEDAAAAKKSTA 418 Query: 395 AAIDIIDGAISGIDGSRSDLGAVQNRMSFTISNLSNIQSNVTDARSRIQDVDFASETAQL 454 + ID A+S +D RS LGA+QNR I+NL N +N+ ARSRI+D D+A+E + + Sbjct: 419 NPLASIDSALSKVDAVRSSLGAIQNRFDSAITNLGNTVTNLNSARSRIEDADYATEVSNM 478 Query: 455 TKQQILSQTSSAMLAQANQIPQTALSLL 482 +K QIL Q +++LAQANQ+PQ LSLL Sbjct: 479 SKAQILQQAGTSVLAQANQVPQNVLSLL 506
>FLAGELLIN#Flagellin signature. Length = 507 Score = 48.1 bits (114), Expect = 4e-08 Identities = 23/122 (18%), Positives = 66/122 (54%) Query: 20 QTATSKILDQLSSGKKVNTAGDDPVASQGIDNLNQKNALVDQFIKNIDYATNHLQQTESQ 79 Q++ S +++LSSG ++N+A DD + + Q +N + + Q TE Sbjct: 21 QSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGLTQASRNANDGISIAQTTEGA 80 Query: 80 LGQADTLVSSMKDMMLRGSNGSMTEAERQTIADDMRKSLDQLLTIANTKDESGNYLFAGN 139 L + + + ++++ ++ +NG+ ++++ ++I D++++ L+++ ++N +G + + + Sbjct: 81 LNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLEEIDRVSNQTQFNGVKVLSQD 140 Query: 140 KT 141 Sbjct: 141 NQ 142
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 215 bits (549), Expect = 2e-64 Identities = 124/455 (27%), Positives = 194/455 (42%), Gaps = 19/455 (4%) Query: 4 DLLNIARTGVLASQSQLGVTSNNIANANTAGYHRQVATQSTLESQRLGSSFYGTGTYVND 63 L+N A +G+ A+Q+ L SNNI++ N AGY RQ + S + G G YV+ Sbjct: 2 SLINNAMSGLNAAQAALNTASNNISSYNVAGYTRQTTIMAQANSTLGAGGWVGNGVYVSG 61 Query: 64 VKRIYNDYAARELRIGQTTLSAAEASYGKLSELDQLFSQIGKVVPQSLNDLFSGLNSVAD 123 V+R Y+ + +LR QT S A Y ++S++D + S + + D F+ L ++ Sbjct: 62 VQREYDAFITNQLRAAQTQSSGLTARYEQMSKIDNMLSTSTSSLATQMQDFFTSLQTLVS 121 Query: 124 LPADLGIRSSTLTNAQQVASSLNQMQSYLNGQLDQTNDQITGMTKRINEIGTELANLNLE 183 D R + + ++ + + YL Q Q N I +IN ++A+LN + Sbjct: 122 NAEDPAARQALIGKSEGLVNQFKTTDQYLRDQDKQVNIAIGASVDQINNYAKQIASLNDQ 181 Query: 184 LMKSPNQDA-----QLLDKQDALVQELSQYAQVNVIPQENGAKSIMLGGSVMLVSGEIAM 238 + + A LLD++D LV EL+Q V V Q+ G +I + LV G A Sbjct: 182 ISRLTGVGAGASPNNLLDQRDQLVSELNQIVGVEVSVQDGGTYNITMANGYSLVQGSTAR 241 Query: 239 SMGTQAGNPFPKELQLNSSIGSQSVTVDPSKL--GGQLGAMFDYRDQTLIPAGHELDQLA 296 + + P + G+ P KL G LG + +R Q L + L QLA Sbjct: 242 QLAAVPSSADPSRTTVAYVDGTAGNIEIPEKLLNTGSLGGILTFRSQDLDQTRNTLGQLA 301 Query: 297 LGVADNFNKMQAQGIDLNGQVGANIFKDINDPMMSLGRVAGFSDNAGNATLGVTIDDTSL 356 L A+ FN G D NG G + F + V + N G+ +G T+ D S Sbjct: 302 LAFAEAFNTQHKAGFDANGDAGEDFFA------IGKPAVLQNTKNKGDVAIGATVTDASA 355 Query: 357 LTGGAYELSF--TAPATYELRDTETGAITPLTLTGSTLSGGAGFSIDIKAGAMASGDRFA 414 + Y++SF L T +TP G G A D F Sbjct: 356 VLATDYKISFDNNQWQVTRLASNTTFTVTPDANGKVAFDGLELTFT----GTPAVNDSFT 411 Query: 415 IRPTAGASNGIEVVMKDPKGIAAASPKITADAANS 449 ++P + A ++V++ D IA AS + D+ N Sbjct: 412 LKPVSDAIVNMDVLITDEAKIAMASEEDAGDSDNR 446 Score = 88.1 bits (218), Expect = 2e-20 Identities = 38/104 (36%), Positives = 56/104 (53%) Query: 535 AEGDNSNAVAMAKLSESKVMNNGKSTLADVFENTKLDIGSKTKAAEVRTGSAEAVYQQAY 594 + DN N A+ L + G + D + + DIG+KT + + + V Q Sbjct: 441 GDSDNRNGQALLDLQSNSKTVGGAKSFNDAYASLVSDIGNKTATLKTSSATQGNVVTQLS 500 Query: 595 ARVESESGVNLDEEAANLMRFQQAYQASARIMTTAQQIFDTLLS 638 + +S SGVNLDEE NL RFQQ Y A+A+++ TA IFD L++ Sbjct: 501 NQQQSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALIN 544
>FLGFLGJ#Flagellar protein FlgJ signature. Length = 313 Score = 155 bits (393), Expect = 1e-46 Identities = 66/151 (43%), Positives = 94/151 (62%), Gaps = 1/151 (0%) Query: 219 GSREEFLATLYPHAEKAAKALGTQPEVLLAQSALETGWGQKIVRGNNGAPSHNLFNIKAD 278 G + FLA L A+ A++ G ++LAQ+ALE+GWGQ+ +R NG PS+NLF +KA Sbjct: 147 GDSKAFLAQLSLPAQLASQQSGVPHHLILAQAALESGWGQRQIRRENGEPSYNLFGVKAS 206 Query: 279 RRWQGDKANVSTLEFEHGVAVQQKADFRVYSDFEHSFNDFVSFIANGDRYQDAKKVAASP 338 W+G ++T E+E+G A + KA FRVYS + + +D+V + RY A AAS Sbjct: 207 GNWKGPVTEITTTEYENGEAKKVKAKFRVYSSYLEALSDYVGLLTRNPRYA-AVTTAASA 265 Query: 339 TQFIRALQDAGYATDPRYAEKVIKVMQSISE 369 Q +ALQDAGYATDP YA K+ ++Q + Sbjct: 266 EQGAQALQDAGYATDPHYARKLTNMIQQMKS 296 Score = 88.2 bits (218), Expect = 1e-21 Identities = 39/91 (42%), Positives = 61/91 (67%), Gaps = 3/91 (3%) Query: 12 DLGGLDSLRAQAQKDEKGALKKVAQQFEGIFVQMLMKSMRDANAVFQSDSPLNSQYTQFY 71 D L+ L+A+A +D ++ VA+Q EG+FVQM++KSMRDA D +S++T+ Y Sbjct: 14 DAQSLNELKAKAGEDPAANIRPVARQVEGMFVQMMLKSMRDALP---KDGLFSSEHTRLY 70 Query: 72 EQMRDQQLSVDLSDKGVLGLADMMVQQLSPE 102 M DQQ++ ++ LGLA+MMV+Q++PE Sbjct: 71 TSMYDQQIAQQMTAGKGLGLAEMMVKQMTPE 101
>FLGPRINGFLGI#Flagellar P-ring protein signature. Length = 373 Score = 373 bits (958), Expect = e-131 Identities = 159/367 (43%), Positives = 221/367 (60%), Gaps = 14/367 (3%) Query: 5 LMLTIAVLVFSLPSQAE--RIKDIANVQGVRSNQLIGYGLVVGLPGTGEKTS---YTEQT 59 L+ + + + P+QA+ RIKDIA++Q R NQLIGYGLVVGL GTG+ +TEQ+ Sbjct: 11 LVFSALPFLSTPPAQADTSRIKDIASLQAGRDNQLIGYGLVVGLQGTGDSLRSSPFTEQS 70 Query: 60 FMTMLKNFGINLPDNVKPKIKNVAVVAVHADMPAFIKPGQDLDVTVSSLGEAKSLRGGTL 119 ML+N GI + KN+A V V A++P F PG +DVTVSSLG+A SLRGG L Sbjct: 71 MRAMLQNLGITTQGG-QSNAKNIAAVMVTANLPPFASPGSRVDVTVSSLGDATSLRGGNL 129 Query: 120 LQTFLKGVDGNVYAIAQGSLVVSGFSADGLDGSKVIQNTPTVGRIPNGAIVERSVASPFS 179 + T L G DG +YA+AQG+L+V+GFSA G D + + Q T R+PNGAI+ER + S F Sbjct: 130 IMTSLSGADGQIYAVAQGALIVNGFSAQG-DAATLTQGVTTSARVPNGAIIERELPSKFK 188 Query: 180 TGDYLTFNLRRSDFSTAQRMADAINDL----LGPDMARPLDATSVQVTAPRDVSQRVSFL 235 L LR DFSTA R+AD +N G +A P D+ + V PR V+ + Sbjct: 189 DSVNLVLQLRNPDFSTAVRVADVVNAFARARYGDPIAEPRDSQEIAVQKPR-VADLTRLM 247 Query: 236 ATLENLDVVPAEESAKVIVNSRTGTIVVGQNVRLLPAAITHGGMTVTIAEATQVSQPNAL 295 A +ENL V + AKV++N RTGTIV+G +VR+ A+++G +TV + E+ QV QP Sbjct: 248 AEIENLTVET-DTPAKVVINERTGTIVIGADVRISRVAVSYGTLTVQVTESPQVIQPAPF 306 Query: 296 ANGQTVVTANTTIGVEESDRRMFMFNPGTTLDELVRAVNLVGAAPSDVLAILEALKVAGA 355 + GQT V T I + ++ + G L LV +N +G ++AIL+ +K AGA Sbjct: 307 SRGQTAVQPQTDIMAMQEGSKVAIVE-GPDLRTLVAGLNSIGLKADGIIAILQGIKSAGA 365 Query: 356 LHGELII 362 L EL++ Sbjct: 366 LQAELVL 372
>FLGLRINGFLGH#Flagellar L-ring protein signature. Length = 232 Score = 142 bits (358), Expect = 3e-44 Identities = 75/227 (33%), Positives = 113/227 (49%), Gaps = 18/227 (7%) Query: 4 YLVVAVALL-LAACSSTQKKPLADDPFYAPVYPEAPPTKIAATGSIYQDSQ-----ASSL 57 Y + ++ +L L C+ PL A P P A GSI+Q +Q L Sbjct: 9 YAISSLLVLSLTGCAWIPSTPLVQGATSAQPVPGPTP---VANGSIFQSAQPINYGYQPL 65 Query: 58 YSDIRAHKVGDIITIVLKESTQAKKSAGNQIKKGSDM-----TLDPIFAGGSNVSIGGVP 112 + D R +GD +TIVL+E+ A KS+ + T+ G G Sbjct: 66 FEDRRPRNIGDTLTIVLQENVSASKSSSANASRDGKTNFGFDTVPRYLQGL----FGNAR 121 Query: 113 IDLRYKDSMNTKRESDADQSNSLDGSISANVMQVLNNGSLVIRGEKWISINNGDEFIRVT 172 D+ + A+ SN+ G+++ V QVL NG+L + GEK I+IN G EFIR + Sbjct: 122 ADVEASGGNTFNGKGGANASNTFSGTLTVTVDQVLVNGNLHVVGEKQIAINQGTEFIRFS 181 Query: 173 GLVRSQDIKPDNTIDSTRMANARIQYSGTGTFADAQKVGWLSQFFMS 219 G+V + I NT+ ST++A+ARI+Y G G +AQ +GWL +FF++ Sbjct: 182 GVVNPRTISGSNTVPSTQVADARIEYVGNGYINEAQNMGWLQRFFLN 228
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 43.0 bits (101), Expect = 7e-07 Identities = 18/119 (15%), Positives = 40/119 (33%), Gaps = 4/119 (3%) Query: 145 DNATSITVSAEGEVSVKTPGTAENQVVGQLTMTDFINPSGLDPMGQNLYTETG---ASGT 201 + I +++E + + + Q + +L ++ G A+ Sbjct: 427 TDEAKIAMASEEDAGDSDNRNGQALLDLQSNSKTVGGAKSFNDAYASLVSDIGNKTATLK 486 Query: 202 PIQGTASLDGMGAIRQGALETSNVNVTEELVNLIESQRIYEMNSKVISAVDQMLSYVTQ 260 T + + S VN+ EE NL Q+ Y N++V+ + + + Sbjct: 487 TSSATQGNV-VTQLSNQQQSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALIN 544 Score = 35.7 bits (82), Expect = 2e-04 Identities = 9/36 (25%), Positives = 20/36 (55%) Query: 5 LWISKTGLDAQQTDIAVISNNVANASTVGYKKSRAV 40 + + +GL+A Q + SNN+++ + GY + + Sbjct: 4 INNAMSGLNAAQAALNTASNNISSYNVAGYTRQTTI 39
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 39.9 bits (93), Expect = 2e-05 Identities = 15/35 (42%), Positives = 22/35 (62%) Query: 2 SFNIALSGISAAQKDLNTTANNIANANTIGFKESR 36 N A+SG++AAQ LNT +NNI++ N G+ Sbjct: 3 LINNAMSGLNAAQAALNTASNNISSYNVAGYTRQT 37 Score = 37.6 bits (87), Expect = 9e-05 Identities = 12/49 (24%), Positives = 25/49 (51%) Query: 405 SISSSALEQSNIDLTTELVDLISAQRNFQANSRTLEVNNTLQQTVLQIR 453 +S+ S ++L E +L Q+ + AN++ L+ N + ++ IR Sbjct: 498 QLSNQQQSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALINIR 546
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 33.0 bits (75), Expect = 3e-04 Identities = 9/38 (23%), Positives = 18/38 (47%) Query: 99 NVNVMEEMADMISASRSYQMNVQVAEAAKSMLQQTLGM 136 VN+ EE ++ + Y N QV + A ++ + + Sbjct: 508 GVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALINI 545 Score = 29.9 bits (67), Expect = 0.003 Identities = 16/67 (23%), Positives = 29/67 (43%), Gaps = 6/67 (8%) Query: 5 SIFDVAGSGMSAQSVRLNTTASNIANADSVSSSVDKTYRSRHPIFEAEMAKAQSQQQASQ 64 S+ + A SG++A LNT ++NI++ + Y + I + + Sbjct: 2 SLINNAMSGLNAAQAALNTASNNISSYN------VAGYTRQTTIMAQANSTLGAGGWVGN 55 Query: 65 GVAVKGI 71 GV V G+ Sbjct: 56 GVYVSGV 62
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 61.4 bits (149), Expect = 1e-12 Identities = 23/128 (17%), Positives = 52/128 (40%), Gaps = 12/128 (9%) Query: 180 HIMVIDDSAVARKQIIRSLESLNLQIDTAKDGREALDKLKEIAKEMDNVADEIPLIISDI 239 I+V DD A R + ++L + + + A + L+++D+ Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIA---------AGDGDLVVTDV 55 Query: 240 EMPEMDGYTLTAEIRDDPKLKHIKVVLHTSLSGVFNQAMVQKVGANDFIAK-FNPDELAA 298 MP+ + + L I+ + V++ ++ + + GA D++ K F+ EL Sbjct: 56 VMPDENAFDLLPRIKK--ARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIG 113 Query: 299 AVNKHLSL 306 + + L+ Sbjct: 114 IIGRALAE 121
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 73.1 bits (179), Expect = 3e-18 Identities = 43/200 (21%), Positives = 74/200 (37%), Gaps = 11/200 (5%) Query: 13 RSEQKRQQVLAAAIDLFCRQGFPHTSMDEVAKLAGVSKQTVYSHYGSKDELFVAAIE--S 70 +++ RQ +L A+ LF +QG TS+ E+AK AGV++ +Y H+ K +LF E Sbjct: 8 EAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWELSE 67 Query: 71 KCVGHNLNDDLLSDPTKPEFALTQFALQFGEMIVSPEAITVFKACVAQSESHP---EVSQ 127 +G + P P L + + E V+ E + + V Q Sbjct: 68 SNIGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFVGEMAVVQ 127 Query: 128 LFFDAGPKHIVGLLADYLVKVEALGQYRFGNAHHSAVRLCLMLFGELKLKLELGLAAD-- 185 + L A R +++ G + +E L A Sbjct: 128 QAQRNLCLESYDRIEQTLKHCIEAKMLP---ADLMTRRAAIIMRGYISGLMENWLFAPQS 184 Query: 186 -ELANDRNDYILGCADMFLR 204 +L + DY+ +M+L Sbjct: 185 FDLKKEARDYVAILLEMYLL 204
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 46.4 bits (110), Expect = 1e-07 Identities = 26/144 (18%), Positives = 52/144 (36%), Gaps = 12/144 (8%) Query: 101 RLLEAERQ--EIQASLAQTQADVDLATSTL---KRNQELKKSGYVSEQLLDENRSQLNSL 155 +LE E + E L ++ ++ S + K +L + +E L ++ N + Sbjct: 253 AVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDN-I 311 Query: 156 AAAKNRLLASQHANQLKLDKSILVAPFDGTISQ-RLHNLGEVVAAGSPIFSLVGNINP-E 213 L N+ + S++ AP + Q ++H G VV + +V + E Sbjct: 312 GLLTLEL----AKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAETLMVIVPEDDTLE 367 Query: 214 AYIGVPVALADQFHPKQQVQVSVQ 237 V + Q + V+ Sbjct: 368 VTALVQNKDIGFINVGQNAIIKVE 391 Score = 31.3 bits (71), Expect = 0.006 Identities = 25/108 (23%), Positives = 44/108 (40%), Gaps = 9/108 (8%) Query: 76 GKLNELQADSGIKVKQDQILAILDTRLLEAERQEIQASLAQTQADVDLATSTLKRNQELK 135 + E+ G V++ +L L EA+ + Q+SL Q + + L R+ EL Sbjct: 105 SIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQ-TRYQILSRSIELN 163 Query: 136 KSGYVS-------EQLLDENRSQLNSLAAAKNRLLASQHAN-QLKLDK 175 K + + + +E +L SL + +Q +L LDK Sbjct: 164 KLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDK 211
>ACRIFLAVINRP#Acriflavin resistance protein family signature. Length = 1034 Score = 382 bits (982), Expect = e-118 Identities = 207/1048 (19%), Positives = 422/1048 (40%), Gaps = 56/1048 (5%) Query: 1 MIKAFVENGRLVSLVIALLLVAGFGAISSLPRTEDPHITNRFASVITPYPGASAERVEAL 60 M F+ ++ +L++AG AI LP + P I SV YPGA A+ V+ Sbjct: 1 MANFFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDT 60 Query: 61 VTEVLENQLRRLEEIKLIQSTS-RPGISVIQLELKDTVMETDPVWSR--ARDLLADAKVN 117 VT+V+E + ++ + + STS G I L + TDP ++ ++ L A Sbjct: 61 VTQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQS---GTDPDIAQVQVQNKLQLATPL 117 Query: 118 LPEGIPSPTL---DDQIGYAYTAILSLVWNSNTPVRVDMLNRYAKE-LQSRLRLLSGTDF 173 LP+ + + Y A T D ++ Y ++ L L+G Sbjct: 118 LPQEVQQQGISVEKSSSSYLMVAGFVSDNPGTTQ---DDISDYVASNVKDTLSRLNGVGD 174 Query: 174 VKLYGAPTEEMLVQLDGNKMSQLELTPAAIAHILSGADSKIAAGEINN------HEFRAL 227 V+L+GA M + LD + +++ +LTP + + L + +IAAG++ + A Sbjct: 175 VQLFGAQ-YAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNAS 233 Query: 228 VEVSGELDSLTRIRQVPLKIDSQGQVIRLGDIATVTRQAKTPADSIALVDGEQGVFVAAR 287 + + +V L+++S G V+RL D+A V + + IA ++G+ + + Sbjct: 234 IIAQTRFKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENY-NVIARINGKPAAGLGIK 292 Query: 288 MLNNSRVDLWQAQVNRIVDELNREMPANIQIQWLFEQNSYTSDRLGGLVVNLLQGFVIIL 347 + + + + EL P +++ + ++ + + +V L + +++ Sbjct: 293 LATGANALDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVF 352 Query: 348 LVLLLTLG-LRNAIIVAISLPLTALFTLACMKYIGLPIHQMSVTGLVVALGIMVDNAIVI 406 LV+ L L +R +I I++P+ L T A + G I+ +++ G+V+A+G++VD+AIV+ Sbjct: 353 LVMYLFLQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVV 412 Query: 407 VDAISQRRQ-QGMSRLAAVSETIHHLWLPLAGSTITTILAFAPIVLMPGAAGEFVGGIAM 465 V+ + + + A +++ + L G + F P+ G+ G ++ Sbjct: 413 VENVERVMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSI 472 Query: 466 SVMFALLGSYLISHTIIAGLAGRF-------SHEGKHDVWYQHGINLPLVSQYFQASLRI 518 +++ A+ S L++ + L HE K + ++ S+ Sbjct: 473 TIVSAMALSVLVALILTPALCATLLKPVSAEHHENKGGFFGWFNTTFDHSVNHYTNSVGK 532 Query: 519 ALKRPILSALLIGITPVLGFYASGKMTEQFFPPSDRDMFQIEVYLAPHVSLDNSLNQVQL 578 L L+ + ++ F P D+ +F + L + + + + Sbjct: 533 ILGSTGRYLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQ 592 Query: 579 MDKKL--HAVNGITQVDWVVGGNTPSFYYNLTQRQQGATNYAQAMVK-----VTDFERAN 631 + + + V V G + Q A +K D A Sbjct: 593 VTDYYLKNEKANVESVFTVNGFSFSG--------QAQNAGMAFVSLKPWEERNGDENSAE 644 Query: 632 ELIPELQQQFDS---AFPEAQVLVRKLEQGPPFNAPVELM-IFGPNLDTLRTLGDEVRNI 687 +I + + F + +E G EL+ G D L +++ + Sbjct: 645 AVIHRAKMELGKIRDGFVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGM 704 Query: 688 LAQTP-DVLHTRATLSAGAPKLWLQVNEDASLMSGLSLTDIAKQIQMSTTGVIGGSVLEQ 746 AQ P ++ R + L+V+++ + G+SL+DI + I + G +++ Sbjct: 705 AAQHPASLVSVRPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDR 764 Query: 747 TESLPVRVRLGDGSREQVTRLSEIQLVTPSGESVALSALAHNEVQVSRGAIPRRNGQRVN 806 + V+ R + ++ + + +GE V SA + + R NG Sbjct: 765 GRVKKLYVQADAKFRMLPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSM 824 Query: 807 TIEAYIVSGVLPAQVLNDVKDKVAQLALPSGYRIEIGGESAKRNEAVGNLLSNVMLVVTL 866 I+ G + +++ ++ LP+G + G S + + + V + + Sbjct: 825 EIQGEAAPGTSSGDAMALMENLASK--LPAGIGYDWTGMSYQERLSGNQAPALVAISFVV 882 Query: 867 LLATVVLSFNSFRLTAIILLSAIQSAGLGLLAVYVFGYPFGFPVIIGLLGLMGLAINAAI 926 + + + S+ + ++L LLA +F ++GLL +GL+ AI Sbjct: 883 VFLCLAALYESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAI 942 Query: 927 VILAELEDMPSAR-LGDMETIVSTVSSCGRHISSTTITTVGGFIPLII---AGGGFWPPF 982 +I+ +D+ G +E + V R I T++ + G +PL I AG G Sbjct: 943 LIVEFAKDLMEKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAV 1002 Query: 983 AIAIAGGTLLTTLLSLVWVPTMYLLLMK 1010 I + GG + TLL++ +VP ++++ + Sbjct: 1003 GIGVMGGMVSATLLAIFFVPVFFVVIRR 1030
>FLAGELLIN#Flagellin signature. Length = 507 Score = 29.6 bits (66), Expect = 0.040 Identities = 19/87 (21%), Positives = 34/87 (39%), Gaps = 4/87 (4%) Query: 426 QIATAIEEMSTSIRDVANHAQDGAVQSQQVDAAAKEGQGQQTKVVQDLLKLSEQLSNSHQ 485 IA + + +A DG +Q + A E +Q + +LS Q +N Sbjct: 48 AIANRFTSNIKGLTQASRNANDGISIAQTTEGALNE----INNNLQRVRELSVQATNGTN 103 Query: 486 SVEKVSHESEAISKVTEVINSIAEQTN 512 S + + I + E I+ ++ QT Sbjct: 104 SDSDLKSIQDEIQQRLEEIDRVSNQTQ 130
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 91.4 bits (227), Expect = 1e-23 Identities = 34/130 (26%), Positives = 64/130 (49%), Gaps = 4/130 (3%) Query: 3 ARILIVEDELAIREMLTFVMEQHGFTTSAAEDFDSAIALLKEPYPDLILLDWMFPGGSGI 62 A IL+ +D+ AIR +L + + G+ + + + DL++ D + P + Sbjct: 4 ATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63 Query: 63 QLAKRLKQDEFTRQIPIIMLTARGEEEDKVKGLEVGADDYITKPFSPKELVARIKAVL-- 120 L R+K+ +P+++++A+ +K E GA DY+ KPF EL+ I L Sbjct: 64 DLLPRIKKAR--PDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAE 121 Query: 121 RRSAPTRLEE 130 + P++LE+ Sbjct: 122 PKRRPSKLED 131
>ECOLNEIPORIN#E.coli/Neisseria porin superfamily signature. Length = 331 Score = 83.7 bits (207), Expect = 2e-20 Identities = 77/335 (22%), Positives = 128/335 (38%), Gaps = 33/335 (9%) Query: 6 KTLLASALASATLASAYAAEPLTVYGKLNV---TAQSNDEKGDAT------TTIQSNASR 56 K+L+A LA+ +A A +T+YG + T++S G T I S+ Sbjct: 3 KSLIALTLAALPVA---AMADVTLYGTIKAGVETSRSVAHNGAQAASVETGTGIVDLGSK 59 Query: 57 FGVKGNFELSSSLEAFYTVEYEVDTGAATSDNFKARNQFVGLKGAFGSFSVGRNDTLLKI 116 G KG +L + L+A + VE + A T + R F+GLKG FG VGR +++LK Sbjct: 60 IGFKGQEDLGNGLKAIWQVEQKASI-AGTDSGWGNRQSFIGLKGGFGKLRVGRLNSVLK- 117 Query: 117 SQGNVDQFNDLSGDL--KSLFKGDNRLGQTATYLSPSISGFVFGATYAAEGDADQQGQDG 174 G+++ ++ S L + + + RL + Y SP +G YA +A + + Sbjct: 118 DTGDINPWDSKSDYLGVNKIAEPEARL-ISVRYDSPEFAGLSGSVQYALNDNAGRHNSES 176 Query: 175 FSLAAMYGDAKLKKSPIYAAIAYDSDVKGYEILRASVQGKIANLTLGGMYQQQEETYKNA 234 + Y + A + + I + + ++ +Y ++A Sbjct: 177 YHAGFNYKNGGFFVQYGGAYKRHHQVQENVNIEKYQIHRLVSGYDNDALYASVAVQQQDA 236 Query: 235 LPVTTD----SVNGYLFSAAYDIDAVTLKAQY-----QDMEDKGDS-----WSVGADYAL 280 V + S + AY VT + Y + + VGA+Y Sbjct: 237 KLVEENYSHNSQTEVAATLAYRFGNVTPRVSYAHGFKGSFDATNYNNDYDQVVVGAEYDF 296 Query: 281 AKPTKVFAFYT--NRSLEASADDDKYIGVGLEHKF 313 +K T S GVGL HKF Sbjct: 297 SKRTSALVSAGWLQEGKGESKFVSTAGGVGLRHKF 331
>SECA#SecA protein signature. Length = 901 Score = 31.0 bits (70), Expect = 0.006 Identities = 11/41 (26%), Positives = 24/41 (58%), Gaps = 1/41 (2%) Query: 81 EALEEKVALIEDEENRKMAKKEKDALKD-EIITSLLPRAFS 120 A+E ++ + DEE + + + L+ E++ +L+P AF+ Sbjct: 29 NAMEPEMEKLSDEELKGKTAEFRARLEKGEVLENLIPEAFA 69
>BCTERIALGSPD#Bacterial general secretion pathway protein D signature. Length = 660 Score = 31.8 bits (72), Expect = 0.012 Identities = 25/119 (21%), Positives = 49/119 (41%), Gaps = 7/119 (5%) Query: 4 LTVILFTLLLSLPFSVQSRDIEADEVELRESPQQMYDALNQSISFPLSFQNR---DQFER 60 LT+++F LL P + + +++E + LN+++ S + ++ Sbjct: 12 LTLLIFAALLFRPAAAEEFSASFKGTDIQEFINTVSKNLNKTVIIDPSVRGTITVRSYDM 71 Query: 61 AAQEQGYSPTEFEQIL--YLLTRLNMEPNVKTKVGFQDAKSLIAVLSTAAQSPYELAMV 117 +EQ Y F +L Y +NM V V +DAK+ +++ A +V Sbjct: 72 LNEEQYY--QFFLSVLDVYGFAVINMNNGVLKVVRSKDAKTAAVPVASDAAPGIGDEVV 128
>PF05307#Bundlin Length = 193 Score = 34.0 bits (77), Expect = 0.001 Identities = 17/52 (32%), Positives = 29/52 (55%) Query: 74 ATLSAATSSIATQSKAVPSNTTSTLSSNTFETSVDAQLAQEQLISPNESISV 125 A +S AT ++ T +K N + S+N+F TS + A+ I+P E+ +V Sbjct: 127 ACVSLATLNLGTSAKGYGVNINNPASTNSFNTSATSSNAKSSAITPAEAATV 178
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 30.6 bits (69), Expect = 0.027 Identities = 12/39 (30%), Positives = 17/39 (43%), Gaps = 6/39 (15%) Query: 339 LFGYVENATFRGTVFTDFSLIRPGSLHKANGGVLLMDAV 377 LFG+ + A FT G +A GG L +D + Sbjct: 208 LFGHEKGA------FTGAQTRSTGRFEQAEGGTLFLDEI 240
>HTHTETR#TetR bacterial regulatory protein HTH signature. Length = 215 Score = 58.5 bits (141), Expect = 7e-13 Identities = 27/167 (16%), Positives = 60/167 (35%), Gaps = 3/167 (1%) Query: 2 RNAEFDREQVLRGAMAAFMHKGYTKTSMQDLTQATGLHPGSIYCAFTNKRGLLIAAIEQY 61 + A+ R+ +L A+ F +G + TS+ ++ +A G+ G+IY F +K L E Sbjct: 7 QEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWELS 66 Query: 62 QLDRNVQFNSLFAN-SENVQTNLKNYLNHIVAECLSCDSAQACLLTKALNEVAEQDVEIR 120 + + A + + L+ L H++ ++ + + + ++ + Sbjct: 67 ESNIGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFVGEMAVV 126 Query: 121 D-IINQYLQSWQQALTQQFTRAAQQGLLQGHRSDEQRAQYFMMGIYG 166 + Q + +L +RA M G Sbjct: 127 QQAQRNLCLESYDRIEQTLKHCIEAKMLPADL-MTRRAAIIMRGYIS 172
>FLAGELLIN#Flagellin signature. Length = 507 Score = 30.8 bits (69), Expect = 0.013 Identities = 29/256 (11%), Positives = 71/256 (27%), Gaps = 14/256 (5%) Query: 74 AHDISVQTSKIAIGSAEVSHFIDLLNKSIESNGEHASAIAVAAGQLSHTTAQLGDNAADI 133 K+ + +A D + + + + A G Sbjct: 217 DTTAPTVPDKVYVNAANGQLTTDDAENNTAVDLFKTTKSTAGTAE---AKAIAGAIKGGK 273 Query: 134 LGQAQEAERVSVQGRSQAQKG-----VAAIRSLSTDIDTAAEQVQALKSRAEEIQKITEV 188 G + + V+ ++ I + A A A +Q V Sbjct: 274 EGDTFDYKGVTFTIDTKTGNDGNGKVSTTINGEKVTLTVADITAGAANVDAATLQSSKNV 333 Query: 189 INSVAEQTNLLALNAAIEAARAGEQGRGFAVVADEVRSLAGKTAGATQDIGKMLLEIRSE 248 SV E+A+ + AV + ++ G A K+ L ++ Sbjct: 334 YTSVVNGQFTFDDKTKNESAKLSDLEANNAVKGESKITVNGAEYTANAAGDKVTLAGKTM 393 Query: 249 TDKTSGLMERVVTQTADVVT------AMGELDAHFTEISASVTQSAHALGDMEDSLKQYN 302 + + + +D+ +++ A + + ++ Sbjct: 394 FIDKTASGVSTLINEDAAAAKKSTANPLASIDSALSKVDAVRSSLGAIQNRFDSAITNLG 453 Query: 303 NTTNDISRSVTQIRDS 318 NT +++ + ++I D+ Sbjct: 454 NTVTNLNSARSRIEDA 469
>PF06580#Sensor histidine kinase Length = 349 Score = 36.8 bits (85), Expect = 1e-04 Identities = 20/101 (19%), Positives = 44/101 (43%), Gaps = 15/101 (14%) Query: 291 LVLQEGISNAVRHG-----KANQLQLSMEDSQNALVLQLSDNGMGLTRGTARNVSAKNGT 345 +++Q + N ++HG + ++ L + L++ + G + KN Sbjct: 258 MLVQTLVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSL---------ALKNTK 308 Query: 346 ELNGTGLGGMQERLQP-FNGKVQLRANDSAPGCQLTLTLPA 385 E GTGL ++ERLQ + + Q++ ++ + +P Sbjct: 309 ESTGTGLQNVRERLQMLYGTEAQIKLSEKQGKVNAMVLIPG 349
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 73.7 bits (181), Expect = 2e-17 Identities = 21/112 (18%), Positives = 54/112 (48%), Gaps = 2/112 (1%) Query: 12 LVEDQQLVRQGIASLLAISDNIRVLWQAEDGQDALKQLASNPVDVLLSDIRMPNLDGIAM 71 + +D +R + L+ + V + + +A+ D++++D+ MP+ + + Sbjct: 8 VADDDAAIRTVLNQALSRAG-YDVR-ITSNAATLWRWIAAGDGDLVVTDVVMPDENAFDL 65 Query: 72 LKQIRQSANRLPVIMLTTFDDSELFLNSLQAGANGFLLKDVSLDKLLHAIET 123 L +I+++ LPV++++ + + + + GA +L K L +L+ I Sbjct: 66 LPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGR 117
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 63.3 bits (154), Expect = 2e-12 Identities = 28/124 (22%), Positives = 48/124 (38%), Gaps = 2/124 (1%) Query: 678 QSLTVLAVDDNFANLKLIDTLLSELVTTVIAVNSGDEAVKQAKTRTFDLIFMDIQMPGTD 737 T+L DD+ A +++ LS V ++ + DL+ D+ MP + Sbjct: 2 TGATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDEN 61 Query: 738 GISATKQIRQGSMNRNTPIIAVTAHAIAEERELILGSGMDGYLPKPIDEAALKDVIHRWI 797 +I+ + P++ ++A G YLPKP D L +I R + Sbjct: 62 AFDLLPRIK--KARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRAL 119 Query: 798 TRPK 801 PK Sbjct: 120 AEPK 123
>BACINVASINB#Salmonella/Shigella invasin protein B signature. Length = 593 Score = 28.2 bits (62), Expect = 0.025 Identities = 17/41 (41%), Positives = 25/41 (60%) Query: 142 EALDDFVFAHEVMEEEKELQNSLLEIIEENPKITAELVKGL 182 EAL DF+ A M++ ++ +EI EN K+TAEL K + Sbjct: 533 EALADFMLARFAMDQIQQWLKQSVEIFGENQKVTAELQKAM 573
>GPOSANCHOR#Gram-positive coccus surface protein anchor signature. Length = 539 Score = 37.7 bits (87), Expect = 1e-04 Identities = 56/328 (17%), Positives = 105/328 (32%), Gaps = 28/328 (8%) Query: 59 ANKTEVSAR--FSLDDIPLAKRWLEDNDLELDDECILRRTIGSDGRSRAYINGNPVPLTQ 116 T + L K + E+++ + + ++A + Sbjct: 34 VVNTNEVSAVATRSQTDTLEKVQERADKFEIENNTLKLKNSDLSFNNKALKD-------H 86 Query: 117 LKLLGQLLIGIHGQHAHHAMLKSEHQLTLLDSYANHRLLIDTVAASFQRCKQIEADLKQL 176 L + L + + SE + + A L + + A +K L Sbjct: 87 NDELTEELSNAKEKLRKNDKSLSEKASKIQELEARKADLEKALEGAMNFSTADSAKIKTL 146 Query: 177 EASQHERIARKQLVQYQVEELDEFDLKVDEFDEIEQEHKRLANGTELIDTCQASLDILTE 236 EA + ARK ++ +E F + K L ++ QA L E Sbjct: 147 EAEKAALAARKADLEKALEGAMNFST------ADSAKIKTLEAEKAALEARQAEL----E 196 Query: 237 GEENNIESLLNRVVSLAEDLQSYDPALSNINTMLNDALIQVQESAGELQHYLSKLELDPA 296 + + + L++ AL+ L AL + + LE A Sbjct: 197 KALEGAMNFSTADSAKIKTLEAEKAALAARKADLEKALEGAMNFSTADSAKIKTLE---A 253 Query: 297 HFAYLEERLSKAMQLARKHHVSPNKLAEHHLALKAELSTLDSDESKLEEIQLQVDASRAA 356 A LE R ++ + + L+AE + L+++++ LE ++A+R Sbjct: 254 EKAALEARQAELEKALEGAMNFSTADSAKIKTLEAEKAALEAEKADLEHQSQVLNANRQ- 312 Query: 357 YLSNAQKLSQSRARYAK---ELDKLVTQ 381 S + L SR + E KL Q Sbjct: 313 --SLRRDLDASREAKKQLEAEHQKLEEQ 338 Score = 36.6 bits (84), Expect = 2e-04 Identities = 40/217 (18%), Positives = 72/217 (33%), Gaps = 14/217 (6%) Query: 167 KQIEADLKQLEASQHERIARKQLVQYQVEELD-EFDLKVDEFDEIEQEHKRLANGTELID 225 + A A K ++ + EL+ + ++ + K L + Sbjct: 165 EGAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMNFSTADSAKIKTLEAEKAALA 224 Query: 226 TCQASLDILTEGEENNIESLLNRVVSLAEDLQSYDPALSNINTMLNDALIQVQESAGELQ 285 +A L+ EG N + ++ +L + + L L AL + Sbjct: 225 ARKADLEKALEGAMNFSTADSAKIKTLEAEKAA----LEARQAELEKALEGAMNFSTADS 280 Query: 286 HYLSKLELDPAHFAYLEERLSKAMQLARKHHVSPNKLAEHHLALKAELSTLDSDESKLEE 345 + LE A A LE + ++ + + L A + L+++ KLEE Sbjct: 281 AKIKTLE---AEKAALEAEKADLEHQSQVLNANRQSLRRDLDASREAKKQLEAEHQKLEE 337 Query: 346 IQLQVDASRAAYLSNAQKLSQSRARYAK---ELDKLV 379 Q S A+ S + L SR + E KL Sbjct: 338 ---QNKISEASRQSLRRDLDASREAKKQLEAEHQKLE 371
>TYPE3IMQPROT#Type III secretion system inner membrane Q protein family signature. Length = 86 Score = 27.8 bits (62), Expect = 0.014 Identities = 9/39 (23%), Positives = 16/39 (41%) Query: 71 LSDLAAMGAEPAWMTLALTLPAVDETWLSGFSEGLFEAA 109 + DL G + ++ L L+ + G GLF+ Sbjct: 1 MDDLVFAGNKALYLVLILSGWPTIVATIIGLLVGLFQTV 39
>TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family signature. Length = 639 Score = 72.2 bits (177), Expect = 5e-15 Identities = 51/202 (25%), Positives = 78/202 (38%), Gaps = 30/202 (14%) Query: 387 IMGHVDHGKTSLLDYIRRAKVAAGEAG------------------GITQHIGAYHVETEN 428 ++ HVD GKT+L + + A E G GIT G + EN Sbjct: 8 VLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQWEN 67 Query: 429 GMITFLDTPGHAAFTAMRARGAKATDIVVLVVAADDGVMPQTIEAIQHAKAGNVPLIVAV 488 + +DTPGH F A R D +L+++A DGV QT + +P I + Sbjct: 68 TKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALRKMGIPTIFFI 127 Query: 489 NKMDKPEADIDRV----KSELSQHGVMS-------EDWGGDNMFAFVSAKTGEGVDELLE 537 NK+D+ D+ V K +LS V+ + + EG D+LLE Sbjct: 128 NKIDQNGIDLSTVYQDIKEKLSAEIVIKQKVELYPNMCVTNFTESEQWDTVIEGNDDLLE 187 Query: 538 GILLQAEVLELKAVRDGMAAGV 559 + + LE + + Sbjct: 188 K-YMSGKSLEALELEQEESIRF 208
>SECGEXPORT#Protein-export SecG membrane protein signature. Length = 110 Score = 118 bits (297), Expect = 4e-38 Identities = 61/111 (54%), Positives = 82/111 (73%), Gaps = 1/111 (0%) Query: 1 MYEVLVVIYLLVALGLIGLVLIQQGKGADMGASFGAGASGTLFGSSGSGNFLTRTTAILA 60 MYE L+V++L+VA+GL+GL+++QQGKGADMGASFGAGAS TLFGSSGSGNF+TR TA+LA Sbjct: 1 MYEALLVVFLIVAIGLVGLIMLQQGKGADMGASFGAGASATLFGSSGSGNFMTRMTALLA 60 Query: 61 IAFFTLSLLIGNLSANHAKNEDSWKNLGSDTEQVTQPVEQGTQKSETKIPD 111 FF +SL++GN+++N W+NL S + Q K + IP+ Sbjct: 61 TLFFIISLVLGNINSNKTNKGSEWENL-SAPAKTEQTQPAAPAKPTSDIPN 110
>adhesinb#Adhesin B signature. Length = 310 Score = 31.4 bits (71), Expect = 0.003 Identities = 18/95 (18%), Positives = 34/95 (35%), Gaps = 16/95 (16%) Query: 142 REARRTFEVIAEELDIVIQKNGTMAFDNAIIAY----EPLWAVGTGKSATPEQAQEVHAF 197 +EA+ F I E +++ G F AY +W + T + TP+Q + + Sbjct: 186 KEAKEKFNNIPGEKKMIVTSEG--CFKYFSKAYNVPSAYIWEINTEEEGTPDQIKTLVEK 243 Query: 198 IRKRLSEVSPFIGENIRILYGGSVTPSNAADLFAQ 232 +RK + L+ S ++ Sbjct: 244 LRKT----------KVPSLFVESSVDDRPMKTVSK 268
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 34.0 bits (78), Expect = 0.002 Identities = 23/82 (28%), Positives = 32/82 (39%), Gaps = 18/82 (21%) Query: 193 VLMVGPPGTGKTLLAKAIAGESK---VPFFT-----ISGSDFVEMFVGV------GASRV 238 +++ G GTGK L+A+A+ K PF I G GA Sbjct: 163 LMITGESGTGKELVARALHDYGKRRNGPFVAINMAAIPRDLIESELFGHEKGAFTGAQTR 222 Query: 239 RD-MFEQAKKSAPCIIFIDEID 259 FEQA+ +F+DEI Sbjct: 223 STGRFEQAEGGT---LFLDEIG 241
>SECFTRNLCASE#Bacterial translocase SecF protein signature. Length = 333 Score = 248 bits (634), Expect = 3e-83 Identities = 91/306 (29%), Positives = 160/306 (52%), Gaps = 14/306 (4%) Query: 2 KNINLTKWRYVSSAISIFLMITSLAIIGVKGFNWGLDFTGGVVTEVQLDRKITSSELQPL 61 N + +W++ + +I +MI S+ + V G N+G+DF GG + I + Sbjct: 12 TNFDFFRWQWATFGAAIVMMIASVILPLVIGLNFGIDFKGGTTIRTESTTAIDVGVYRAA 71 Query: 62 LNAAYQQEVSVISASEPG----------RWVLRYGDIKSADTEQSNVDIQ----QTLAPL 107 L +V + +P R ++ + ++ L + Sbjct: 72 LEPLELGDVIISEVRDPSFREDQHVAMIRIQMQEDGQGAEGQGAQGQELVNKVETALTAV 131 Query: 108 NSEVQVLNSSVVGPQIGQELAEQGGLALLVAMLCILGYLSYRFEWRLASGALFALVHDVV 167 + +++ + VGP++ EL +LL A + I+ Y+ RFEW+ A GA+ ALVHDV+ Sbjct: 132 DPALKITSFESVGPKVSGELVWTAVWSLLAATVVIMFYIWVRFEWQFALGAVVALVHDVL 191 Query: 168 FVLAFFALTQMEFNLTVLAAVLAILGYSLNDSIIIADRIRELLIAKPKLSIQEINNQAIV 227 + FA+ Q++F+LT +AA+L I GYS+ND++++ DR+RE LI + ++++ N ++ Sbjct: 192 LTVGLFAVLQLKFDLTTVAALLTITGYSINDTVVVFDRLRENLIKYKTMPLRDVMNLSVN 251 Query: 228 ATFSRTMVTSGTTLMTVGALWIMGGGPLEGFSIAMFIGILTGTFSSISVGTSLPEFLGLT 287 T SRT++T TTL+ + + I GG + GF AM G+ TGT+SS+ V ++ F+GL Sbjct: 252 ETLSRTVMTGMTTLLALVPMLIWGGDVIRGFVFAMVWGVFTGTYSSVYVAKNIVLFIGLD 311 Query: 288 PEHYKE 293 K+ Sbjct: 312 RNKEKK 317
>SECFTRNLCASE#Bacterial translocase SecF protein signature. Length = 333 Score = 78.0 bits (192), Expect = 9e-18 Identities = 30/172 (17%), Positives = 82/172 (47%), Gaps = 4/172 (2%) Query: 422 VTIVEERTIGPTLGAENIENGFAALGLGMGITLLFMALWYR-RLGWVANIALISNMVILF 480 + I ++GP + E + +L + + ++ + + + A +AL+ ++++ Sbjct: 135 LKITSFESVGPKVSGELVWTAVWSLLAATVVIMFYIWVRFEWQFALGAVVALVHDVLLTV 194 Query: 481 GLLALIPGAVLTLPGIAGLVLTVGMAVDTNVLIFERIKDKLKEGRSFALA--IDTGFDSA 538 GL A++ L +A L+ G +++ V++F+R+++ L + ++ L ++ + Sbjct: 195 GLFAVL-QLKFDLTTVAALLTITGYSINDTVVVFDRLRENLIKYKTMPLRDVMNLSVNET 253 Query: 539 FSTIFDANFTTMITAVVLYSIGNGPIQGFALTLGLGLLTSMFTGIFASRALI 590 S TT++ V + G I+GF + G+ T ++ ++ ++ ++ Sbjct: 254 LSRTVMTGMTTLLALVPMLIWGGDVIRGFVFAMVWGVFTGTYSSVYVAKNIV 305
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 83.0 bits (205), Expect = 1e-19 Identities = 33/172 (19%), Positives = 61/172 (35%), Gaps = 23/172 (13%) Query: 7 SKQTLLLVDDEPVNLRVLKQILHQ-DYQLIFAKNGEEALRLAQIEKPSLILLDIMMPNMT 65 + T+L+ DD+ VL Q L + Y + N R L++ D++MP+ Sbjct: 2 TGATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDEN 61 Query: 66 GFEVCQILKTMTETQSIPVIFVTALNDEHDEAAGFAAGGVDYIAKPISAAIVKARVKTHL 125 F++ +K +PV+ ++A N G DY+ KP + + L Sbjct: 62 AFDLLPRIKKARP--DLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRAL 119 Query: 126 SLVQADELKRTR---------------LQVIQRLGRAAEYKDN-----ETGT 157 + + K ++ + L R + E+GT Sbjct: 120 AEPKRRPSKLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTDLTLMITGESGT 171
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 67.5 bits (165), Expect = 1e-13 Identities = 27/124 (21%), Positives = 47/124 (37%), Gaps = 7/124 (5%) Query: 780 TILVVDDIQQNIDLLTVLFTRLGHKVITARDGQQALVRMQKGSIDITLMDLQMPIMDGLT 839 TILV DD +L +R G+ V + + G D+ + D+ MP + Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64 Query: 840 A-AKIRRQQEAEEQLVHMPIIALTASVLEQDQNAAVQAGMDGFANKPIDFAHLSREIARV 898 +I++ + +P++ ++A A + G + KP D L I R Sbjct: 65 LLPRIKKARP------DLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRA 118 Query: 899 LKLE 902 L Sbjct: 119 LAEP 122
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 41.0 bits (96), Expect = 6e-06 Identities = 23/121 (19%), Positives = 47/121 (38%), Gaps = 7/121 (5%) Query: 106 DYEADLMQAEATLAQATAALNEEIARGEVAKIEFKGYDKGLPPELGLRIPQLKKEQANVK 165 + E ++A L + L + + AK E++ + E+ + +L++ N+ Sbjct: 256 EQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQLFKNEI---LDKLRQTTDNIG 312 Query: 166 YAQAALARAQRNLERTVIRAPFDGIIKARNV-DLGQYVSLGTNLGELY---DTSVAEIRL 221 LA+ + + +VIRAP ++ V G V+ L + DT + Sbjct: 313 LLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAETLMVIVPEDDTLEVTALV 372 Query: 222 P 222 Sbjct: 373 Q 373 Score = 39.4 bits (92), Expect = 2e-05 Identities = 25/125 (20%), Positives = 53/125 (42%), Gaps = 11/125 (8%) Query: 62 GVVTPKYKTQLVTEVQGRMLSISADFVA-GGIVKKGDQLAQIEPSDYEADLMQAEATLAQ 120 G +T +++ + ++ + + V G V+KGD L ++ EAD ++ +++L Q Sbjct: 88 GKLTHSGRSKEIKPIENSI--VKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQ 145 Query: 121 ATA------ALNEEIARGEVAKIEFKGYD--KGLPPELGLRIPQLKKEQANVKYAQAALA 172 A L+ I ++ +++ + + E LR+ L KEQ + Q Sbjct: 146 ARLEQTRYQILSRSIELNKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQK 205 Query: 173 RAQRN 177 + Sbjct: 206 ELNLD 210
>ACRIFLAVINRP#Acriflavin resistance protein family signature. Length = 1034 Score = 497 bits (1282), Expect = e-161 Identities = 214/1042 (20%), Positives = 446/1042 (42%), Gaps = 48/1042 (4%) Query: 11 FARNSVAANLLMWALLVGGLFSTVLINKEVFPSFELNLLNISVAYPGAAPQEIEEGINIK 70 F R + A +L L++ G + + + +P+ +++S YPGA Q +++ + Sbjct: 5 FIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDTVTQV 64 Query: 71 IEEAIQDINGIKKVTSVA-SEGVGSITVEVEDGYEVQTVLDEAKLRLDAI-STFPVNIEK 128 IE+ + I+ + ++S + S G +IT+ + G + + + +L P +++ Sbjct: 65 IEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQEVQQ 124 Query: 129 PNIYQIKPENNVIWV----SVYGDMTLHDMKELAKS-VRDDLTQLPAVTRAKVTGVRDYE 183 I K ++ + V S T D+ + S V+D L++L V ++ G Y Sbjct: 125 QGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFG-AQYA 183 Query: 184 IGIEVSENKLREYGLTFSQVALAVQNSSFDLPGGSIRA------QDGDILLRTKGQAYTG 237 + I + + L +Y LT V ++ + + G + Q + + + + Sbjct: 184 MRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTRFKNP 243 Query: 238 DDFANIVVTTRPDGSRVMLPQVATIKDDFEERLEYTRFNGKPAAIIEVTSVDDQNALDIA 297 ++F + + DGS V L VA ++ E R NGKPAA + + NALD A Sbjct: 244 EEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGANALDTA 303 Query: 298 AQVKQYVEDRRATLPANAQLDTWGDMTHYLKGRLNMMMSNMFYGALLVFIILALFL-DLK 356 +K + + + P ++ D T +++ ++ ++ +F +LVF+++ LFL +++ Sbjct: 304 KAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVMYLFLQNMR 363 Query: 357 LAFWVMMGLPVCFLGTMLIMPLEPFSMTINMLTLFAFILVLGIVVDDAIVIGESAYTE-V 415 + +PV LGT I+ F +IN LT+F +L +G++VDDAIV+ E+ + Sbjct: 364 ATLIPTIAVPVVLLGTFAILAA--FGYSINTLTMFGMVLAIGLLVDDAIVVVENVERVMM 421 Query: 416 ERHGHSVENVIRGAQKVAMPATFGVLTTIAAFIPMLMVSGPMGIIWKSIGMVVILCLAFS 475 E E + ++ + A FIPM G G I++ + ++ +A S Sbjct: 422 EDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMALS 481 Query: 476 LVESKFILPAHLAHM----KFKKPGAPRGFFGRLKANFNDRVQHFIHHSYRNFLERCIKQ 531 ++ + + PA A + + GFFG F D + +S L Sbjct: 482 VLVALILTPALCATLLKPVSAEHHENKGGFFGWFNTTF-DHSVNHYTNSVGKILGSTG-- 538 Query: 532 RYNVVAAFIGVLVLSIALVASGKVRWVFFPDIPSDFIQVQLEMDEGSSEDNTLKVVQSIE 591 RY ++ A I ++ + L ++ F P+ +++ G++++ T KV+ + Sbjct: 539 RYLLIYALIVAGMVVLFL----RLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQVT 594 Query: 592 EALYKMNDKMEQDNGYQVVKHSFINMSSRTSAFIFAELTKGEDR---EVDGVTIAAAWRE 648 + K N+K ++ + V SF ++ + F L E+R E + + Sbjct: 595 DYYLK-NEKANVESVFTVNGFSFSGQ-AQNAGMAFVSLKPWEERNGDENSAEAVIHRAKM 652 Query: 649 QLPELLSVKKLSFNASTNDAGGDIS------FRLTSSDLDELSAASKELKQKLASY-EGV 701 +L ++ + FN G + D L+ A +L A + + Sbjct: 653 ELGKIRDGFVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQHPASL 712 Query: 702 YDIADNFSSGSHEIRLKI-RPEAEALGLTLSDLARQVRYGFYGYEAQRILRNKEEIKVMV 760 + N + + +L++ + +A+ALG++LSD+ + + G + K+ V Sbjct: 713 VSVRPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRVKKLYV 772 Query: 761 RYPLEQRRTVGYLENMLIRTPTGTSVPFSTVAQIEKGESYASITRVDGKRAITITANANK 820 + + R ++ + +R+ G VPFS + R +G ++ I A Sbjct: 773 QADAKFRMLPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEIQGEAAP 832 Query: 821 NIVEPSKVVQEIQKDYLPQLQAKYPKIQTALDGGSLDEQNAMVGLLQGFFFALFTIYALM 880 S + ++ +L A G S E+ + + ++ + Sbjct: 833 GTS--SGDAMALMENLASKLPAGI-GYDWT--GMSYQERLSGNQAPALVAISFVVVFLCL 887 Query: 881 AIPLKSYSQPLIIMSVIPFGIIGALFGHLIQGLAMSVLSLCGIVALAGVVVNDSLILVDF 940 A +S+S P+ +M V+P GI+G L + V + G++ G+ +++++V+F Sbjct: 888 AALYESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILIVEF 947 Query: 941 VNRARE-QGQSVRQAAVDSGCYRFRAIILTSLTTFVGLVPIILERSLQAQIVIPMATSLA 999 E +G+ V +A + + R R I++TSL +G++P+ + + + + Sbjct: 948 AKDLMEKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIGVM 1007 Query: 1000 FGILFSTVVTLILVPLLYIILD 1021 G++ +T++ + VP+ ++++ Sbjct: 1008 GGMVSATLLAIFFVPVFFVVIR 1029
>HELNAPAPROT#Helicobacter neutrophil-activating protein A family signature. Length = 153 Score = 30.2 bits (68), Expect = 0.007 Identities = 22/89 (24%), Positives = 34/89 (38%), Gaps = 20/89 (22%) Query: 112 AVDASLERLQIDTIDLY----QVHWPDRNTNFFG--ELFYEAQDQETQTPILETLEALAE 165 V+ SL + LY + HW + +FF E F +E ET++ +AE Sbjct: 12 LVENSLNTQLSNWFLLYSKLHRFHWYVKGPHFFTLHEKF-----EELYDHAAETVDTIAE 66 Query: 166 VIRQGKVRYIGVSNETPWGLMK-YLQLAE 193 + IG P +K Y + A Sbjct: 67 RLLA-----IGGQ---PVATVKEYTEHAS 87
>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature. Length = 1541 Score = 28.9 bits (64), Expect = 0.026 Identities = 27/115 (23%), Positives = 44/115 (38%), Gaps = 6/115 (5%) Query: 127 IHLGTGTLSTKFQ--HDVTNVYDGFQADITYYHPINLGFGDLVPYAGVHYFSKDFANYYT 184 I LG G +K Q H+ Q +T NLG + P GV Y A++ Sbjct: 1377 IDLGYGKFQSKLQTNHNAKFARHTAQFGLTAGKAFNLGNFGITPIVGVRYSYLSNADFAL 1436 Query: 185 G---VTSSEATAQRPAYQADGTFAYKLGYALVIPV-TKHLDITQATGYSHIAANM 235 + + + + Q D ++ Y LG V P+ + D Q +G ++ Sbjct: 1437 DQARIKVNPISVKTAFAQVDLSYTYHLGEFSVTPILSARYDANQGSGKINVNGYD 1491
>PF06580#Sensor histidine kinase Length = 349 Score = 29.1 bits (65), Expect = 0.039 Identities = 23/156 (14%), Positives = 46/156 (29%), Gaps = 36/156 (23%) Query: 258 RDLDTMEDLVMTLLSYARLDEANIQPDWQSIELNAWLLEKYQGQVYPDFSVELVPYPTAL 317 D +++ +L R S+ +++ Y + + + L Sbjct: 188 EDPTKAREMLTSLSELMRYSLRYSNARQVSLADELTVVDSY-------LQLASIQFEDRL 240 Query: 318 K--IKTDPKYLSMQVNNLL-----NNALRFG------KAKIRLTLAVEEGATWLHVDDDG 364 + + +P + +QV +L N ++ G KI L + G L V++ G Sbjct: 241 QFENQINPAIMDVQVPPMLVQTLVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTG 300 Query: 365 PGIDELESAQVIKPFVRGQHSRGNSGHGMGLAIVDR 400 + G GL V Sbjct: 301 SLALK----------------NTKESTGTGLQNVRE 320
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 75.6 bits (186), Expect = 6e-18 Identities = 37/126 (29%), Positives = 56/126 (44%), Gaps = 1/126 (0%) Query: 6 HILVVEDDISLAEWISDYLLDHGYEVTVASQGDFALEMIAEEIPDLVLLDVMLPVKNGFD 65 ILV +DD ++ ++ L GY+V + S IA DLV+ DV++P +N FD Sbjct: 5 TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64 Query: 66 VCKEARAFYAG-PILFMTACVEDGDEIRGLDVGADDYLTKPIRPQVLLARIKALLRRVGD 124 + + P+L M+A I+ + GA DYL KP L+ I L Sbjct: 65 LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKR 124 Query: 125 EEQKQQ 130 K + Sbjct: 125 RPSKLE 130
>PF06580#Sensor histidine kinase Length = 349 Score = 42.2 bits (99), Expect = 4e-06 Identities = 27/147 (18%), Positives = 55/147 (37%), Gaps = 17/147 (11%) Query: 410 INEGVSTAYVQLRELLSTFRLTIK-EPDLKSALEAMLEQLRAKTNI-------KITLDYK 461 I E + A L L R +++ + +L L + + + ++ + + Sbjct: 186 ILEDPTKAREMLTSLSELMRYSLRYSNARQVSLADELTVVDSYLQLASIQFEDRLQFENQ 245 Query: 462 LAPQWLEAKQHIHILQITREATLNAIKHA-----EASLINIHCYKDDKGMVNIDVCDNGI 516 + P ++ + ++Q E N IKH + I + KD+ G V ++V + G Sbjct: 246 INPAIMDVQVPPMLVQTLVE---NGIKHGIAQLPQGGKILLKGTKDN-GTVTLEVENTGS 301 Query: 517 GIGHLKERDQHFGIGIMHERASKLSGK 543 + G+ + ER L G Sbjct: 302 LALKNTKESTGTGLQNVRERLQMLYGT 328
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 61.4 bits (149), Expect = 2e-13 Identities = 27/159 (16%), Positives = 61/159 (38%), Gaps = 9/159 (5%) Query: 6 SVLVVDDHPLLRKGICQLIASDPDFSLFGEAGGGLDALTAVATDEPDIILLDLNMKGMTG 65 ++LV DD +R + Q S + + +A + D+++ D+ M Sbjct: 5 TILVADDDAAIRTVLNQ-ALSRAGYDVRI-TSNAATLWRWIAAGDGDLVVTDVVMPDENA 62 Query: 66 LDTLNAMRQEGVTSRIVILTVSDAKQDVIRLLRAGADGYLLKDTEPDLLLEKLKNAMLGH 125 D L +++ +++++ + I+ GA YL K + L+ + A+ Sbjct: 63 FDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRAL--- 119 Query: 126 RVISDEVEEYLYELKDATDEQEWISSLTPRELQILEQLA 164 E + +L+D + + + + +I LA Sbjct: 120 ----AEPKRRPSKLEDDSQDGMPLVGRSAAMQEIYRVLA 154
>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase signature. Length = 261 Score = 29.2 bits (65), Expect = 0.026 Identities = 24/86 (27%), Positives = 42/86 (48%), Gaps = 5/86 (5%) Query: 10 GTSVADYNAMNRCADIVLANPHCRLVVVSASSGVTNLLVELTQESINDDGRLQRLK-QIA 68 +S A +C + LA + R +VS S T++ L + ++G Q +K + Sbjct: 158 ASSKAAAVMFTKCLGLELAEYNIRCNIVSPGSTETDMQWSLWAD---ENGAEQVIKGSLE 214 Query: 69 QIQYAI-LDKLGRPNDVAAALDKLLS 93 + I L KL +P+D+A A+ L+S Sbjct: 215 TFKTGIPLKKLAKPSDIADAVLFLVS 240
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 83.3 bits (206), Expect = 1e-20 Identities = 31/131 (23%), Positives = 61/131 (46%), Gaps = 1/131 (0%) Query: 1 MQNPHILIVEDEAVTRNTLRSIFEAEGYVVTEANDGAEMHKAMQENKINLVVMDINLPGK 60 M IL+ +D+A R L GY V ++ A + + + +LVV D+ +P + Sbjct: 1 MTGATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDE 60 Query: 61 NGLLLARELREIN-NIGLIFLTGRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLT 119 N L +++ ++ ++ ++ ++ + I E GA DY+ KPF+ EL L Sbjct: 61 NAFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALA 120 Query: 120 RVNSAGAEVEE 130 +++E+ Sbjct: 121 EPKRRPSKLED 131