>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 35.2 bits (81), Expect = 4e-04 Identities = 9/51 (17%), Positives = 25/51 (49%), Gaps = 4/51 (7%) Query: 125 TVYEIAKKVAQSDTPPYNPVLFYGGTGLGKTHILNAIGNHAIQKHKKVVLV 175 +Y + ++ Q+D ++ G +G GK + A+ ++ +++ V + Sbjct: 148 EIYRVLARLMQTDLT----LMITGESGTGKELVARALHDYGKRRNGPFVAI 194
>FbpA_PF05833#Fibronectin-binding protein Length = 577 Score = 24.1 bits (52), Expect = 0.044 Identities = 5/42 (11%), Positives = 17/42 (40%), Gaps = 1/42 (2%) Query: 17 KINNENIQQSNADIY-TITAKVVLLENRLKKLQKEVAKLKQA 57 K ++ ++ ++D+ + + + K L + K + Sbjct: 291 KDKSDRLKSKSSDLQKIVMNNINRCTKKDKILNNTLKKCEDK 332
>TCRTETB#Tetracycline resistance protein TetB signature. Length = 458 Score = 25.2 bits (55), Expect = 0.032 Identities = 9/42 (21%), Positives = 18/42 (42%) Query: 25 ILGVMEELCDTLNDSLNFKKVVCMGIKVSIAFKFLIFCSQSF 66 + + L+D L K+++ GI ++ + F SF Sbjct: 61 TFSIGTAVYGKLSDQLGIKRLLLFGIIINCFGSVIGFVGHSF 102
>LPSBIOSNTHSS#Lipopolysaccharide core biosynthesis protein signature. Length = 166 Score = 223 bits (569), Expect = 5e-78 Identities = 65/148 (43%), Positives = 95/148 (64%) Query: 4 IGIYPGTFDPVTNGHIDIIHRSSELFEKLIVAVAHSSAKNPMFSLKERLEMIQLATKNFK 63 IYPG+FDP+T GH+DII R LF+++ VAV + K PMFS++ERLE I A + Sbjct: 2 NAIYPGSFDPITFGHLDIIERGCRLFDQVYVAVLRNPNKQPMFSVQERLEQIAKAIAHLP 61 Query: 64 NVECVAFEGLLANLAKEYHCKVLVRGLRVVSDFEYELQMGYANKSLNHELETLYFMPTLQ 123 N + +FEGL N A++ ++RGLRV+SDFE ELQM NK+L +LET++ + + Sbjct: 62 NAQVDSFEGLTVNYARQRQAGAILRGLRVLSDFELELQMANTNKTLASDLETVFLTTSTE 121 Query: 124 NAFISSSIVRSIIAHKGDASHLVPKEIH 151 +F+SSS+V+ + G+ H VP + Sbjct: 122 YSFLSSSLVKEVARFGGNVEHFVPSHVA 149
>ANTHRAXTOXNA#Anthrax toxin LF subunit signature. Length = 800 Score = 30.9 bits (69), Expect = 0.035 Identities = 36/173 (20%), Positives = 71/173 (41%), Gaps = 19/173 (10%) Query: 121 QEESQLKERILKRKNEKIILNVNFIGEEVLGEEEANARFEKY---SQALKSNYIQYISIK 177 Q+ S+ ++ + + EK+ F+ E+ + + Y S+ K Y + Sbjct: 118 QDLSEEEKNSMNSRGEKVPFASRFVFEKKRETPKLIINIKDYAINSEQSKEVYYEIGKGI 177 Query: 178 ITTIFSQINILDFEY-----SKKEIVKRLDALYALALEEEKKQGMPKFINLDMEEFRDLE 232 I S+ LD E+ S + D L++ +E K + K I+++ ++ Sbjct: 178 SLDIISKDKSLDPEFLNLIKSLSDDSDSSDLLFSQKFKE-KLELNNKSIDINF-----IK 231 Query: 233 LTVESFMESIAK-----FDLNAGIVLQAYIPDSYEYLKKLHAFSKERVLKGLK 280 + F + + F + VL+ Y PD +EY+ KL E++ + LK Sbjct: 232 ENLTEFQHAFSLAFSYYFAPDHRTVLELYAPDMFEYMNKLEKGGFEKISESLK 284
>GPOSANCHOR#Gram-positive coccus surface protein anchor signature. Length = 539 Score = 46.6 bits (110), Expect = 7e-08 Identities = 46/266 (17%), Positives = 86/266 (32%) Query: 13 QVREELEARISELEDENENLTDENTELKTEKTELLREKNNLTNENTRLLASKERLTTEKT 72 +L L+D N+ LT+E + K + + + + ++ L A K L Sbjct: 71 LKNSDLSFNNKALKDHNDELTEELSNAKEKLRKNDKSLSEKASKIQELEARKADLEKALE 130 Query: 73 ELTKEKTELTKEKTELTEKNQNLAKANTELTKEKIDLTEKNQNLIKENTELKIEKENLND 132 T + + L + LA +L K + + L+ EK L Sbjct: 131 GAMNFSTADSAKIKTLEAEKAALAARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEA 190 Query: 133 QLNASQKQIKSLEQSQQILENEKADLTKEKAELTDKNKTLTTEKDNLTKANADLKKENDK 192 + +K ++ + L EKA L + L + + + Sbjct: 191 RQAELEKALEGAMNFSTADSAKIKTLEAEKAALAARKADLEKALEGAMNFSTADSAKIKT 250 Query: 193 LNHQVIALTKERDSLEYERVQLQDEHGFLEELCANLEKDNQHLNDKLKKLESAQKNLENS 252 L + AL + LE + LE + L + LE + L + Sbjct: 251 LEAEKAALEARQAELEKALEGAMNFSTADSAKIKTLEAEKAALEAEKADLEHQSQVLNAN 310 Query: 253 NNQLLQAKEKIAEEKIEMEREVARLK 278 L + + E K ++E E +L+ Sbjct: 311 RQSLRRDLDASREAKKQLEAEHQKLE 336 Score = 44.7 bits (105), Expect = 3e-07 Identities = 49/258 (18%), Positives = 88/258 (34%) Query: 21 RISELEDENENLTDENTELKTEKTELLREKNNLTNENTRLLASKERLTTEKTELTKEKTE 80 R + E EN L +N++L L + LT E + + +E + E Sbjct: 58 RADKFEIENNTLKLKNSDLSFNNKALKDHNDELTEELSNAKEKLRKNDKSLSEKASKIQE 117 Query: 81 LTKEKTELTEKNQNLAKANTELTKEKIDLTEKNQNLIKENTELKIEKENLNDQLNASQKQ 140 L K +L + + +T + + L + L +L+ E + A + Sbjct: 118 LEARKADLEKALEGAMNFSTADSAKIKTLEAEKAALAARKADLEKALEGAMNFSTADSAK 177 Query: 141 IKSLEQSQQILENEKADLTKEKAELTDKNKTLTTEKDNLTKANADLKKENDKLNHQVIAL 200 IK+LE + LE +A+L K + + + + L A L L + Sbjct: 178 IKTLEAEKAALEARQAELEKALEGAMNFSTADSAKIKTLEAEKAALAARKADLEKALEGA 237 Query: 201 TKERDSLEYERVQLQDEHGFLEELCANLEKDNQHLNDKLKKLESAQKNLENSNNQLLQAK 260 + + L+ E LE A LEK + + + K LE L K Sbjct: 238 MNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMNFSTADSAKIKTLEAEKAALEAEK 297 Query: 261 EKIAEEKIEMEREVARLK 278 + + + L+ Sbjct: 298 ADLEHQSQVLNANRQSLR 315 Score = 35.4 bits (81), Expect = 3e-04 Identities = 61/304 (20%), Positives = 114/304 (37%) Query: 15 REELEARISELEDENENLTDENTELKTEKTELLREKNNLTNENTRLLASKERLTTEKTEL 74 + +LE + + + + + L+ EK L + L + + + L Sbjct: 157 KADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMNFSTADSAKIKTL 216 Query: 75 TKEKTELTKEKTELTEKNQNLAKANTELTKEKIDLTEKNQNLIKENTELKIEKENLNDQL 134 EK L K +L + + +T + + L + L EL+ E + Sbjct: 217 EAEKAALAARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMNFS 276 Query: 135 NASQKQIKSLEQSQQILENEKADLTKEKAELTDKNKTLTTEKDNLTKANADLKKENDKLN 194 A +IK+LE + LE EKADL + L ++L + D +A L+ E+ KL Sbjct: 277 TADSAKIKTLEAEKAALEAEKADLEHQSQVLNANRQSLRRDLDASREAKKQLEAEHQKLE 336 Query: 195 HQVIALTKERDSLEYERVQLQDEHGFLEELCANLEKDNQHLNDKLKKLESAQKNLENSNN 254 Q R SL + ++ LE LE+ N+ + L + Sbjct: 337 EQNKISEASRQSLRRDLDASREAKKQLEAEHQKLEEQNKISEASRQSLRRDLDASREAKK 396 Query: 255 QLLQAKEKIAEEKIEMEREVARLKSLESTDKSELDLQNRRFKSAIEDLKRQNRKLEEENM 314 Q+ +A E+ + +E+ L+ + + E + ++ + LK + K EE Sbjct: 397 QVEKALEEANSKLAALEKLNKELEESKKLTEKEKAELQAKLEAEAKALKEKLAKQAEELA 456 Query: 315 ALKE 318 L+ Sbjct: 457 KLRA 460
>PHPHTRNFRASE#Phosphoenolpyruvate-protein phosphotransferase signature. Length = 572 Score = 26.3 bits (58), Expect = 0.024 Identities = 7/44 (15%), Positives = 20/44 (45%) Query: 38 KALSTERDELIASHTDKSELDLQNRRFKSAIEDLKCQNRKLEEE 81 KA + T +++ + + +A+E K + R ++++ Sbjct: 18 KAFIHLEPNVDIEKTSITDVSTEIEKLTAALEKSKEELRAIKDQ 61
>BACINVASINB#Salmonella/Shigella invasin protein B signature. Length = 593 Score = 31.6 bits (71), Expect = 0.011 Identities = 29/106 (27%), Positives = 52/106 (49%), Gaps = 2/106 (1%) Query: 50 KIERRLQEAKRELRKAKQNKDNLGWVTSGLQFVTGAVSFVYPPARAAGALAVAAIGLASK 109 ++E++ E + E RKA++ +G + L + VS V +LA+AA+GLA Sbjct: 292 EMEKKSAEFQEETRKAEETNRIMGCIGKVLGALLTIVSVVAAVFTGGASLALAAVGLAV- 350 Query: 110 FIEEDTKKYEKNVKLLEQALE-IYSTQAKASKELVEEALERVKKAL 154 + ++ K V ++QAL I K EL+ +A+ + + L Sbjct: 351 MVADEIVKAATGVSFIQQALNPIMEHVLKPLMELIGKAITKALEGL 396
>TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family signature. Length = 639 Score = 196 bits (501), Expect = 4e-57 Identities = 115/461 (24%), Positives = 190/461 (41%), Gaps = 67/461 (14%) Query: 3 NIRNIAVIAHVDHGKTTLVDGLLSQSGTFSEREKVDE--RVMDSNDLERERGITILSKNT 60 I NI V+AHVD GKTTL + LL SG +E VD+ D+ LER+RGITI + T Sbjct: 2 KIINIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGIT 61 Query: 61 AIYYKDTKINIIDTPGHADFGGEVERVLKMVDGVLLLVDAQEGVMPQTKFVVKKALSFGI 120 + +++TK+NIIDTPGH DF EV R L ++DG +LL+ A++GV QT+ + GI Sbjct: 62 SFQWENTKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALRKMGI 121 Query: 121 CPIVVVNKIDKPAAEPDRVVDEVFDLF---------VAMGASDKQLDFPV-----VYAAA 166 I +NKID+ + V ++ + V + + +F Sbjct: 122 PTIFFINKIDQNGIDLSTVYQDIKEKLSAEIVIKQKVELYPNMCVTNFTESEQWDTVIEG 181 Query: 167 RDGYAMKSLDDE----------------------------KKNL--EPLFETILEHVPSP 196 D K + + K N+ + L E I S Sbjct: 182 NDDLLEKYMSGKSLEALELEQEESIRFHNCSLFPVYHGSAKNNIGIDNLIEVITNKFYSS 241 Query: 197 SGSVDEPLQMQIFTLDYDNYVGKIGIARVFNGSVKKNESVLLMKSDGSKENGRITKLIGF 256 + L ++F ++Y ++ R+++G + +SV + KE +IT++ Sbjct: 242 THRGQSELCGKVFKIEYSEKRQRLAYIRLYSGVLHLRDSVRI----SEKEKIKITEMYTS 297 Query: 257 LGLARTEIENAYAGDIVAIAG--FNAMDV-GDSVVDPANPMPLDPMHLEEPTMSVYFAVN 313 + +I+ AY+G+IV + V GD+ + P +P P + + Sbjct: 298 INGELCKIDKAYSGEIVILQNEFLKLNSVLGDTKLLPQRERIENP----LPLLQTTVEPS 353 Query: 314 DSPLAGLEGKHVTANKLKDRLLKEMQTNIAMKCEEMGEGKFKVSGRGELQITILAENLRR 373 + + D LL+ + + +S G++Q+ + L+ Sbjct: 354 KPQQREMLLDALLEISDSDPLLRYYVDSAT--------HEIILSFLGKVQMEVTCALLQE 405 Query: 374 E-GFEFSISRPEVIIKEENGVKCEPFEHLVIDTPQDFSGAI 413 + E I P VI E K E H+ + P F +I Sbjct: 406 KYHVEIEIKEPTVIYMERPLKKAEYTIHIEVP-PNPFWASI 445 Score = 41.8 bits (98), Expect = 8e-06 Identities = 20/80 (25%), Positives = 30/80 (37%), Gaps = 1/80 (1%) Query: 396 EPFEHLVIDTPQDFSGAIIERLGKRKAEMKAMNPMSDGYTRLEFEIPARGLIGYRSEFLT 455 EP+ I PQ++ K A + + + L EIPAR + YRS+ Sbjct: 537 EPYLSFKIYAPQEYLSRAYTDAPKYCANIVDTQ-LKNNEVILSGEIPARCIQEYRSDLTF 595 Query: 456 DTKGEGVMNHSFLEFRPFSG 475 T G V + +G Sbjct: 596 FTNGRSVCLTELKGYHVTTG 615
>SACTRNSFRASE#Streptothricin acetyltransferase signature. Length = 173 Score = 31.5 bits (71), Expect = 0.001 Identities = 17/90 (18%), Positives = 30/90 (33%) Query: 43 VQKLRERGGEFWGMRDNEKLIGICGLNLINKTEAELCKFHINSAYQSQGLGQKLYESVER 102 V + E G + IG + A + + Y+ +G+G L Sbjct: 57 VSYVEEEGKAAFLYYLENNCIGRIKIRSNWNGYALIEDIAVAKDYRKKGVGTALLHKAIE 116 Query: 103 YSFIKGYTKISLHVSKSQIKACNLYQKLGF 132 ++ + + L I AC+ Y K F Sbjct: 117 WAKENHFCGLMLETQDINISACHFYAKHHF 146
>BONTOXILYSIN#Bontoxilysin signature. Length = 1196 Score = 29.1 bits (65), Expect = 0.034 Identities = 30/194 (15%), Positives = 69/194 (35%), Gaps = 15/194 (7%) Query: 133 RFFMRFKKMT-PLNAQKTEQVLEQIAQFGMPNYFGPQRFGKFNDNHQEGLKI----LQNQ 187 ++F + AQ E +++QI Q + +E + L N+ Sbjct: 679 QYFELICMAKQSILAQ--ESLVKQIVQNKFTDLSKASIPPDTLKLIRETTEKTFIDLSNE 736 Query: 188 TKFAHQKLNAFLISSYQSYLFNALLSKRL-EISKIISAFSVKENLEFFKQKNLNINPNTL 246 ++ + +++ FL + + K + + K I+ ++ F Q+ NIN N Sbjct: 737 SQISMNRVDNFLNKASICVFVEDIYPKFISYMEKYIN--NINIKTREFIQRCTNINDNEK 794 Query: 247 KALKNQAHPFKILEGDVMCHYPYGKFFDALELEKESERFLKKEVVPTGLLDGKKA----L 302 L N + FK ++ + FF++ + E +++ + Sbjct: 795 SILINS-YTFKTIDFKFLDIQSIKNFFNSQVEQVMKEILSPYQLLLFASKGPNSNIIEDI 853 Query: 303 YAKNLSLEIEKEFQ 316 KN ++ + + Sbjct: 854 SGKNTLIQYTESIE 867
>TCRTETA#Tetracycline resistance protein signature. Length = 399 Score = 45.6 bits (108), Expect = 2e-07 Identities = 54/271 (19%), Positives = 102/271 (37%), Gaps = 16/271 (5%) Query: 28 LILSGSLTPHQSFQLGIAVLMGYIFGSFLIQFLNPLMSLESIAKISFGLIALSFLICYFD 87 L+ S +T H L + LM + L L+ + +S A+ + I Sbjct: 35 LVHSNDVTAHYGILLALYALMQFACAPVLGA-LSDRFGRRPVLLVSLAGAAVDYAI--MA 91 Query: 88 SIPFFW-LWIWRFIAGVASSALMILVAPLSLPYVKENKRALVGGFIFSAVGVGSVFSGFV 146 + PF W L+I R +AG+ + A + ++RA GF+ + G G V + Sbjct: 92 TAPFLWVLYIGRIVAGI-TGATGAVAGAYIADITDGDERARHFGFMSACFGFGMVAGPVL 150 Query: 147 LPWISSYNIKWAWIFLGGSCLIAFILSLIGLKN-HSLRKKSVKKEESAFKIPFHL----- 200 + ++ + + F+ L H ++ +++E F Sbjct: 151 GGLMGGFSPHAPFFAAAALNGLNFLTGCFLLPESHKGERRPLRREALNPLASFRWARGMT 210 Query: 201 ---WLLLISCALNAIGFLPHTLFWVDYLVRHLNISPAIAGTSWAVFG-FGATLGSLISGP 256 L+ + + +G +P L WV + + G S A FG + ++I+GP Sbjct: 211 VVAALMAVFFIMQLVGQVPAAL-WVIFGEDRFHWDATTIGISLAAFGILHSLAQAMITGP 269 Query: 257 MAQKLGAKNANIFILILKSIACFLPIFFHQI 287 +A +LG + A + +I L F + Sbjct: 270 VAARLGERRALMLGMIADGTGYILLAFATRG 300
>PF05272#Virulence-associated E family protein Length = 892 Score = 29.3 bits (65), Expect = 0.011 Identities = 9/18 (50%), Positives = 11/18 (61%) Query: 8 LILSGPSGAGKSTLTKYL 25 ++L G G GKSTL L Sbjct: 599 VVLEGTGGIGKSTLINTL 616
>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature. Length = 1541 Score = 68.2 bits (166), Expect = 4e-14 Identities = 50/246 (20%), Positives = 91/246 (36%), Gaps = 23/246 (9%) Query: 117 QPSESDPNPTDPLEPAQETLETNWDELENLGDLETLAQEEPNNEEQLLPTLNDQEEKEEA 176 + + D P P PA + T + + +T+ + E + E T ++E +EA Sbjct: 1016 EIARVDEAPVPPPAPATPSETTETVAENSKQESKTVEKNEQDATE---TTAQNREVAKEA 1072 Query: 177 KEEIKETPQEEEKPKEEMQEQAKEQEPIKEETQEEIKEETQEEIKEETQEEIKEETQEEL 236 K +K Q E + ET+E ET+E E +E+ K ET++ Sbjct: 1073 KSNVKANTQTNEVAQ------------SGSETKETQTTETKETATVEKEEKAKVETEKTQ 1120 Query: 237 EIPKEETQEQAKEQELEAMQELVKEIQENSNNQADKEKTQENAKAFQETQAQELEKQELE 296 E+PK +Q K+++ E +Q + +EN KE + Q + +E Sbjct: 1121 EVPKVTSQVSPKQEQSETVQPQAEPARENDPTVNIKEPQSQTNTTADTEQPAKETSSNVE 1180 Query: 297 IPQESTETPQEKEKQALEIPQEEKQENAETPQESTEIPQEKTQKLETQEDHYESIEDIPE 356 + T +E P+ + P ++E + + H S+ +P Sbjct: 1181 -QPVTESTTVNTGNSVVENPENTTPATTQ-PTVNSESSNKPKNR------HRRSVRSVPH 1232 Query: 357 PVMAQA 362 V Sbjct: 1233 NVEPAT 1238 Score = 58.5 bits (141), Expect = 3e-11 Identities = 54/277 (19%), Positives = 99/277 (35%), Gaps = 21/277 (7%) Query: 142 ELENLGDLETLAQEEPNNEEQLLPTLNDQEEKEEAK-EEIKETPQEEEKPKEEMQ---EQ 197 E+E N Q +E A+ +E P P E + E Sbjct: 984 EVEKRNQTVDTTNITTPNNIQADVPSVPSNNEEIARVDEAPVPPPAPATPSETTETVAEN 1043 Query: 198 AKEQEPIKEETQEEIKEET--QEEIKEETQEEIKEETQEELEIPKEETQEQAKEQELEAM 255 +K++ E+ +++ E T E+ +E + +K TQ E+ + E + Q E Sbjct: 1044 SKQESKTVEKNEQDATETTAQNREVAKEAKSNVKANTQT-NEVAQSG-SETKETQTTETK 1101 Query: 256 QELVKEIQENSNNQADKEKTQENAKAFQETQAQELEKQELEIPQESTETPQEKEKQALEI 315 + E +E + + + EKTQE K + ++ E+ E PQ + E Sbjct: 1102 ETATVEKEEKA--KVETEKTQEVPKVTSQVSPKQ-EQSETVQPQAEPARENDPTVNIKE- 1157 Query: 316 PQEEKQENAETPQESTEIPQEKT----QKLETQEDHYESIEDIPEPVMAQAMGEALPFLN 371 PQ + A+T Q P ++T ++ T+ + + E P +N Sbjct: 1158 PQSQTNTTADTEQ-----PAKETSSNVEQPVTESTTVNTGNSVVENPENTTPATTQPTVN 1212 Query: 372 ESVAKTPNNENDTEIPKESVIKTPQEKEGNDKTSSPL 408 + P N + + P ND+++ L Sbjct: 1213 SESSNKPKNRHRRSVRSVPHNVEPATTSSNDRSTVAL 1249 Score = 51.6 bits (123), Expect = 5e-09 Identities = 34/191 (17%), Positives = 61/191 (31%), Gaps = 10/191 (5%) Query: 149 LETLAQEEPNNEEQLLPTLNDQEEKEEAKEEIKETPQ--EEEKPKEEMQEQAKE-----Q 201 + N + + E KE E KET +EEK K E ++ + Q Sbjct: 1069 AKEAKSNVKANTQTNEVAQSGSETKETQTTETKETATVEKEEKAKVETEKTQEVPKVTSQ 1128 Query: 202 EPIKEETQEEIKEETQEEIKEETQEEIKEETQEELEIPKEETQEQAKEQELEAMQELVKE 261 K+E E ++ + + + + IKE + +T++ AKE Q + + Sbjct: 1129 VSPKQEQSETVQPQAEPARENDPTVNIKEPQSQTNTTA--DTEQPAKETSSNVEQPVTES 1186 Query: 262 IQENSNNQADKEKTQENAKAFQETQAQELEKQELEIPQESTET-PQEKEKQALEIPQEEK 320 N+ N + Q T E + + S + P E Sbjct: 1187 TTVNTGNSVVENPENTTPATTQPTVNSESSNKPKNRHRRSVRSVPHNVEPATTSSNDRST 1246 Query: 321 QENAETPQEST 331 + +T Sbjct: 1247 VALCDLTSTNT 1257 Score = 34.7 bits (79), Expect = 9e-04 Identities = 41/271 (15%), Positives = 83/271 (30%), Gaps = 25/271 (9%) Query: 67 KEIVSQNKNSVCMYKKGNE-AQPFLEGFEMKIKKPFLPTEMLKVLQKKLGFQPSESDPNP 125 +E+ + K++V + NE AQ E E + + + K + K+ + ++ P Sbjct: 1066 REVAKEAKSNVKANTQTNEVAQSGSETKETQTTETKETATVEKEEKAKVETEKTQEVPKV 1125 Query: 126 TDPLEPAQETLETNWDELENLGDLETLAQEEPNNEEQLLPTLN-----DQEEKEEAKEEI 180 T + P QE ET Q EP E PT+N Q E+ Sbjct: 1126 TSQVSPKQEQSET------------VQPQAEPAREND--PTVNIKEPQSQTNTTADTEQP 1171 Query: 181 KETPQEEEKPKEEMQEQAKEQEPIKEETQEEIKEETQEEIKEETQEEIKEETQEELEIPK 240 + + + E + TQ + E+ + K + + Sbjct: 1172 AKETSSNVEQPVTESTTVNTGNSVVENPENTTPATTQPTVNSESSNKPKNRHRRSVRSVP 1231 Query: 241 EETQEQAKEQELEAMQELVKEIQENSNNQAD--KEKTQENAKAFQETQAQELEKQELEIP 298 + + L N+N + K Q A + +Q + + E+ Sbjct: 1232 HNVEPATTSSNDRSTVALCDLTSTNTNAVLSDARAKAQFVALNVGKAVSQHISQLEMNNE 1291 Query: 299 QES---TETPQEKEKQALEIPQEEKQENAET 326 + + + + ++ +T Sbjct: 1292 GQYNVWVSNTSMNKNYSSSQYRRFSSKSTQT 1322
>FLGLRINGFLGH#Flagellar L-ring protein signature. Length = 232 Score = 193 bits (492), Expect = 3e-64 Identities = 52/172 (30%), Positives = 84/172 (48%), Gaps = 18/172 (10%) Query: 56 GERPLFADRRAMKPNDLITIIVSEKASANYSSS----KDYKSASGGNSTPPRLTYNGLDE 111 G +PLF DRR D +TI++ E SA+ SSS +D K+ G ++ P L GL Sbjct: 61 GYQPLFEDRRPRNIGDTLTIVLQENVSASKSSSANASRDGKTNFGFDTVPRYL--QGLFG 118 Query: 112 RKKQEAEYLDDKNNYNFTKSSNNTNFKGGGSQKKSEDLEIVLSARIIKVLENGNYFIYGN 171 + + E S F G G S L+ + +VL NGN + G Sbjct: 119 NARADVEA------------SGGNTFNGKGGANASNTFSGTLTVTVDQVLVNGNLHVVGE 166 Query: 172 KEVLVDGEKQILKVSGVIRPYDIERNNTIQSKFLADAKIEYTNLGHLSDSNK 223 K++ ++ + ++ SGV+ P I +NT+ S +ADA+IEY G+++++ Sbjct: 167 KQIAINQGTEFIRFSGVVNPRTISGSNTVPSTQVADARIEYVGNGYINEAQN 218
>SACTRNSFRASE#Streptothricin acetyltransferase signature. Length = 173 Score = 27.6 bits (61), Expect = 0.022 Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 3/49 (6%) Query: 102 RGETILKALEYIAFE---EFQLNSLHLEVMENNFKAIAFYEKNHYELEG 147 R + + AL + A E E L LE + N A FY K+H+ + Sbjct: 102 RKKGVGTALLHKAIEWAKENHFCGLMLETQDINISACHFYAKHHFIIGA 150
>OMPADOMAIN#OMPA domain signature. Length = 346 Score = 55.7 bits (134), Expect = 3e-11 Identities = 31/121 (25%), Positives = 56/121 (46%), Gaps = 15/121 (12%) Query: 120 LPSNLLFENATSDTINQDMMLYLERIA-KIIQKLPKRVHINVRGFTDDTPLIKTRFKSHY 178 L S++LF T+ + L+++ ++ PK + V G+TD I + + Sbjct: 217 LKSDVLFNFN-KATLKPEGQAALDQLYSQLSNLDPKDGSVVVLGYTDR---IGSD-AYNQ 271 Query: 179 ELAANRAYRVMKVLIQYGVNPNQLSFSSYGSTNPIAPN--DSLENRM-------KNNRVE 229 L+ RA V+ LI G+ +++S G +NP+ N D+++ R + RVE Sbjct: 272 GLSERRAQSVVDYLISKGIPADKISARGMGESNPVTGNTCDNVKQRAALIDCLAPDRRVE 331 Query: 230 I 230 I Sbjct: 332 I 332
>GPOSANCHOR#Gram-positive coccus surface protein anchor signature. Length = 539 Score = 32.3 bits (73), Expect = 0.003 Identities = 23/138 (16%), Positives = 44/138 (31%) Query: 27 GATKKELKQLQVNSKNFSNVLTKIHSQVEANTQAQEGLRSVYEGQANKIKDLNNAILSQV 86 K + ++ +A EG + + KIK L + Sbjct: 200 EGAMNFSTADSAKIKTLEAEKAALAARKADLEKALEGAMNFSTADSAKIKTLEAEKAALE 259 Query: 87 ESLRALKASQEVQANTLKQQSQTLDDLRNEIRANQQAIQQLDQQNKQMSELLTKLSQDLV 146 L+ + E N S + L E A + L+ Q++ ++ L +DL Sbjct: 260 ARQAELEKALEGAMNFSTADSAKIKTLEAEKAALEAEKADLEHQSQVLNANRQSLRRDLD 319 Query: 147 SQIALIQKALKEQQEKTE 164 + ++ E Q+ E Sbjct: 320 ASREAKKQLEAEHQKLEE 337
>OMPADOMAIN#OMPA domain signature. Length = 346 Score = 138 bits (350), Expect = 2e-42 Identities = 45/172 (26%), Positives = 69/172 (40%), Gaps = 28/172 (16%) Query: 24 DNNTVAGDVGTGAKAVQNAPVTTEPVLEKQEPKEEPKQEPAPAVEEKPAIESGTIIASIY 83 DN ++ V + APV P PAP V+ K T+ + + Sbjct: 179 DNGMLSLGVSYRFGQGEAAPVV------------APAPAPAPEVQTK----HFTLKSDVL 222 Query: 84 FDFDKYEIKESDQETLDAIVQKAKE---HHMQVLLEGNTDEFGSSEYNQALGVKRTLSVK 140 F+F+K +K Q LD + + V++ G TD GS YNQ L +R SV Sbjct: 223 FNFNKATLKPEGQAALDQLYSQLSNLDPKDGSVVVLGYTDRIGSDAYNQGLSERRAQSVV 282 Query: 141 NALVIKGVEKDMIKTISFGEIKPKCTQKT---------KECYKENRRVDVKL 183 + L+ KG+ D I GE P +C +RRV++++ Sbjct: 283 DYLISKGIPADKISARGMGESNPVTGNTCDNVKQRAALIDCLAPDRRVEIEV 334
>TYPE4SSCAGA#Type IV secretion system CagA exotoxin signature. Length = 1147 Score = 34.7 bits (79), Expect = 4e-04 Identities = 38/139 (27%), Positives = 66/139 (47%), Gaps = 11/139 (7%) Query: 32 EEAEKILLDLSKKDEQVID--LNLEDAPSENKKE-KIEKVTEKQGDFLKP--KEEPKEEE 86 +EA K++ D +++++ LN A ++ K ++V + Q D K K E E+E Sbjct: 568 QEANKLIKDFLSSNKELVGKTLNFNKAVADAKNTGNYDEVKKAQKDLEKSLRKREHLEKE 627 Query: 87 PEESLEDIFSSLNDFKEKTDKNAQKDE-----QKKEQEEQRRLKEQQRLKQ-NQENQEML 140 E+ LE + N + K N+QKDE K+ + R + Q LK +E + L Sbjct: 628 VEKKLESKSGNKNKMEAKAQANSQKDEIFALINKEANRDARAIAYAQNLKGIKRELSDKL 687 Query: 141 KGLQQNLDQFAQKLESVKN 159 + + +NL F + + KN Sbjct: 688 ENVNKNLKDFDKSFDEFKN 706
>PF03944#delta endotoxin Length = 633 Score = 30.4 bits (68), Expect = 0.025 Identities = 26/113 (23%), Positives = 51/113 (45%), Gaps = 1/113 (0%) Query: 129 YTGSSPTPHQSETFDNQPGKSSTTKECGNGVGSLRAEKNNSLSIEQFKQINRAYQILQKV 188 YTG + +P + +NQ ++ +++ GN SLR E+NN+ + + +Y + +V Sbjct: 491 YTGFTISPIHATQVNNQT-RTFISEKFGNQGDSLRFEQNNTTARYTLRGNGNSYNLYLRV 549 Query: 189 LNEAGGVPALNENGTDVTVSVKSTTKSTSGSTTSGGQSGSSGSGNSETISSKN 241 + + NG T + +TT + G +G + GN S+ + Sbjct: 550 SSIGNSTIRVTINGRVYTATNVNTTTNNDGVNDNGARFSDINIGNVVASSNSD 602
>TCRTETA#Tetracycline resistance protein signature. Length = 399 Score = 97.2 bits (242), Expect = 3e-24 Identities = 76/386 (19%), Positives = 145/386 (37%), Gaps = 30/386 (7%) Query: 3 KKIFPLALVSSLRFLGLFIVLPIISLYADSFHSSSPLL--VGLAVGGAYLTQIIFQTPMG 60 + + + +L +G+ +++P++ S+ + G+ + L Q +G Sbjct: 5 RPLIVILSTVALDAVGIGLIMPVLPGLLRDLVHSNDVTAHYGILLALYALMQFACAPVLG 64 Query: 61 ILSDKIGRKVVVMVCLLLFLIGSLVCFIANDIVWLVIGRFIQGM-GALGGVVSAMVADEV 119 LSD+ GR+ V++V L + + A + L IGR + G+ GA G V A +AD Sbjct: 65 ALSDRFGRRPVLLVSLAGAAVDYAIMATAPFLWVLYIGRIVAGITGATGAVAGAYIADIT 124 Query: 120 KEEERTKAMAIMGAFIFISFTISMAIGPGVVAFFGG--AKWLFLLTAILTLLSLLM-LLK 176 +ER + M A F M GP + GG F A L L+ L Sbjct: 125 DGDERARHFGFMSA----CFGFGMVAGPVLGGLMGGFSPHAPFFAAAALNGLNFLTGCFL 180 Query: 177 VKDAPKISYQIKNIKAYQPNSKALYLLYISSFFEKAFMTLIFVL-----IPLAL-----V 226 + ++ K + +A P + + ++ A M + F++ +P AL Sbjct: 181 LPESHKGERRPLRREALNPLASFRWARGMTVV--AALMAVFFIMQLVGQVPAALWVIFGE 238 Query: 227 NEFHKDESFLILVYVPGALLGVLSMGIASVMAEKYNKPKGVMLSGVLLFIVSYLCLFLAD 286 + FH D + + + +L L+ + + + ++ G++ Y+ L A Sbjct: 239 DRFHWDATTIGISLAAFGILHSLAQAMITGPVAARLGERRALMLGMIADGTGYILLAFAT 298 Query: 287 SSFLGKYLWLFIVGVAFFFIGFATLEPIMQSLASKFARANEKGKVLGQFTTFGYLGSFVG 346 W+ + P +Q++ S+ +G++ G L S VG Sbjct: 299 RG------WMAFPIM-VLLASGGIGMPALQAMLSRQVDEERQGQLQGSLAALTSLTSIVG 351 Query: 347 GVSGGLSY-HHLGVSNTSLIVVGLGL 371 + Y + N + G L Sbjct: 352 PLLFTAIYAASITTWNGWAWIAGAAL 377
>TCRTETA#Tetracycline resistance protein signature. Length = 399 Score = 47.5 bits (113), Expect = 5e-08 Identities = 54/292 (18%), Positives = 102/292 (34%), Gaps = 22/292 (7%) Query: 35 ALLSDIAKSFEMESASVGLMITLYAWLVSLGSLPLMLLSAKIERKRLLLFLFALFILSHI 94 LL D+ S +A G+++ LYA + + L LS + R+ +LL A + + Sbjct: 30 GLLRDLVHS-NDVTAHYGILLALYALMQFACAPVLGALSDRFGRRPVLLVSLAGAAVDYA 88 Query: 95 LSALAWNFWVLLISR--AGIALAHSIFWSITASLVIRVAPIGRKQQALGLLALGSSLAMI 152 + A A WVL I R AGI A ++ + + + + + G ++ M+ Sbjct: 89 IMATAPFLWVLYIGRIVAGITGATG---AVAGAYIADITDGDERARHFGFMSACFGFGMV 145 Query: 153 LGLPLGRIIGQMLDWRSTFGVIGGVATLIALLMYKLLP----------HLPSKNAGTLSS 202 G LG ++G + F + L L LLP + N Sbjct: 146 AGPVLGGLMGG-FSPHAPFFAAAALNGLNFLTGCFLLPESHKGERRPLRREALNPLASFR 204 Query: 203 LPVLVKRPLLMGIYLLVIMVISGHFTTYSYIEPFIIQISQFSPEVATLMLFMFGLAG-VA 261 + + ++ ++ I F + + L FG+ +A Sbjct: 205 WARGMTVVAALMAVFFIMQLVGQVPAALWVI--FGEDRFHWDATTIGISLAAFGILHSLA 262 Query: 262 GSFLFGRFYEK-NPKKFITCAIILIICPQLLLFVFKNSEWVVFLQIFLWGIG 312 + + G + ++ + +I +L F W+ F + L G Sbjct: 263 QAMITGPVAARLGERRALMLGMIADGT-GYILLAFATRGWMAFPIMVLLASG 313
>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature. Length = 1541 Score = 28.9 bits (64), Expect = 0.014 Identities = 14/85 (16%), Positives = 26/85 (30%), Gaps = 1/85 (1%) Query: 47 EKTEIERQNSALSPKQANMATTATEENPTKDPPLPLETDTQKQEDKQENKQEQEKENKPK 106 + E+ + S +SPKQ T + P + P + Q ++ + Sbjct: 1118 KTQEVPKVTSQVSPKQEQSETVQPQAEPAR-ENDPTVNIKEPQSQTNTTADTEQPAKETS 1176 Query: 107 QNSASPTQNHQKPLTTPIIGKKPLE 131 N P T + + P Sbjct: 1177 SNVEQPVTESTTVNTGNSVVENPEN 1201
>SECGEXPORT#Protein-export SecG membrane protein signature. Length = 110 Score = 47.6 bits (113), Expect = 1e-09 Identities = 24/84 (28%), Positives = 46/84 (54%), Gaps = 3/84 (3%) Query: 1 MTSALLGLQIVLAVLIVVVVLLQ--KSSSIGLGAYSGSNDSLFGAKGPASFMAKLTMFLG 58 M ALL + +++A+ +V +++LQ K + +G +G++ +LFG+ G +FM ++T L Sbjct: 1 MYEALLVVFLIVAIGLVGLIMLQQGKGADMGASFGAGASATLFGSSGSGNFMTRMTALLA 60 Query: 59 LLFVTNTIALGYFYNKEYGKSILD 82 LF ++ LG N + Sbjct: 61 TLFFIISLVLGNI-NSNKTNKGSE 83
>NUCEPIMERASE#Nucleotide sugar epimerase signature. Length = 334 Score = 48.6 bits (116), Expect = 1e-08 Identities = 51/346 (14%), Positives = 106/346 (30%), Gaps = 54/346 (15%) Query: 5 ILITGAYGMVGQNTALYFKKNKPDV-----------TLLTPKKSELY-----------LL 42 L+TGA G +G + + + V L + EL L Sbjct: 3 YLVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLKQARLELLAQPGFQFHKIDLA 62 Query: 43 DKDNVQAYLKEYKPTGIIHCAGRVGGIVANMNDLSTYMVENLLMGLYLFSSALDLGVKKA 102 D++ + + R + ++ + Y NL L + ++ Sbjct: 63 DREGMTDLFASGHFERVFISPHR-LAVRYSLENPHAYADSNLTGFLNILEGCRHNKIQHL 121 Query: 103 INLASSCAYPKFAPNPLKESDLLNGSLEPTNEGYALAKLSVMKYCEYVSAEKGVFYKTLV 162 + +SS Y P D ++ + YA K + S G+ L Sbjct: 122 LYASSSSVYGLNRKMPFSTDDSVDHPVSL----YAATKKANELMAHTYSHLYGLPATGLR 177 Query: 163 PCNLYGEFDKFEEKIAHMIPGLIARMHTAKLKNEKEFVMWGDGTARREYLNAKDLARFIS 222 +YG + + P + T + K ++ G +R++ D+A I Sbjct: 178 FFTVYGPWGR---------PDMALFKFTKAMLEGKSIDVYNYGKMKRDFTYIDDIAEAII 228 Query: 223 LAYENVASIPS-----------------VMNVGSGVDYSIEEYYKMVAQVLDYKGAFVKD 265 + + + V N+G+ + +Y + + L + Sbjct: 229 RLQDVIPHADTQWTVETGTPAASIAPYRVYNIGNSSPVELMDYIQALEDALGIEAKKNML 288 Query: 266 LSKPVGMQQKLMDISK-QEALKWELEIPLEQGIKEAYEYYLKLLEV 310 +P + + D E + + E ++ G+K +Y +V Sbjct: 289 PLQPGDVLETSADTKALYEVIGFTPETTVKDGVKNFVNWYRDFYKV 334
>NUCEPIMERASE#Nucleotide sugar epimerase signature. Length = 334 Score = 87.9 bits (218), Expect = 2e-21 Identities = 46/180 (25%), Positives = 72/180 (40%), Gaps = 19/180 (10%) Query: 7 LITGVTGQDGSYLAEYLLNLGYEVHGLKRRSSSINTSRIDHLYEDLHSEHKRRFFLHYGD 66 L+TG G G ++++ LL G++V G+ + + S E L F H D Sbjct: 4 LVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLKQARLELLAQP---GFQFHKID 60 Query: 67 MTDSSNLIHLIATTKPTEIYNLAAQSHVKVSFETPEYTANADGIGTLRILEAMRILGLEK 126 + D + L A+ ++ + V+ S E P A+++ G L ILE R ++ Sbjct: 61 LADREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFLNILEGCRHNKIQ- 119 Query: 127 KTRFYQASTSELYGEVLETPQNENTPF-------NPRSPYAVAKMYAFYITKNYREAYNL 179 AS+S +YG N PF +P S YA K + Y Y L Sbjct: 120 --HLLYASSSSVYGL------NRKMPFSTDDSVDHPVSLYAATKKANELMAHTYSHLYGL 171
>TYPE4SSCAGX#Type IV secretion system CagX conjugation protein signature. Length = 522 Score = 30.1 bits (67), Expect = 0.012 Identities = 23/84 (27%), Positives = 41/84 (48%), Gaps = 13/84 (15%) Query: 177 ENTTNNKPLKEEKEETKEKEEETITIGDNTNAMKIVKKDIQKGYRALKSSQRKWYCLWIC 236 E N + ++EEK++ + + + NA+K + + + Y ++ + Sbjct: 360 EQIINKEKIREEKQKIILDQAKALETQYVHNALK--RNPVPRNYNYYQAPE--------- 408 Query: 237 SKKSKLSLMPEEIFNDKQFTYFKF 260 K+SK +MP EIF+D FTYF F Sbjct: 409 -KRSK-HIMPSEIFDDGTFTYFGF 430
>PF04335#VirB8 type IV secretion protein Length = 227 Score = 133 bits (335), Expect = 2e-40 Identities = 37/202 (18%), Positives = 73/202 (36%), Gaps = 4/202 (1%) Query: 40 QSVFRLERNRLKIAYKLLGLMSFIALVLAIVLISVLPLQKTEHHF--VDFLNQDKHYAII 97 + K+A+ + G+ +A + + ++ PL+ E + VD + A Sbjct: 22 RDKLAAAERSKKLAWVVAGVAGALATAGVVAVAALTPLKTVEPYVITVDRNTGEASIAAK 81 Query: 98 QRADKSISSNEALARSLIGAYVLNRESINRIDDKSRYELVRLQSSSKVWQRFEDLIKTQN 157 D +I+ +EA+ + + YV RE + ++ V + S+ R+ KT N Sbjct: 82 LHGDATITYDEAVRKYFLATYVRYREGWIAAAREEYFDAVMVMSARPEQDRWSRFYKTDN 141 Query: 158 SIYAQSHLEREVHI-VNIAIYQQDNNPIASVSIVAKLMNENKLVYEKRYKIVMSYLFDTP 216 Q+ L + V I +A V + + + + + Y D Sbjct: 142 PQSPQNILANRTDVFVEIKRVSFLGGNVAQVYFTKESVTGSNST-KTDAVATIKYKVDGT 200 Query: 217 DFDYASMPKNPTGFKITRYSIT 238 KNP G+++ Y Sbjct: 201 PSKEVDRFKNPLGYQVESYRAD 222
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 41.0 bits (96), Expect = 8e-06 Identities = 24/116 (20%), Positives = 45/116 (38%), Gaps = 20/116 (17%) Query: 134 LEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLD------IPI---AISDATSLTEAG 184 L + + +++ G +G+GK L+A+ L + + I AI L E+ Sbjct: 150 YRVLARLMQTDLTLMITGESGTGKELVARALHDYGKRRNGPFVAINMAAIPR--DLIESE 207 Query: 185 YVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKIS--------RLSENRSITR 232 G + T S ++A+ G +F+DEI + R+ + T Sbjct: 208 LFGH-EKGAFTGAQTRSTGRFEQAEGGTLFLDEIGDMPMDAQTRLLRVLQQGEYTT 262
>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein signature. Length = 347 Score = 474 bits (1221), Expect = e-171 Identities = 179/347 (51%), Positives = 248/347 (71%), Gaps = 2/347 (0%) Query: 2 IFSKLIGLFSHDIAIDLGTANTIVLVKGQGIIINEPSIVAVRMGLFDSKAYDILAVGSEA 61 + K G+FS+D++IDLGTANT++ VKGQGI++NEPS+VA+R S + AVG +A Sbjct: 1 MLKKFRGMFSNDLSIDLGTANTLIYVKGQGIVLNEPSVVAIRQDRAGSPKS-VAAVGHDA 59 Query: 62 KEMLGKTPNSIRAIRPMKDGVIADYDITAKMIRYFIEKAHKRKTW-IRPRIMVCVPYGLT 120 K+MLG+TP +I AIRPMKDGVIAD+ +T KM+++FI++ H PR++VCVP G T Sbjct: 60 KQMLGRTPGNIAAIRPMKDGVIADFFVTEKMLQHFIKQVHSNSFMRPSPRVLVCVPVGAT 119 Query: 121 SVERNAVKESALSAGAREVFLIEEPMAAAIGAGLPVKEPQGSLIVDIGGGTTEIGVISLG 180 VER A++ESA AGAREVFLIEEPMAAAIGAGLPV E GS++VDIGGGTTE+ VISL Sbjct: 120 QVERRAIRESAQGAGAREVFLIEEPMAAAIGAGLPVSEATGSMVVDIGGGTTEVAVISLN 179 Query: 181 GLVISKSIRVAGDKLDQSIVEYIRKKFNLLIGERTGEEIKIEIGCAIKLDPPLTMEVSGR 240 G+V S S+R+ GD+ D++I+ Y+R+ + LIGE T E IK EIG A D +EV GR Sbjct: 180 GVVYSSSVRIGGDRFDEAIINYVRRNYGSLIGEATAERIKHEIGSAYPGDEVREIEVRGR 239 Query: 241 DQVSGLLHTIELSSDDVFEAIKDQVREISSALRSVLEEVKPDLAKDIVQNGVVLTGGGAL 300 + G+ L+S+++ EA+++ + I SA+ LE+ P+LA DI + G+VLTGGGAL Sbjct: 240 NLAEGVPRGFTLNSNEILEALQEPLTGIVSAVMVALEQCPPELASDISERGMVLTGGGAL 299 Query: 301 IKGLDKYLSDMVKLPVYVGDEPLLAVAKGTGEAIQDLDLLSRVGFSE 347 ++ LD+ L + +PV V ++PL VA+G G+A++ +D+ FSE Sbjct: 300 LRNLDRLLMEETGIPVVVAEDPLTCVARGGGKALEMIDMHGGDLFSE 346
>FLGHOOKFLIE#Flagellar hook-basal body complex protein FliE signature. Length = 103 Score = 76.2 bits (187), Expect = 1e-21 Identities = 19/77 (24%), Positives = 40/77 (51%), Gaps = 1/77 (1%) Query: 34 EQKGGEFSKLLKQSINELNNTQEQSDKALADMATGQIK-DLHQAAIAIGKAETSMKLMLE 92 Q F+ L +++ +++TQ + G+ L+ + KA SM++ ++ Sbjct: 27 PQPTISFAGQLHAALDRISDTQTAARTQAEKFTLGEPGVALNDVMTDMQKASVSMQMGIQ 86 Query: 93 VRNKAISAYKELLRTQI 109 VRNK ++AY+E++ Q+ Sbjct: 87 VRNKLVAAYQEVMSMQV 103
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 28.0 bits (62), Expect = 0.016 Identities = 10/38 (26%), Positives = 15/38 (39%) Query: 121 NVNAVIEMADLVEATRAYQANVAAFQSAKNMAQNAIGM 158 VN E +L + Y AN Q+A + I + Sbjct: 508 GVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALINI 545
>BACINVASINC#Salmonella/Shigella invasin protein C signature. Length = 409 Score = 31.8 bits (71), Expect = 0.004 Identities = 33/133 (24%), Positives = 50/133 (37%), Gaps = 13/133 (9%) Query: 219 AFLSAVKVMSKQLGVFGERPIANTEYSGDYAQRDDAKDLSAKIESMNL-SARCFNCLDKI 277 A ++ + QLG+ G A EY G +R K +AKI+ + S N L+ Sbjct: 173 ALSGSISQSALQLGITGVG--AKLEYKGLQNERGALKHNAAKIDKLTTESHSIKNVLNGQ 230 Query: 278 GIKYVGELVLMSEEELKGVK---------NMGKKSYDEIAEKLNDLGY-PVGTELSPEQR 327 +G + S + L K N + LG ++SPE + Sbjct: 231 NSVKLGAEGVDSLKSLNMKKTGTDATKNLNDATLKSNAGTSATESLGIKNSNKQISPEHQ 290 Query: 328 ESLKKRLEKLEDK 340 L KRLE +E Sbjct: 291 AILSKRLESVESD 303
>LIPOLPP20#LPP20 lipoprotein precursor signature. Length = 175 Score = 265 bits (677), Expect = 4e-94 Identities = 154/175 (88%), Positives = 167/175 (95%) Query: 1 MKNQVKKILGMSVIAAMVIVGCSHAPKSGVSKSNTEYKEATKGAPEWVMGDLEKVAKYEK 60 MKNQVKKILGMSV+AAMVIVGCSHAPKSG+SKSN YKEATKGAP+WV+GDLEKVAKYEK Sbjct: 1 MKNQVKKILGMSVVAAMVIVGCSHAPKSGISKSNKAYKEATKGAPDWVVGDLEKVAKYEK 60 Query: 61 YSGVFLGRAEDLITSGDVDYSTSQATTKARANLAANLKSTLQKELQNEKTRTTDSSGKSS 120 YSGVFLGRAEDLIT+ DVDYST+QAT KARANLAANLKSTLQK+L+NEKTRT D+SGK S Sbjct: 61 YSGVFLGRAEDLITNNDVDYSTNQATAKARANLAANLKSTLQKDLENEKTRTVDASGKRS 120 Query: 121 ISGSDSEKISQLVDNELVASKMLARYVGKDRVFVLVGLDKEIVDKVRSELGMVKK 175 ISG+D+EKISQLVD EL+ASKMLARYVGKDRVFVLVGLDK+IVDKVR ELGMVKK Sbjct: 121 ISGTDTEKISQLVDKELIASKMLARYVGKDRVFVLVGLDKQIVDKVREELGMVKK 175
>LIPOLPP20#LPP20 lipoprotein precursor signature. Length = 175 Score = 29.0 bits (64), Expect = 0.004 Identities = 12/34 (35%), Positives = 25/34 (73%) Query: 91 EITASQLKATFIGADKVYVLIEVDKKNIALINKE 124 E+ AS++ A ++G D+V+VL+ +DK+ + + +E Sbjct: 136 ELIASKMLARYVGKDRVFVLVGLDKQIVDKVREE 169
>CABNDNGRPT#NodO calcium binding signature. Length = 479 Score = 30.7 bits (69), Expect = 0.021 Identities = 13/65 (20%), Positives = 21/65 (32%), Gaps = 7/65 (10%) Query: 435 IIHEYGHTLGYTH-------NGNMTYQRVRVCEESGKYELCKGGHVVEKDGKEEQVFSNG 487 HE GH LG H G+ +Y E+S ++ + E + Sbjct: 186 FTHEIGHALGLAHPGEYNAGEGDPSYNDAVYAEDSYQFSIMSYWGENETGADYNGHYGGA 245 Query: 488 KQVLD 492 + D Sbjct: 246 PMIDD 250
>TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family signature. Length = 639 Score = 34.4 bits (79), Expect = 0.001 Identities = 32/134 (23%), Positives = 53/134 (39%), Gaps = 25/134 (18%) Query: 216 LSIVGKPNAGKSSLLNAMLLEERA---LVSDIKGTTR-DTIEE-------------VIEL 258 + ++ +AGK++L ++L A L S KGTTR D + Sbjct: 6 IGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQW 65 Query: 259 QGHKVRLIDTAGIRESTDKIERLGIEKSLKSLENCDIVLGVFDLSKPLEKEDFNLIDTLN 318 + KV +IDT G + ++ R SL L D + + ++ + L L Sbjct: 66 ENTKVNIIDTPGHMDFLAEVYR-----SLSVL---DGAILLISAKDGVQAQTRILFHALR 117 Query: 319 RAKKPCIVVLNKND 332 + P I +NK D Sbjct: 118 KMGIPTIFFINKID 131
>60KDINNERMP#60kDa inner membrane protein signature. Length = 548 Score = 430 bits (1107), Expect = e-148 Identities = 163/575 (28%), Positives = 277/575 (48%), Gaps = 68/575 (11%) Query: 10 RLILAIALSFLFIALYSYFFQKPNKTTTPT-TKQETTNNPTATSPNNTPNAFSATQIIPQ 68 R +L IAL F+ ++ + Q N T Q TT + + P + I + Sbjct: 5 RNLLVIALLFVSFMIWQAWEQDKNPQPQAQQTTQTTTTAAGSAADQGVPASGQGKLISVK 64 Query: 69 ENLLSTISFEHARIEIDSLGR--IKQVYLKDKKYLTPKQKGFLEHVGHLFSSKENSQTPL 126 ++L + I++ G + + K L Q L F + S Sbjct: 65 TDVL--------DLTINTRGGDVEQALLPAYPKELNSTQPFQLLETSPQFIYQAQSGLTG 116 Query: 127 KELPLLATDKLKPLEVRFLDPTLNNKAFNTPYSASKTTLGPNEQLV--LTQDLGALTIIK 184 ++ P + +PL +N A G NE V D T K Sbjct: 117 RDGPDNPANGPRPL-------------YNVEKDAYVLAEGQNELQVPMTYTDAAGNTFTK 163 Query: 185 TLTFYDDLHYDLQIAFKSPNN------------------LIPSYVITNGYRPVADLDSYT 226 T Y + + + N L P + + +T Sbjct: 164 TFVLKRG-DYAVNVNYNVQNAGEKPLEISSFGQLKQSITLPPHLDTGSSNFAL-----HT 217 Query: 227 FSGVLLENTDKKIEKIE---DKDAKEIKRFSNTLFLSSVDRYFTTLLFTKDPQGFEALID 283 F G D+K EK + D + + S +++ + +YF T + G Sbjct: 218 FRGAAYSTPDEKYEKYKFDTIADNENLNISSKGGWVAMLQQYFATAWIPHN-DGTNNFYT 276 Query: 284 SEIGTKNPLGFISLKNEA-----------DLHGYIGPKDYRSLKAISPMLTDVIEYGLIT 332 + +G N + I K++ + ++GP+ + A++P L ++YG + Sbjct: 277 ANLG--NGIAAIGYKSQPVLVQPGQTGAMNSTLWVGPEIQDKMAAVAPHLDLTVDYGWLW 334 Query: 333 FFAKGVFVLLDYLYQFVGNWGWAIILLTIIVRLILYPLSYKGMVSMQKLKEIAPKMKELQ 392 F ++ +F LL +++ FVGNWG++II++T IVR I+YPL+ SM K++ + PK++ ++ Sbjct: 335 FISQPLFKLLKWIHSFVGNWGFSIIIITFIVRGIMYPLTKAQYTSMAKMRMLQPKIQAMR 394 Query: 393 EKYKGEPQKLQAHMMQLYKKHGANPLGGCLPLILQIPVFFAIYRVLYNAVELKSSEWILW 452 E+ + Q++ MM LYK NPLGGC PL++Q+P+F A+Y +L +VEL+ + + LW Sbjct: 395 ERLGDDKQRISQEMMALYKAEKVNPLGGCFPLLIQMPIFLALYYMLMGSVELRQAPFALW 454 Query: 453 IHDLSIMDPYFILPLLMGASMYWHQSVTPSSVTDPMQAKIFKFLPLLFTIFLITFPAGLV 512 IHDLS DPY+ILP+LMG +M++ Q ++P++VTDPMQ KI F+P++FT+F + FP+GLV Sbjct: 455 IHDLSAQDPYYILPILMGVTMFFIQKMSPTTVTDPMQQKIMTFMPVIFTVFFLWFPSGLV 514 Query: 513 LYWTTNNILSVLQQLIINKVLENKKRAHAQSKKES 547 LY+ +N+++++QQ +I + LE K+ H++ KK+S Sbjct: 515 LYYIVSNLVTIIQQQLIYRGLE-KRGLHSREKKKS 548
>PREPILNPTASE#Type IV prepilin cysteine protease (C20) family signature. Length = 290 Score = 29.8 bits (67), Expect = 0.010 Identities = 11/59 (18%), Positives = 24/59 (40%), Gaps = 10/59 (16%) Query: 8 YAFFSSWVGTIVVVLLVIFFVAQAFIIPSRSMVGTLYEGDMLFVKKFSYGIPIPKIPWI 66 A +W+G L ++ ++ S+VG ++ ++ PIP P++ Sbjct: 219 LAALGAWLG--WQALPIVLLLS--------SLVGAFMGIGLILLRNHHQSKPIPFGPYL 267
>TYPE3IMSPROT#Type III secretion system inner membrane S protein family signature. Length = 354 Score = 29.7 bits (67), Expect = 0.006 Identities = 18/64 (28%), Positives = 30/64 (46%), Gaps = 4/64 (6%) Query: 87 LQSYSVMLFFNLLLLIDILGFLPFSIYHHFMASLIFSALFCGSLFLSSPLLGMIALVALS 146 L Y F L+L+ +LPFS S + + +L PLL + AL+A++ Sbjct: 45 LSDYYFEHFSKLMLIPAEQSYLPFSQ----ALSYVVDNVLLEFFYLCFPLLTVAALMAIA 100 Query: 147 SSLL 150 S ++ Sbjct: 101 SHVV 104
>PF05043#Transcriptional activator Length = 493 Score = 28.4 bits (63), Expect = 0.046 Identities = 9/39 (23%), Positives = 17/39 (43%) Query: 46 TNTPTTLEYEKEILNHSSNFKPLMSLYFNDGLTLEELQR 84 T+ HS++F L ++FN+G E + + Sbjct: 70 TDDSDIEMVYHHFFKHSTHFSILEFIFFNEGCQAESICK 108
>PF03544#Gram-negative bacterial tonB protein Length = 243 Score = 50.0 bits (119), Expect = 2e-09 Identities = 45/283 (15%), Positives = 91/283 (32%), Gaps = 63/283 (22%) Query: 23 RNFFFSLILSILLHLLIY----FLYEYRESLFPSKPKLVKVDPKNLLILKRGHSQDPSKN 78 R F + +LS+ +H + + ++ P+ + + V L+ + P Sbjct: 12 RRFPWPTLLSVCIHGAVVAGLLYTSVHQVIELPAPAQPISVTMVAPADLEPPQAVQPP-- 69 Query: 79 TQGAPKPTLAGPQKPPTPPTPPTPPTPPKPIEKPKPKPKPKPKPKKSDHKHKALKKVEKV 138 P +P P P P P IEKPKPKPKPKPKP K Sbjct: 70 ------PEPVVEPEPEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKV------------ 111 Query: 139 EEKKIVEKKVEEKKVVEKKPAQKEFDPNQLSFLPKEVVPPTPPRTDNNKGLDNQTRRDID 198 + +++ P + T + Sbjct: 112 ------------------EQPKRDVKPVESRPASPFENTAPARPTSST------------ 141 Query: 199 ELYGEEFGDLGTAEKDFIRNNLRDIGRITQKYLEYPQVAAYLGQDGTNAVEFYLHPNGDI 258 + + + R +++ +YP A L +G V+F + P+G + Sbjct: 142 ------ATAATSKPVTSVASGPR---ALSRNQPQYPARAQALRIEGQVKVKFDVTPDGRV 192 Query: 259 SDLKIIIGSEYKILDDNTLKTIQIAYKDYPRPKTKTLIRIRVR 301 +++I+ + + ++ + +P + ++ I + Sbjct: 193 DNVQILSAKPANMFEREVKNAMRRWRYEPGKPGSGIVVNILFK 235
>FLGMOTORFLIN#Flagellar motor switch protein FliN signature. Length = 137 Score = 99 bits (249), Expect = 2e-30 Identities = 25/77 (32%), Positives = 47/77 (61%) Query: 34 LICDYKNLLDMEIVFSAELGSTQIPLLQILRFEKGSVIDLQKPAGESVDTFVNGRVIGKG 93 + D ++D+ + + ELG T++ + ++LR +GSV+ L AGE +D +NG +I +G Sbjct: 50 AMQDIDLIMDIPVKLTVELGRTRMTIKELLRLTQGSVVALDGLAGEPLDILINGYLIAQG 109 Query: 94 EVMVFERNLAIRLNEIL 110 EV+V +R+ +I+ Sbjct: 110 EVVVVADKYGVRITDII 126
>OMS28PORIN#OMS28 porin signature. Length = 257 Score = 30.1 bits (67), Expect = 0.006 Identities = 22/77 (28%), Positives = 42/77 (54%), Gaps = 8/77 (10%) Query: 60 LFEKYPSVKDLAL-----ASLEEVKETIKSVSYFNNKSKHLINMAQKVVRDFKGVIPSTQ 114 + K P+ K+L L A +E+VKET+ + +++ + AQKV+ G+ PS + Sbjct: 164 MLNKSPNNKELELTKEEFAKVEQVKETLMASERALDET---VQEAQKVLNMVNGLNPSNK 220 Query: 115 KELMSLDGVGQKTANVV 131 ++++ V + +NVV Sbjct: 221 DQVLAKKDVAKAISNVV 237
>FLAGELLIN#Flagellin signature. Length = 507 Score = 244 bits (625), Expect = 5e-77 Identities = 127/518 (24%), Positives = 210/518 (40%), Gaps = 22/518 (4%) Query: 2 AFQVNTNINAMNAHVQSALTQNALKTSLERLSSGLRINKAADDASGMTVADSLRSQASSL 61 A +NTN ++ +Q++L +++ERLSSGLRIN A DDA+G +A+ S L Sbjct: 1 AQVINTNSLSLLTQNNLNKSQSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGL 60 Query: 62 GQAIANTNDGMGIIQVADKAMDEQLKILDTVKVKATQAAQDGQTTESRKAIQSDIVRLIQ 121 QA N NDG+ I Q + A++E L V+ + QA + K+IQ +I + ++ Sbjct: 61 TQASRNANDGISIAQTTEGALNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLE 120 Query: 122 GLDNIGNTTTYNGQALLSGQFTNKEFQVGAYSNQSIKASIGSTTSDKIGQVRI-ATGALI 180 +D + N T +NG +LS + QVGA ++I + +G G Sbjct: 121 EIDRVSNQTQFNGVKVLSQDN-QMKIQVGANDGETITIDLQKIDVKSLGLDGFNVNGPKE 179 Query: 181 TASGDISLTFKQVDGVNDVTLESVKISSSAGTGIGVLAEVINKNSNRTGVKAYASVITTS 240 GD+ +FK V G + + + K +G V ++ V A +TT Sbjct: 180 ATVGDLKSSFKNVTGYDTYAVGANKYRVDVNSGAVVTDTTAPTVPDKVYVNAANGQLTTD 239 Query: 241 DMAVQSGSVSNLTLNGIHLGNIVDIKKNDSDGRLVAAINAVTSETGVEAYTDQNGRLNLR 300 D N + K A A+ + + + + Sbjct: 240 DAE-----------NNTAVDLFKTTKSTAGTAEAKAIAGAIKGGKEGDTFDYKGVTFTID 288 Query: 301 SLDGRGIEIKTDSTSNGPSALTMVNGGQDLTQGSTNYGRLSLTRLDAKSINV------VS 354 + G K +T NG V S + +N + Sbjct: 289 TKTGNDGNGKVSTTINGEKVTLTVADITAGAANVDAATLQSSKNVYTSVVNGQFTFDDKT 348 Query: 355 ASDSQHLGFSAIGFGESQVAETTVNLRDVTGNFNANVKSASGANYNAVIASGNQSL---G 411 ++S L ++ TVN + T N + + +G + S Sbjct: 349 KNESAKLSDLEANNAVKGESKITVNGAEYTANAAGDKVTLAGKTMFIDKTASGVSTLINE 408 Query: 412 SGVTTLRGAMVVIDIAESAMKMLDKVRSDLGSVQNQMISTVNNISITQVNVKAAESQIRD 471 + + +SA+ +D VRS LG++QN+ S + N+ T N+ +A S+I D Sbjct: 409 DAAAAKKSTANPLASIDSALSKVDAVRSSLGAIQNRFDSAITNLGNTVTNLNSARSRIED 468 Query: 472 VDFAEESANFNKNNILAQSGSYAMSQANTVQQNILRLL 509 D+A E +N +K IL Q+G+ ++QAN V QN+L LL Sbjct: 469 ADYATEVSNMSKAQILQQAGTSVLAQANQVPQNVLSLL 506
>PF05272#Virulence-associated E family protein Length = 892 Score = 30.0 bits (67), Expect = 0.007 Identities = 13/95 (13%), Positives = 26/95 (27%), Gaps = 20/95 (21%) Query: 60 ILENDDEINLKKIAYIEFSKLAECVRPSGFYNQKAKRLIDLSENILKDFQSFENFKQEVT 119 L + + +A+ E + VR + +KA E+ Sbjct: 458 ALRSAPALA-GCVAFDELREQPVAVRAFPW--RKAPGP-------------LEDADVLRL 501 Query: 120 REWLLDQKGIGKESADAILCYVCAKEVMVVDKYSY 154 +++ G G+ SA + D Sbjct: 502 ADYVETTYGTGEASAQTTEQAINV----AADMNRV 532
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 52.9 bits (127), Expect = 2e-10 Identities = 24/82 (29%), Positives = 36/82 (43%), Gaps = 5/82 (6%) Query: 27 NVKAIQDSKLTLDSTGIVDSIKVTEGSVVKKGDVLLLLYNQDKQAQSDSTEQQLIFAKKQ 86 K I+ IV I V EG V+KGDVLL L +A + T+ L+ A+ + Sbjct: 95 RSKEIKPI-----ENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLE 149 Query: 87 YQRYSKTGGAVDKNTLESYEFN 108 RY +++ N L + Sbjct: 150 QTRYQILSRSIELNKLPELKLP 171 Score = 33.3 bits (76), Expect = 7e-04 Identities = 17/115 (14%), Positives = 37/115 (32%), Gaps = 13/115 (11%) Query: 70 QAQSDSTEQQLIFAKKQYQR--YSKTGGAVDKNTLESYEFNYRRLESDYAYSIAVLNKTI 127 +++ S +++ + ++ K D + + E ++ Sbjct: 279 ESEILSAKEEYQLVTQLFKNEILDKLRQTTDN--IGLLTLELAKNEER-------QQASV 329 Query: 128 LRAPFDGVVANKNIQVGEGVSANNTVLLRLVSHARKLVIE--FDSKYINAVKVGD 180 +RAP V + GV L+ +V L + +K I + VG Sbjct: 330 IRAPVSVKVQQLKVHTEGGVVTTAETLMVIVPEDDTLEVTALVQNKDIGFINVGQ 384
>ACRIFLAVINRP#Acriflavin resistance protein family signature. Length = 1034 Score = 893 bits (2308), Expect = 0.0 Identities = 283/1037 (27%), Positives = 517/1037 (49%), Gaps = 38/1037 (3%) Query: 1 MYKTAINRPITTLMFAFAIIFFGVMGFKKLSVALFPNIDIPTVVVTTTYPGASAEIIESK 60 M I RPI + A ++ G + +L VA +P I P V V+ YPGA A+ ++ Sbjct: 1 MANFFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDT 60 Query: 61 VTDKIEEAVMGIDGIKKVTSTSSKNVSIVV-IEFELEKPNEEALNDVVNKISSVR-FDDS 118 VT IE+ + GID + ++STS S+ + + F+ + A V NK+ Sbjct: 61 VTQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQ 120 Query: 119 NIQKPSINKFDT-NSQAIISLFVSSS-SVPATTLNDYAKNTIKPMLQKISGVGGVQLNGF 176 +Q+ I+ + +S +++ FVS + ++DY + +K L +++GVG VQL G Sbjct: 121 EVQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFG- 179 Query: 177 RERQIRIYADPTLMNKYNLTYADLFSTLKAENVEIDGGRIVNS------QRELSILINAN 230 + +RI+ D L+NKY LT D+ + LK +N +I G++ + Q SI+ Sbjct: 180 AQYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTR 239 Query: 231 SYSVADVEKIQV-----GNHVRLGDIAKIEIGLEEDNTFASFKDKPGVILEIQKVAGSNE 285 + + K+ + G+ VRL D+A++E+G E N A KP L I+ G+N Sbjct: 240 FKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGANA 299 Query: 286 IEIVDRVYEALKHIQAISP-SYEIRPFLDTTSYIRTSIEDVKFDLVLGAILAVLVVFAFL 344 ++ + L +Q P ++ DTT +++ SI +V L +L LV++ FL Sbjct: 300 LDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVMYLFL 359 Query: 345 RNGTITLVSAISIPISIMGTFALIQWMGFSLNMLTMVALTLAIGIIIDDAIVVIENIHK- 403 +N TL+ I++P+ ++GTFA++ G+S+N LTM + LAIG+++DDAIVV+EN+ + Sbjct: 360 QNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERV 419 Query: 404 KLEMGMDKRKASYEGVKEIGFALVAISAMLLSVFVPIGNMKGIIGRFFQSFGITVALAIA 463 +E + ++A+ + + +I ALV I+ +L +VF+P+ G G ++ F IT+ A+A Sbjct: 420 MMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMA 479 Query: 464 LSYVVVVTIIPMVSSVVVNPRHS-------RFYVWSEPFFKALESYYTRLLQWVLNHKLI 516 LS +V + + P + + ++ P + F+ W F ++YT + +L Sbjct: 480 LSVLVALILTPALCATLLKPVSAEHHENKGGFFGWFNTTFDHSVNHYTNSVGKILGSTGR 539 Query: 517 IFIAVVLVFVGSLFVASKIGMEFMLKEDRGRFLVWLRAKPGVSIDYMTKKAKGFQEAI-- 574 + L+ G + + ++ F+ +ED+G FL ++ G + + K + Sbjct: 540 YLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQVTDYYLK 599 Query: 575 --EKHAEVEFTTLQVGYGTTQSPFKAKIFVQLKPLKERKKERKLGQFELMRALRSELKSM 632 + + E FT + Q+ FV LKP +ER + + + RA + EL + Sbjct: 600 NEKANVESVFTVNGFSFS-GQAQNAGMAFVSLKPWEERNGDENSAEAVIHRA-KMELGKI 657 Query: 633 PEAKDLESINLSEVPLLGGGGDSSPFQTFVFAHSQEAVDKSVANLKKFLLESPELKGKIE 692 + + N+ + L G ++ F + + D + L + + + Sbjct: 658 RDGF-VIPFNMPAIVEL---GTATGFDFELIDQAGLGHDALTQARNQLLGMAAQHPASLV 713 Query: 693 GFHTSTSESQPQLQLKILRQNANKYGVSAQTIGSVVSSAFSGTSQASVFKQDGKEYDMII 752 + E Q +L++ ++ A GVS I +S+A G + + F G+ + + Sbjct: 714 SVRPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGG-TYVNDFIDRGRVKKLYV 772 Query: 753 RVPDNKRVSVEDIKRLQVRNKYNKLMFLDALVEITETKSPSSISRYNRQRSVTVLAQPKA 812 + R+ ED+ +L VR+ +++ A + RYN S+ + + Sbjct: 773 QADAKFRMLPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEIQGEAAP 832 Query: 813 GISLGEILTQVSKNTKEWLVEGANYRFTGEADNAKETNGEFLIAIATAFVLIYMILAALY 872 G S G+ + + +N L G Y +TG + + + + +A +FV++++ LAALY Sbjct: 833 GTSSGDAMALM-ENLASKLPAGIGYDWTGMSYQERLSGNQAPALVAISFVVVFLCLAALY 891 Query: 873 ESILEPFIIMVTMPLSFSGAFFALGLVHQPLSMFSMIGLILLIGMVGKNATLLIDVANE- 931 ES P +M+ +PL G A L +Q ++ M+GL+ IG+ KNA L+++ A + Sbjct: 892 ESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILIVEFAKDL 951 Query: 932 ERKKGLNIQEAILFAGKTRLRPILMTTIAMVCGMLPLALASGDGAAMKSPIGIAMSGGLM 991 K+G + EA L A + RLRPILMT++A + G+LPLA+++G G+ ++ +GI + GG++ Sbjct: 952 MEKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIGVMGGMV 1011 Query: 992 ISMVLSLLIVPVFYRLL 1008 + +L++ VPVF+ ++ Sbjct: 1012 SATLLAIFFVPVFFVVI 1028
>VACCYTOTOXIN#Helicobacter pylori vacuolating cytotoxin signature. Length = 1291 Score = 278 bits (712), Expect = 1e-77 Identities = 103/394 (26%), Positives = 186/394 (47%), Gaps = 14/394 (3%) Query: 2806 NAVNWLNALFVAKGGNPLFAPYYLQDTPTKHIVTLMEDVSSALGMLTKPSLKNNSTDVLQ 2865 + L L + + +A + T I + ++ L + K + L Sbjct: 907 QGRDLLQTLLI-DSHDAGYARTMIDATSANEITKQLNTATTTLNNIASLEHKTSGLQTLS 965 Query: 2866 LNTYTQQMGRLAKLSSFASFDSTNFSERLSSLKNQRFADAIPNAMDVILKYSQRDKLKNN 2925 L+ RL LS + +F++RL +LK+QRFA + +A +V+ +++ + + N Sbjct: 966 LSNAMILNSRLVNLSRRHTNHIDSFAKRLQALKDQRFAS-LESAAEVLYQFAPKYEKPTN 1024 Query: 2926 LWATGVGGISFVENGSGTLYGINLGYDRFVRG---VIVGGYAAYGYSGFNSR--ITGSRS 2980 +WA +GG S G+ +LYG + G D ++ G IVGG+ +YGYS F+++ S + Sbjct: 1025 VWANAIGGTSLNSGGNASLYGTSAGVDAYLNGEVEAIVGGFGSYGYSSFSNQANSLNSGA 1084 Query: 2981 DNVNVGLYARAFIKKSELTFSVNETWGANKTQISSNDALLSMINQSYSYNTWTTNARVNY 3040 +N N G+Y+R F + E F G++++ ++ ALL +NQSY+Y ++ R +Y Sbjct: 1085 NNTNFGVYSRIFANQHEFDFEAQGALGSDQSSLNFKSALLRDLNQSYNYLAYSAATRASY 1144 Query: 3041 GYDFMFKNKSVIIKPQISLGYYYIGMTGLDGVMNNALYNQFKANADPSKKSVLTINFAIE 3100 GYDF F ++++KP + + Y ++G T + S + + + +E Sbjct: 1145 GYDFAFFRNALVLKPSVGVSYNHLGSTNFKS----NSNQKVALKNGASSQHLFNASANVE 1200 Query: 3101 NRHYFNKNSYFYAISGISRDLLVRSMGDKLVRFIGDNTLSYRKGELYNTFASITTGGEVR 3160 R+Y+ SYFY +G+ ++ + V + R NT A + GGE++ Sbjct: 1201 ARYYYGDTSYFYMNAGVLQEFANFGSSNA-VSLNTFKVNATRNP--LNTHARVMMGGELK 1257 Query: 3161 LFKSFYANAGVGARFGLDYKMINITGNIGMRLAF 3194 L K + N G L + + N+GMR +F Sbjct: 1258 LAKEVFLNLGFVYLHNLISNIGHFASNLGMRYSF 1291 Score = 35.4 bits (81), Expect = 0.005 Identities = 15/100 (15%), Positives = 30/100 (30%), Gaps = 5/100 (5%) Query: 708 SYTFDGVNNAFNEDKFNGGSFNFNHAEQTDAFNNNSFNGGSFNFNAKQVDFNHNLFNGGV 767 SY+ + E FN + ++A Q +N + G+ + + N G Sbjct: 272 SYSTINTSKVTGEVNFNHLTVGDHNAAQAGIIASNKTHIGTLDLW-QSAGLNIIAPPEGG 330 Query: 768 FNF---NNTPKVSFTNDTFNVNNQFKING-AQTTFTFNKG 803 + + + N + + N Q N Sbjct: 331 YKDKPNDKPSNTTQNNAKNDKQESSQNNSNTQVINPPNSA 370 Score = 33.5 bits (76), Expect = 0.018 Identities = 53/283 (18%), Positives = 84/283 (29%), Gaps = 49/283 (17%) Query: 670 YKFQGPKNAYTFKNTNFLA-GNFKFQGKTTIEKSVLNDASYTF---DGVNN-AFNE---- 720 Y N N L G+ I + + + G+N A E Sbjct: 273 YSTINTSKVTGEVNFNHLTVGDHNAAQAGIIASNKTHIGTLDLWQSAGLNIIAPPEGGYK 332 Query: 721 ----DKFNGGSFNFNHAEQTDAFNNNSFNGGSFNFNAKQ-VDFNHNLFNGGVFNFNNTPK 775 DK + + N ++ ++ NNS N+ Q + G F Sbjct: 333 DKPNDKPSNTTQNNAKNDKQESSQNNSNTQVINPPNSAQKTEIQPTQVIDGPFAGGKNTV 392 Query: 776 VSFTNDTFNVNNQFKI-NGAQTTFTFNKGVVFNMQGLLNSLSVGTTYQLLNAKSVDYKDN 834 V+ + N N I G ++ +LS + + L +++ Sbjct: 393 VNI--NRINTNADGTIRVGGFKASLTTNAAHLHIGKGGINLSNQASGRSLLVENL----- 445 Query: 835 HNTLYQMLRWTSGENPSGKLVDENQS-----APSSAKIYNVQFID--NGLTYYIKESFNN 887 T G L NQ A SSA D NG +FNN Sbjct: 446 ----------TGNITVDGPLRVNNQVGGYALAGSSANFEFKAGTDTKNGTA-----TFNN 490 Query: 888 GITLTRLCTLGYTHCVSVHDNAFNLKNVNNSASDTVFYLNGMT 930 I+L R V H F + N +T+ + +G+T Sbjct: 491 DISLGRFV----NLKVDAHTANFKGIDTGNGGFNTLDF-SGVT 528
>HELNAPAPROT#Helicobacter neutrophil-activating protein A family signature. Length = 153 Score = 148 bits (376), Expect = 4e-49 Identities = 40/140 (28%), Positives = 75/140 (53%), Gaps = 1/140 (0%) Query: 5 EILKHLQADAIVLFMKVHNFHWNVKGTDFFNVHKATEEIYEEFADMFDDLAERIVQLGHH 64 L ++ +L+ K+H FHW VKG FF +H+ EE+Y+ A+ D +AER++ +G Sbjct: 15 NSLNTQLSNWFLLYSKLHRFHWYVKGPHFFTLHEKFEELYDHAAETVDTIAERLLAIGGQ 74 Query: 65 PLVTLSEAIKLTRIKEETKTSFHSKDIFKEILEDYKHLEKEFKTLSNTAEKEGDKVTVTY 124 P+ T+ E + I + + + ++ + ++ DYK + E K + AE+ D T Sbjct: 75 PVATVKEYTEHASITDGGNET-SASEMVQALVNDYKQISSESKFVIGLAEENQDNATADL 133 Query: 125 ADDQLAKLQKSIWMLQAHLA 144 + +++K +WML ++L Sbjct: 134 FVGLIEEVEKQVWMLSSYLG 153
>PF06580#Sensor histidine kinase Length = 349 Score = 29.8 bits (67), Expect = 0.015 Identities = 10/71 (14%), Positives = 25/71 (35%), Gaps = 13/71 (18%) Query: 281 IVLQNFLYNAIDAIEALEESEQ-GQVKIEAFIQNEFIVFTIIDNGKEVENKSALFEPFET 339 +++Q + N I + + Q G++ ++ N + + + G + Sbjct: 258 MLVQTLVENGI--KHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSLALKNTK------- 308 Query: 340 TKLKGNGLGLA 350 + G GL Sbjct: 309 ---ESTGTGLQ 316
>FLGPRINGFLGI#Flagellar P-ring protein signature. Length = 373 Score = 356 bits (915), Expect = e-124 Identities = 118/345 (34%), Positives = 193/345 (55%), Gaps = 26/345 (7%) Query: 19 AEKIGDIASVVGVRDNQLIGYGLVIGLNGTGDK-SGSKFTMQSISNMLESVNVKISADDI 77 +I DIAS+ RDNQLIGYGLV+GL GTGD S FT QS+ ML+++ + Sbjct: 28 TSRIKDIASLQAGRDNQLIGYGLVVGLQGTGDSLRSSPFTEQSMRAMLQNLGITTQGGQS 87 Query: 78 KSKNVAAVMITASLPPFARQGDKIDIQISSIGDAKSIQGGTLVMTPLNAVDGNIYALAQG 137 +KN+AAVM+TA+LPPFA G ++D+ +SS+GDA S++GG L+MT L+ DG IYA+AQG Sbjct: 88 NAKNIAAVMVTANLPPFASPGSRVDVTVSSLGDATSLRGGNLIMTSLSGADGQIYAVAQG 147 Query: 138 AITSGNSS-----------NLLSANIINGATIEREVSYDLFHKNAMVLSLKSPNFKNAIQ 186 A+ S SA + NGA IERE+ +VL L++P+F A++ Sbjct: 148 ALIVNGFSAQGDAATLTQGVTTSARVPNGAIIERELPSKFKDSVNLVLQLRNPDFSTAVR 207 Query: 187 VQNTLNKV----FGNKVAIALDPKTIQITRPERFSMVEFLALVQEIPINYSAKNKIIVDE 242 V + +N +G+ +A D + I + +P + +A ++ + + K++++E Sbjct: 208 VADVVNAFARARYGDPIAEPRDSQEIAVQKPRVADLTRLMAEIENLTVETDTPAKVVINE 267 Query: 243 KSGTIVSGVDIMVHPIVVTSQDITLKITKEPLDN--------SKSAQDLDNNMSLDTAHN 294 ++GTIV G D+ + + V+ +T+++T+ P + Q + M++ Sbjct: 268 RTGTIVIGADVRISRVAVSYGTLTVQVTESPQVIQPAPFSRGQTAVQPQTDIMAMQEGSK 327 Query: 295 TLSSNGKNITIAGVVKALQKIGVSAKGMVSILQALKKSGAISAEM 339 G ++ +V L IG+ A G+++ILQ +K +GA+ AE+ Sbjct: 328 VAIVEGPDLR--TLVAGLNSIGLKADGIIAILQGIKSAGALQAEL 370
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 31.3 bits (71), Expect = 0.009 Identities = 9/24 (37%), Positives = 13/24 (54%) Query: 30 VAIVGESGSGKSSIANIIMRLNPR 53 + I GESG+GK +A + R Sbjct: 163 LMITGESGTGKELVARALHDYGKR 186
>PREPILNPTASE#Type IV prepilin cysteine protease (C20) family signature. Length = 290 Score = 27.5 bits (61), Expect = 0.029 Identities = 17/59 (28%), Positives = 25/59 (42%), Gaps = 8/59 (13%) Query: 32 FVIVAWLFRF--KSIAFSILITLLVILVDIWVYSDVHQFLL-DTASSPILLLVALLIKW 87 V VA ++A +L +LV L I D+ + LL D + P+L LL Sbjct: 121 SVAVAMTLAPGWGTLAALLLTWVLVALTFI----DLDKMLLPDQLTLPLLWG-GLLFNL 174
>FLGMRINGFLIF#Flagellar M-ring protein signature. Length = 559 Score = 551 bits (1422), Expect = 0.0 Identities = 178/582 (30%), Positives = 291/582 (50%), Gaps = 66/582 (11%) Query: 11 VDFFIKLNKKQKIALIAAGVLITALLVFLLLYPFKEKDYAQGGYGVLFEGLDSSDNALIL 70 +++ +L +I LI AG A++V ++L+ K DY LF L D I+ Sbjct: 13 LEWLNRLRANPRIPLIVAGSAAVAIVVAMVLWA-KTPDYR-----TLFSNLSDQDGGAIV 66 Query: 71 QHLQQNQIPYKVSRDD-TILIPKDKVYEERITLASQGIPKTSKVGFEIFDTKDFGATDFD 129 L Q IPY+ + I +P DKV+E R+ LA QG+PK VGFE+ D + FG + F Sbjct: 67 AQLTQMNIPYRFANGSGAIEVPADKVHELRLRLAQQGLPKGGAVGFELLDQEKFGISQFS 126 Query: 130 QNIKLIRAIEGELSRTIESLNPILKANVHIAIPKDSVFVAKEVPPSASVMLKLKPNMKLL 189 + + RA+EGEL+RTIE+L P+ A VH+A+PK S+FV ++ PSASV + L+P L Sbjct: 127 EQVNYQRALEGELARTIETLGPVKSARVHLAMPKPSLFVREQKSPSASVTVTLEPGRALD 186 Query: 190 PAQILGIKNLIAAAVPKLTTENVKIVNENGEPLGEGDMLDNAKELALEQLHYKQNFENIL 249 QI + +L+++AV L NV +V+++G L + + + ++L QL + + E+ + Sbjct: 187 EGQISAVVHLVSSAVAGLPPGNVTLVDQSGHLLTQSN--TSGRDLNDAQLKFANDVESRI 244 Query: 250 ENKIVNILAPIVGGKNKVVARVNAEFDFSQKKSTKETFDPNN-----VVRSEQNLEEKKE 304 + +I IL+PIVG N V A+V A+ DF+ K+ T+E + PN +RS Q ++ Sbjct: 245 QRRIEAILSPIVGNGN-VHAQVTAQLDFANKEQTEEHYSPNGDASKATLRSRQLNISEQV 303 Query: 305 GAPKKQVGGVPGVVSN-IGPVQGLKDNKEQEKYEKSQN---------------------- 341 GA GGVPG +SN P + +QN Sbjct: 304 GAGYP--GGVPGALSNQPAPPNEAPIATPPTNQQNAQNTPQTSTSTNSNSAGPRSTQRNE 361 Query: 342 TTNYEVGKTISEIKGEFGTLVRLNAAVVVDGKYKIALKDGTNALEYEPLSDESLKKINAL 401 T+NYEV +TI K G + RL+ AVVV+ K L DG PL+ + +K+I L Sbjct: 362 TSNYEVDRTIRHTKMNVGDIERLSVAVVVNYK---TLADGK----PLPLTADQMKQIEDL 414 Query: 402 VKQAIGYNQNRGDDVAVSNFEFNPITPMLDNATWSEKIMHKTQKILGSFTPLIKYILVFV 461 ++A+G++ RGD + V N F+ + E + Q + +++LV V Sbjct: 415 TREAMGFSDKRGDTLNVVNSPFSAVDNTGG-----ELPFWQQQSFIDQLLAAGRWLLVLV 469 Query: 462 VLFIFYKKVIVPFSERMLEVVPDEDKEVKSMFEEMDEEEDEMNKLGDLKKKVEDQLGLNA 521 V +I ++K + P R +E ++ + E + E ++K L+++ +Q Sbjct: 470 VAWILWRKAVRPQLTRRVEEAKAAQEQAQVRQETEEAVEVRLSKDEQLQQRRANQ----- 524 Query: 522 TFSEEEVRYEIVLEKIRGTLKERPDEIAMLFKLLIKDEISSD 563 + E++ ++IR E D + L+I+ +S+D Sbjct: 525 -----RLGAEVMSQRIR----EMSDNDPRVVALVIRQWMSND 557
>FLGMOTORFLIG#Flagellar motor switch protein FliG signature. Length = 344 Score = 350 bits (900), Expect = e-122 Identities = 122/338 (36%), Positives = 209/338 (61%), Gaps = 4/338 (1%) Query: 8 KQKAQLDELSMSEKIAILLIQVGEDTTGEILRHLDIDSITEISKQIVQLNGTDKQIGAAV 67 K+ + L+ +K AILL+ +G + + ++ ++L + I ++ +I +L ++ V Sbjct: 7 KEILDVSALTGKQKAAILLVSIGSEISSKVFKYLSQEEIESLTFEIAKLETITSELKDNV 66 Query: 68 LEEFFAIFQSNQYINTGGLEYARELLTRTLGSEEARKVMDKLTKSLQTQKNFAYLGKIKP 127 L EF + + ++I GG++YARELL ++LG+++A +++ L +LQ+ + F ++ + P Sbjct: 67 LLEFKELMMAQEFIQKGGIDYARELLEKSLGTQKAVDIINNLGSALQS-RPFEFVRRADP 125 Query: 128 QQLADFIINEHPQTIALILAHMEAPNAAETLSYFPDEMKAEISIRMANLGDISPQVVKRV 187 + +FI EHPQTIALIL++++ A+ LS P E++ ++ R+A + SP+VV+ V Sbjct: 126 ANILNFIQQEHPQTIALILSYLDPQKASFILSSLPTEVQTNVARRIALMDRTSPEVVREV 185 Query: 188 STVLENKLESLTSYK-IEVGGLRAVAEIFNRLGQKSAKTTLARIESVDNKLAGAIKEMMF 246 VLE KL SL+S GG+ V EI N +K+ K + +E D +LA IK+ MF Sbjct: 186 ERVLEKKLASLSSEDYTSAGGVDNVVEIINMADRKTEKFIIESLEEEDPELAEEIKKKMF 245 Query: 247 TFEDIVKLDNFAIREILKVADKKDLSLALKTSTQDLTDKFLNNMSSRAAEQFVEEMQYLG 306 FEDIV LD+ +I+ +L+ D ++L+ ALK+ + +K NMS RAA E+M++LG Sbjct: 246 VFEDIVLLDDRSIQRVLREIDGQELAKALKSVDIPVQEKIFKNMSKRAASMLKEDMEFLG 305 Query: 307 AVKIKDVDVAQRKIIEIVQSLQEKG--VIQTGEEEDVI 342 + KDV+ +Q+KI+ +++ L+E+G VI G EEDV+ Sbjct: 306 PTRRKDVEESQQKIVSLIRKLEEQGEIVISRGGEEDVL 343 Score = 31.3 bits (71), Expect = 0.005 Identities = 20/103 (19%), Positives = 41/103 (39%), Gaps = 3/103 (2%) Query: 4 KLTPKQKAQLDELSMSEKIAILLIQVGEDTTGEILRHLDIDSITEISKQIVQLNGTDKQI 63 + P + + IA++L + IL L + T ++++I ++ T ++ Sbjct: 122 RADPANILNFIQQEHPQTIALILSYLDPQKASFILSSLPTEVQTNVARRIALMDRTSPEV 181 Query: 64 GAA---VLEEFFAIFQSNQYINTGGLEYARELLTRTLGSEEAR 103 VLE+ A S Y + GG++ E++ E Sbjct: 182 VREVERVLEKKLASLSSEDYTSAGGVDNVVEIINMADRKTEKF 224
>FLGFLIH#Flagellar assembly protein FliH signature. Length = 228 Score = 36.7 bits (84), Expect = 5e-05 Identities = 46/212 (21%), Positives = 94/212 (44%), Gaps = 17/212 (8%) Query: 45 PNPEEPLEKKAIENDLIDCLLKKTDELSSHLVKLQMQFEKAQEES-KALIENAKNDGYKI 103 P E + E +I+ + L L +LQMQ A E+ +A I + G+K Sbjct: 17 PPQAEFVPIVEPEETIIE---EAEPSLEQQLAQLQMQ---AHEQGYQAGIAEGRQQGHKQ 70 Query: 104 GFKEGEEKMRNELTHSVNEEKNQLLHAITALDEKMKKSQDHLMTLE----KELSAIAIDI 159 G++EG + L + E K+Q + + + + Q L L+ L +A++ Sbjct: 71 GYQEG---LAQGLEQGLAEAKSQQAPIHARMQQLVSEFQTTLDALDSVIASRLMQMALEA 127 Query: 160 AKEVILKEVEDNSQKVALALAEELLKNVLDATDIHLKVNPLDYPYLNERLQNASKI---K 216 A++VI + ++ + + + L + L + L+V+P D +++ L + + Sbjct: 128 ARQVIGQTPTVDNSALIKQIQQLLQQEPLFSGKPQLRVHPDDLQRVDDMLGATLSLHGWR 187 Query: 217 LESNEAISKGGVMITSSNGSLDGNLMERFKTL 248 L + + GG +++ G LD ++ R++ L Sbjct: 188 LRGDPTLHPGGCKVSADEGDLDASVATRWQEL 219
>TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family signature. Length = 639 Score = 141 bits (356), Expect = 1e-37 Identities = 99/437 (22%), Positives = 174/437 (39%), Gaps = 85/437 (19%) Query: 3 NIRNFSIIAHIDHGKSTLADCLIAECNAIS---NREMTSQVMDTMDIEKERGITIKAQSV 59 I N ++AH+D GK+TL + L+ AI+ + + + D +E++RGITI+ Sbjct: 2 KIINIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGIT 61 Query: 60 RLNYTLKGEDYVLNLIDTPGHVDFSYEVSRSLCSCEGALLVVDATQGVEAQTIANVYIAL 119 + E+ +N+IDTPGH+DF EV RSL +GA+L++ A GV+AQT + Sbjct: 62 SFQW----ENTKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALR 117 Query: 120 DNNLEILPVINKIDLPNANVVEVKQDIEDTIGIDCSGANEVSAKARLGIKD--------- 170 + + INKID ++ V QDI++ + + +V + + + Sbjct: 118 KMGIPTIFFINKIDQNGIDLSTVYQDIKEKLSAEIVIKQKVELYPNMCVTNFTESEQWDT 177 Query: 171 -------LLEKIITTIPAPSGDFNAPLKALIYD-------------------------SW 198 LLEK ++ + + ++ + Sbjct: 178 VIEGNDDLLEKYMSGKSLEALELEQEESIRFHNCSLFPVYHGSAKNNIGIDNLIEVITNK 237 Query: 199 F--------------------DNYLGALALVRIMDGSINTEQEILVMGTGKKHGVLGLYY 238 F LA +R+ G ++ + + K + +Y Sbjct: 238 FYSSTHRGQSELCGKVFKIEYSEKRQRLAYIRLYSGVLHLRDSVRISEKEKI-KITEMYT 296 Query: 239 PNPLKKIPTKSLECGEIGIV---SLGLKSVTDIAVGDTLTDAKNPTPKPIEGFMPAKPFV 295 + GEI I+ L L SV +GDT P + IE P + Sbjct: 297 SINGELCKIDKAYSGEIVILQNEFLKLNSV----LGDTKLL---PQRERIEN---PLPLL 346 Query: 296 FAGLYPIETDRFEDLREALLKLQLNDCALNFEPESSVALGFGFRVGFLGLLHMEVIKERL 355 + P + + E L +ALL++ +D L + +S+ + FLG + MEV L Sbjct: 347 QTTVEPSKPQQREMLLDALLEISDSDPLLRYYVDSATH---EIILSFLGKVQMEVTCALL 403 Query: 356 EREFSLNLIATAPTVVY 372 + ++ + + PTV+Y Sbjct: 404 QEKYHVEIEIKEPTVIY 420 Score = 31.0 bits (70), Expect = 0.015 Identities = 15/75 (20%), Positives = 28/75 (37%), Gaps = 2/75 (2%) Query: 399 IKEPFVRATIITPSEFLGNLMQLLNNKRGIQEKMEYLNQSRVMLTYSLPSNEIVMDFYDK 458 + EP++ I P E+L + L + V+L+ +P+ I ++ Sbjct: 535 LLEPYLSFKIYAPQEYLSRAYTDAPKYCANIVDTQ-LKNNEVILSGEIPARCI-QEYRSD 592 Query: 459 LKSCTKGYASFDYEP 473 L T G + E Sbjct: 593 LTFFTNGRSVCLTEL 607
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 394 bits (1013), Expect = e-137 Identities = 128/384 (33%), Positives = 198/384 (51%), Gaps = 9/384 (2%) Query: 2 KIAIVEDDINMRKSLELFFELQDDLEIVSFKNPKDALDKL-DESFDLVITDINMPHMDGL 60 I + +DD +R L + ++ N + DLV+TD+ MP + Sbjct: 5 TILVADDDAAIRTVLNQALS-RAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63 Query: 61 EFLRLLEGKYES---IVITGNATLNKAIDSIRLGVKDFFQKPFKPELLLESIYRTKKVLE 117 + L ++ +V++ T AI + G D+ KPF E I + L Sbjct: 64 DLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLT---ELIGIIGRALA 120 Query: 118 FQKKHPLEKPLKKPHKHSFLAASKALEESKRQALKVASTDANVMLLGESGVGKEVFAHFI 177 K+ P + + S A++E R ++ TD +M+ GESG GKE+ A + Sbjct: 121 EPKRRPSKLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVARAL 180 Query: 178 HQHSQRSKHPFIAINMSAIPEHLLESELFGYQKGAFTDATAPKMGLFESAHKGTIFLDEI 237 H + +R PF+AINM+AIP L+ESELFG++KGAFT A G FE A GT+FLDEI Sbjct: 181 HDYGKRRNGPFVAINMAAIPRDLIESELFGHEKGAFTGAQTRSTGRFEQAEGGTLFLDEI 240 Query: 238 AEMPIQLQSKLLRVVQEKEITRLGDNKSVKIDVRFISATNANMKEKIAAKEFREDLFFRL 297 +MP+ Q++LLRV+Q+ E T +G ++ DVR ++ATN ++K+ I FREDL++RL Sbjct: 241 GDMPMDAQTRLLRVLQQGEYTTVGGRTPIRSDVRIVAATNKDLKQSINQGLFREDLYYRL 300 Query: 298 QIVPIVIAPLRERVEEILPIAEIKLKEVCDAYHLGPKSFSKNATKRLLEYSWHGNVRELL 357 +VP+ + PLR+R E+I + +++ L K F + A + + + W GNVREL Sbjct: 301 NVVPLRLPPLRDRAEDIPDLVRHFVQQAE-KEGLDVKRFDQEALELMKAHPWPGNVRELE 359 Query: 358 GVVERAAILSEGSEIQEKDLFLER 381 +V R L I + + E Sbjct: 360 NLVRRLTALYPQDVITREIIENEL 383
>PF07520#Virulence protein SrfB Length = 1041 Score = 29.2 bits (65), Expect = 0.010 Identities = 14/49 (28%), Positives = 23/49 (46%), Gaps = 4/49 (8%) Query: 121 LEAEDNKIAAIGSGG---NFALSAARALDNFAHLEPRKLVEESLKIAGD 166 E+ ++A I GG + ++ R DN L P + E ++AGD Sbjct: 590 GESPSLRLACIDVGGGTTDLMVTTYRGEDNRV-LHPEQTFREGFRVAGD 637
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 29.0 bits (65), Expect = 0.045 Identities = 11/36 (30%), Positives = 18/36 (50%), Gaps = 3/36 (8%) Query: 48 TPKNILMIGSTGVGKTEIARRI---AKIMKLPFVKV 80 T +++ G +G GK +AR + K PFV + Sbjct: 159 TDLTLMITGESGTGKELVARALHDYGKRRNGPFVAI 194
>PF03944#delta endotoxin Length = 633 Score = 32.3 bits (73), Expect = 0.002 Identities = 25/94 (26%), Positives = 47/94 (50%), Gaps = 3/94 (3%) Query: 68 LHHQEKLLNQCMLSQALKAMGDAELCVFLASVHDDLKGYEEFLSLCQKPHILAVSKIDTA 127 L E+ LNQ + + + A +AEL A+V + + + FL+ + L+++ Sbjct: 94 LRETERFLNQRLNTDTV-ARVNAELTGLQANVEEFNRQVDNFLNPNRNAVPLSITSSVNT 152 Query: 128 THKQVLQKLQEYQQYASQFLALVPLSAKKSQNLN 161 + L +L ++Q Q L L+PL A+ + NL+ Sbjct: 153 MQQLFLNRLPQFQMQGYQLL-LLPLFAQAA-NLH 184
>PF01206#SirA family protein Length = 76 Score = 26.6 bits (59), Expect = 0.004 Identities = 7/22 (31%), Positives = 12/22 (54%) Query: 19 SGKEIEVLSTKPEMRIDISSFC 40 +G+ + V++T P D SF Sbjct: 31 AGEVLYVMATDPGSVKDFESFS 52
>ALARACEMASE#Alanine racemase signature. Length = 356 Score = 32.1 bits (73), Expect = 0.001 Identities = 9/43 (20%), Positives = 16/43 (37%), Gaps = 1/43 (2%) Query: 136 GVMPEETLEIYSQISETCKRLKLKGLMCIGAHADDEKEIEKSF 178 G P+ L ++ Q+ + LM A A+ I + Sbjct: 132 GFQPDRVLTVWQQL-RAMANVGEMTLMSHFAEAEHPDGISGAM 173
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 60.6 bits (147), Expect = 2e-12 Identities = 30/129 (23%), Positives = 50/129 (38%), Gaps = 13/129 (10%) Query: 181 GEVLFLDDSKTARKTLKNHLSKLGFSITEAVDGEDGLNKLEMLFKKYGDNLRKHLKFIIS 240 +L DD R L LS+ G+ + + + +++ Sbjct: 4 ATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIA----------AGDGDLVVT 53 Query: 241 DVEMPKMDGYHFLFKLQKDPRFAYIPVIFNSSICDNYSAEKAKEMGAVAYLVK-FDAEKF 299 DV MP + + L +++K +PV+ S+ +A KA E GA YL K FD + Sbjct: 54 DVVMPDENAFDLLPRIKK--ARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTEL 111 Query: 300 TEEISKILD 308 I + L Sbjct: 112 IGIIGRALA 120
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 57.5 bits (139), Expect = 1e-10 Identities = 22/121 (18%), Positives = 55/121 (45%), Gaps = 4/121 (3%) Query: 683 VLAIDDSSTDRAIIRKCLKPLGITLLEATNGLEGLEMLKNGDKTPDAILVDIEMPKMDGY 742 +L DD + R ++ + L G + +N + G D ++ D+ MP + + Sbjct: 6 ILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAG--DGDLVVTDVVMPDENAF 63 Query: 743 TFASEVRKYNKFKNMPLIAVTSRVTKTDRMRGVESGMTEYITKPYSSEYLMSVVKRSIKL 802 ++K ++P++ ++++ T ++ E G +Y+ KP+ L+ ++ R++ Sbjct: 64 DLLPRIKKAR--PDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAE 121 Query: 803 E 803 Sbjct: 122 P 122
>PF07132#Harpin protein (HrpN) Length = 356 Score = 33.9 bits (77), Expect = 6e-05 Identities = 19/46 (41%), Positives = 32/46 (69%) Query: 36 FLGGAVGAGMGGAMGGMIGALGGPWNAVVGAGIGGGIGAYSGADIG 81 F+G +G G+GG +GG+ +LGG ++G G+GGG+G+ G+ +G Sbjct: 60 FMGSMMGGGLGGGLGGLGSSLGGLGGGLLGGGLGGGLGSSLGSGLG 105 Score = 27.0 bits (59), Expect = 0.015 Identities = 16/49 (32%), Positives = 26/49 (53%) Query: 34 GRFLGGAVGAGMGGAMGGMIGALGGPWNAVVGAGIGGGIGAYSGADIGD 82 G +GG +G G+GG + G GG +G G+G +G+ G+ +G Sbjct: 62 GSMMGGGLGGGLGGLGSSLGGLGGGLLGGGLGGGLGSSLGSGLGSALGG 110
>UREASE#Urea amidohydrolase (urease) protein signature. Length = 570 Score = 988 bits (2556), Expect = 0.0 Identities = 340/570 (59%), Positives = 435/570 (76%), Gaps = 5/570 (0%) Query: 2 KMKKLDYVNTYGPTKGDKVRLGDTEIWAEVEHDYTIYGEELKFGAGKTIREGMGQSN-SH 60 +M + Y N +GPT GDKVRL DTE++ EVE D+T +GEE+KFG GK IR+GMGQS + Sbjct: 4 RMSRAAYANMFGPTVGDKVRLADTELFIEVEKDFTTHGEEVKFGGGKVIRDGMGQSQVTR 63 Query: 61 DENTLDLVITNALIIDYTGIYKADIGIKNGKIAGIGKAGNKDMQDGVSPNLVVGVGTEAL 120 + +D VITNALI+D+ GI KADIG+K+G+IA IGKAGN DMQ GV ++VG GTE + Sbjct: 64 EGGAVDTVITNALILDHWGIVKADIGLKDGRIAAIGKAGNPDMQPGV--TIIVGPGTEVI 121 Query: 121 AGEGMIVTAGGIDSHTHFLSPQQFPTALANGVTTMFGGGTGPVDGTNATTITPGEWNIHR 180 AGEG IVTAGG+DSH HF+ PQQ AL +G+T M GGGTGP GT ATT TPG W+I R Sbjct: 122 AGEGKIVTAGGMDSHIHFICPQQIEEALMSGLTCMLGGGTGPAHGTLATTCTPGPWHIAR 181 Query: 181 MLRAAEEYAMNVGFLGKGNSSSKTQLVEQIEAGVVGFKLHEDWGTTPSAIDTCLSVADEY 240 M+ AA+ + MN+ F GKGN+S LVE + G KLHEDWGTTP+AID CLSVADEY Sbjct: 182 MIEAADAFPMNLAFAGKGNASLPGALVEMVLGGATSLKLHEDWGTTPAAIDCCLSVADEY 241 Query: 241 DVQVCIHTDTVNEAGYVEDTLNAMNGRAIHAYHIEGAGGGHSPDVITMAGEENILPSSTT 300 DVQV IHTDT+NE+G+VEDT+ A+ GR IHAYH EGAGGGH+PD+I + G+ N++PSST Sbjct: 242 DVQVMIHTDTLNESGFVEDTIAAIKGRTIHAYHTEGAGGGHAPDIIRICGQPNVIPSSTN 301 Query: 301 PTIPYTINTVAEHLDMLMTCHHLDKKIREDLQFSQSRIRPGSIAAEDVLHDNGMIAMTSS 360 PT PYT+NT+AEHLDMLM CHHL I ED+ F++SRIR +IAAED+LHD G ++ SS Sbjct: 302 PTRPYTVNTLAEHLDMLMVCHHLSPTIPEDIAFAESRIRKETIAAEDILHDIGAFSIISS 361 Query: 361 DSQAMGRAGEVVPRTWQTADKNKKEFGPLKEDAQNGNDNFRIKRYISKYTINPAITHGVS 420 DSQAMGR GEV RTWQTADK K++ G LKE+ NDNFR+KRYI+KYTINPAI HG+S Sbjct: 362 DSQAMGRVGEVAIRTWQTADKMKRQRGRLKEET-GDNDNFRVKRYIAKYTINPAIAHGLS 420 Query: 421 EYIGSVEAGKIADLVVWNPAFFGVKPKIIIKGGLVVFSEMGDSNASVPTPQPVYYREMFG 480 IGS+E GK ADLV+WNPAFFGVKP +++ GG + + MGD NAS+PTPQPV+YR MFG Sbjct: 421 HEIGSLEVGKRADLVLWNPAFFGVKPDMVLLGGTIAAAPMGDPNASIPTPQPVHYRPMFG 480 Query: 481 HHGKAKFDTSITFVNKLAYEKGIKEKLGLERQVLPIKNVR-NITKKDFKFNNTTGKLTVD 539 +G+++ ++S+TFV++ + + G+ +LG+ ++++ ++N R I K N+ T + VD Sbjct: 481 AYGRSRTNSSVTFVSQASLDAGLAGRLGVAKELVAVQNTRGGIGKASMIHNSLTPHIEVD 540 Query: 540 PKTFEVFLDGKLCTSKPASELPLAQRYTFF 569 P+T+EV DG+L T +PA+ LP+AQRY F Sbjct: 541 PETYEVRADGELLTCEPATVLPMAQRYFLF 570
>LPSBIOSNTHSS#Lipopolysaccharide core biosynthesis protein signature. Length = 166 Score = 46.0 bits (109), Expect = 7e-09 Identities = 23/71 (32%), Positives = 39/71 (54%), Gaps = 4/71 (5%) Query: 11 ALYGGSFDPLHKAHLAIIDQTLELLPFAKLIVLPAYQNPFKKPCFLDAKTRFKELERALK 70 A+Y GSFDP+ HL II++ L F ++ V +NP K+P F + R +++ +A+ Sbjct: 3 AIYPGSFDPITFGHLDIIERGCRL--FDQVYVAVL-RNPNKQPMF-SVQERLEQIAKAIA 58 Query: 71 GMDRVLLSDFE 81 + + FE Sbjct: 59 HLPNAQVDSFE 69
>TONBPROTEIN#Gram-negative bacterial tonB protein signature. Length = 239 Score = 81.6 bits (201), Expect = 2e-20 Identities = 47/189 (24%), Positives = 82/189 (43%), Gaps = 29/189 (15%) Query: 74 DEPKKEAPKKEKKEITKPKPKPKPKPKPKPKPKKEVTKPKPDPKITPKPEPKPEPPKEEP 133 D +A + + + +P+P+P+P P+P + + KPKP PK PKP K + Sbjct: 54 DLEPPQAVQPPPEPVVEPEPEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKVQ------ 107 Query: 134 KEEPKEEVEKEEPKKEEKAKEESTPKEVTTKDAVKDPNKQEESNKTSEGATSEAQAYNPG 193 E+PK +V+ E + E + P +T+ A + TS+ TS A Sbjct: 108 -EQPKRDVKPVESR-PASPFENTAPARLTSSTA---------TAATSKPVTSVASGPRAL 156 Query: 194 VSNEFLMQIQTAISAKNRYPKMAQVRGIEGEVLVSFIINTDGSVTDIKVVKSNTTDILNH 253 N+ +YP AQ IEG+V V F + DG V +++++ + ++ Sbjct: 157 SRNQ------------PQYPARAQALRIEGQVKVKFDVTPDGRVDNVQILSAKPANMFER 204 Query: 254 AALEAIKNA 262 A++ Sbjct: 205 EVKNAMRRW 213
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 58.0 bits (140), Expect = 7e-12 Identities = 14/43 (32%), Positives = 26/43 (60%) Query: 219 LELSNVRLVEEMTDLITAQRAYEANSKSIQTADAMLQTVNSLK 261 +S V L EE +L Q+ Y AN++ +QTA+A+ + +++ Sbjct: 504 QSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALINIR 546 Score = 50.3 bits (120), Expect = 3e-09 Identities = 12/35 (34%), Positives = 21/35 (60%) Query: 4 SLYSATSGMLAQQTHIDTTSNNIANVNTTGFKKSR 38 + +A SG+ A Q ++T SNNI++ N G+ + Sbjct: 3 LINNAMSGLNAAQAALNTASNNISSYNVAGYTRQT 37
>PREPILNPTASE#Type IV prepilin cysteine protease (C20) family signature. Length = 290 Score = 28.6 bits (64), Expect = 0.015 Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 2/40 (5%) Query: 1 MIYMLAVFFPWLAFLLRGRIFSAIFSFILWVILC-LPIIL 39 ++ LA PWL F L +FS + L V++ LPI+L Sbjct: 3 LLLELAHGLPWLYFSLVF-LFSLMIGSFLNVVIHRLPIML 41 Database: VIFASCDB Posted date: Jun 1, 2014 9:04 PM Number of letters in database: 79,683 Number of sequences in database: 213 Lambda K H 0.321 0.139 0.412 Gapped Lambda K H 0.267 0.0533 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 213 Number of Hits to DB: 62,522,964 Number of extensions: 2847047 Number of successful extensions: 11565 Number of sequences better than 5.0e-02: 355 Number of HSP's gapped: 10807 Number of HSP's successfully gapped: 810 Length of database: 79,683 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 17 ( 7.9 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits)