PredictBias

		>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.

		          Length = 1541

		

		 Score = 31.6 bits (71), Expect = 0.013

		 Identities = 23/109 (21%), Positives = 38/109 (34%), Gaps = 2/109 (1%)

		

		Query: 189  NDLKALERRAALKNKTSSSEFEAARSHLETLADQVKVLERALQTLTQEKASAQNAVEQAQ 248

		            N   A E ++ +K  T ++E   A+S  ET   Q    +       +EKA  +    Q  

		Sbjct: 1065 NREVAKEAKSNVKANTQTNE--VAQSGSETKETQTTETKETATVEKEEKAKVETEKTQEV 1122

		

		Query: 249  STLDKFANTAQRQGLEAYQQAAALRNADETTRARVQEIRASLAEAISDP 297

		              +    +  Q Q      QA   R  D T   +  + + +       P

		Sbjct: 1123 PKVTSQVSPKQEQSETVQPQAEPARENDPTVNIKEPQSQTNTTADTEQP 1171

		

		

		>TYPE3IMRPROT#Type III secretion system inner membrane R protein

		           family signature.

		          Length = 261

		

		 Score =  157 bits (399), Expect = 2e-49

		 Identities = 118/256 (46%), Positives = 168/256 (65%), Gaps = 1/256 (0%)

		

		Query: 1   MFSVTYAQLNGWLTAFLWPFVRMLALVATAPVVGHAAVPVRVKIGIAAFMALVVAPTLGA 60

		           M  VT  Q   WL  + WP +R+LAL++TAP++   +VP RVK+G+A  +   +AP+L A

		Sbjct: 1   MLQVTSEQWLSWLNLYFWPLLRVLALISTAPILSERSVPKRVKLGLAMMITFAIAPSLPA 60

		

		Query: 61  MPDVTVFSAPGIWIVVTQFLIGVALGFTMQLVFAAVEAAGDFIGLSMGLGFATFFDPHSN 120

		             DV VFS   +W+ V Q LIG+ALGFTMQ  FAAV  AG+ IGL MGL FATF DP S+

		Sbjct: 61  -NDVPVFSFFALWLAVQQILIGIALGFTMQFAFAAVRTAGEIIGLQMGLSFATFVDPASH 119

		

		Query: 121 GATPVMGRFLNAIAMLAFLAVDGHLQVFAALAASFQTLPVSGDLLHAPGWRTLAAFGATV 180

		              PV+ R ++ +A+L FL  +GHL + + L  +F TLP+ G+ L++  +  L   G+ +

		Sbjct: 120 LNMPVLARIMDMLALLLFLTFNGHLWLISLLVDTFHTLPIGGEPLNSNAFLALTKAGSLI 179

		

		Query: 181 FEMGLLLALPVVAALLIANLALGILNRAAPQIGIFQIGFPVTMLVGLLLVQLMIPNLVPF 240

		           F  GL+LALP++  LL  NLALG+LNR APQ+ IF IGFP+T+ VG+ L+  ++P + PF

		Sbjct: 180 FLNGLMLALPLITLLLTLNLALGLLNRMAPQLSIFVIGFPLTLTVGISLMAALMPLIAPF 239

		

		Query: 241 VSHLFDMGLDTMGRVL 256

		             HLF    + +  ++

		Sbjct: 240 CEHLFSEIFNLLADII 255

		

		

		>TYPE3IMQPROT#Type III secretion system inner membrane Q protein

		          family signature.

		          Length = 86

		

		 Score = 65.9 bits (161), Expect = 4e-18

		 Identities = 28/85 (32%), Positives = 44/85 (51%)

		

		Query: 4  EQVMTLAHQAMMVGLLLAAPLLLVALAVGLVVSLFQAATQINESTLSFIPKLLAVAATLV 63

		          + ++   ++A+ + L+L+    +VA  +GL+V LFQ  TQ+ E TL F  KLL V   L 

		Sbjct: 2  DDLVFAGNKALYLVLILSGWPTIVATIIGLLVGLFQTVTQLQEQTLPFGIKLLGVCLCLF 61

		

		Query: 64 IAGPWMLTTMLDYLRQTLLHVATLG 88

		          +   W    +L Y RQ +      G

		Sbjct: 62 LLSGWYGEVLLSYGRQVIFLALAKG 86

		

		

		>FLGBIOSNFLIP#Escherichia coli: Flagellar biosynthetic protein FliP

		           signature.

		          Length = 245

		

		 Score =  290 bits (745), Expect = e-102

		 Identities = 153/247 (61%), Positives = 196/247 (79%), Gaps = 4/247 (1%)

		

		Query: 6   LRRAARFAPALILGLAPALACAQAAGLPAFNTSPGPNGGTTYSLSVQTMLLLTMLSFLPA 65

		           +RR    AP L+  + P       A LP   + P P GG ++SL VQT++ +T L+F+PA

		Sbjct: 1   MRRLLSVAPVLLWLITPLAF----AQLPGITSQPLPGGGQSWSLPVQTLVFITSLTFIPA 56

		

		Query: 66  MLLMMTSFTRIIIVLSLLRQALGTATTPPNQVLVGLAMFLTFFVMSPVLDRAYADGYKPF 125

		           +LLMMTSFTRIIIV  LLR ALGT + PPNQVL+GLA+FLTFF+MSPV+D+ Y D Y+PF

		Sbjct: 57  ILLMMTSFTRIIIVFGLLRNALGTPSAPPNQVLLGLALFLTFFIMSPVIDKIYVDAYQPF 116

		

		Query: 126 SDGSMPMEQAVRRGVAPFKTFMLKQTRETDLALFAKISKAAPMQGPEDVPLSLLVPAFVT 185

		           S+  + M++A+ +G  P + FML+QTRE DL LFA+++   P+QGPE VP+ +L+PA+VT

		Sbjct: 117 SEEKISMQEALEKGAQPLREFMLRQTREADLGLFARLANTGPLQGPEAVPMRILLPAYVT 176

		

		Query: 186 SELKTGFQIGFTIFIPFLIIDMVVASVLMSMGMMMVSPSTVSLPFKLMLFVLVDGWQLLI 245

		           SELKT FQIGFTIFIPFLIID+V+ASVLM++GMMMV P+T++LPFKLMLFVLVDGWQLL+

		Sbjct: 177 SELKTAFQIGFTIFIPFLIIDLVIASVLMALGMMMVPPATIALPFKLMLFVLVDGWQLLV 236

		

		Query: 246 GSLAQSF 252

		           GSLAQSF

		Sbjct: 237 GSLAQSF 243

		

		

		>FLGMOTORFLIN#Flagellar motor switch protein FliN signature.

		          Length = 137

		

		 Score =  134 bits (339), Expect = 2e-43

		 Identities = 76/132 (57%), Positives = 99/132 (75%), Gaps = 3/132 (2%)

		

		Query: 33  AAEDEQGLDD-WAAALAEQNLQPVQAGATGAGVFQPLSKAAASSTHNDIEMILDIPVKMT 91

		           + E+   LDD WA AL EQ     ++ A    VFQ L     S    DI++I+DIPVK+T

		Sbjct: 8   SDENTGALDDLWADALNEQKATTTKSAADA--VFQQLGGGDVSGAMQDIDLIMDIPVKLT 65

		

		Query: 92  VELGRTKIAIRNLLQLAQGSVVELDGMAGEPMDVLVNGCLIAQGEVVVVNDKFGIRLTDI 151

		           VELGRT++ I+ LL+L QGSVV LDG+AGEP+D+L+NG LIAQGEVVVV DK+G+R+TDI

		Sbjct: 66  VELGRTRMTIKELLRLTQGSVVALDGLAGEPLDILINGYLIAQGEVVVVADKYGVRITDI 125

		

		Query: 152 ITPAERIRKLNR 163

		           ITP+ER+R+L+R

		Sbjct: 126 ITPSERMRRLSR 137

		

		

		>FLGMOTORFLIM#Flagellar motor switch protein FliM signature.

		          Length = 344

		

		 Score =  271 bits (695), Expect = 8e-92

		 Identities = 80/324 (24%), Positives = 158/324 (48%), Gaps = 10/324 (3%)

		

		Query: 5   EFMSQEEVDALLKGV-TGETDTVDEQ--RDLSGVRPYNIATQERIVRGRMPGLEIINDRF 61

		           E +SQ+E+D LL  + +G+    D +   D   +  Y+    ++  + +M  L ++++ F

		Sbjct: 3   EVLSQDEIDQLLTAISSGDASIEDARPISDTRKITLYDFRRPDKFSKEQMRTLSLMHETF 62

		

		Query: 62  ARLLRIGIFNFMRRTAEISVSQVKVQKYSEFTRNLPIPTNLNLVHVKPLRGTSLFVFDPN 121

		           ARL    +   +R    + V+ V    Y EF R++P P+ L ++ + PL+G ++   DP+

		Sbjct: 63  ARLTTTSLSAQLRSMVHVHVASVDQLTYEEFIRSIPTPSTLAVITMDPLKGNAVLEVDPS 122

		

		Query: 122 LVFFVVDNLFGGDGRFHTRVEGRDFTATEQRIIGKLLNLVFEHYATAWKSVRPLQFEFVR 181

		           + F ++D LFGG G+       RD T  E  ++  ++  +  +   +W  V  L+    +

		Sbjct: 123 ITFSIIDRLFGGTGQAAKVQ--RDLTDIENSVMEGVIVRILANVRESWTQVIDLRPRLGQ 180

		

		Query: 182 SEMHTQFANVATPNEIVIVTQFSIEFGPTGGTLHICMPYSMIEPIRDVLSSPIQGEAL-- 239

		            E + QFA +  P+E+V++     + G   G ++ C+PY  IEPI   LSS     ++  

		Sbjct: 181 IETNPQFAQIVPPSEMVVLVTLETKVGEEEGMMNFCIPYITIEPIISKLSSQFWFSSVRR 240

		

		Query: 240 EVDRRWVRVLSQQVQSAEVELSANLAEIPSTFEKILNLRAGDVLPLE---IEDTITAKVD 296

		               +++ VL  ++ + ++++ A +  +  +   IL LR GD++ L    + D     + 

		Sbjct: 241 SSTTQYMGVLRDKLSTVDMDVVAEVGSLRLSVRDILGLRVGDIIRLHDTHVGDPFVLSIG 300

		

		Query: 297 GVPVMECGYGIFNGQYALRVQKMI 320

		                 C  G+   + A ++ + I

		Sbjct: 301 NRKKFLCQPGVVGKKIAAQILERI 324

		

		

		>TCRTETB#Tetracycline resistance protein TetB signature.

		          Length = 458

		

		 Score =  120 bits (302), Expect = 2e-31

		 Identities = 83/398 (20%), Positives = 161/398 (40%), Gaps = 16/398 (4%)

		

		Query: 30  LALGTFMEVLDTSIANVAVPTISGSLGVATSEGTWVISSYSVASAIAVPLTGWLARRVGE 89

		           L + +F  VL+  + NV++P I+       +   WV +++ +  +I   + G L+ ++G 

		Sbjct: 19  LCILSFFSVLNEMVLNVSLPDIANDFNKPPASTNWVNTAFMLTFSIGTAVYGKLSDQLGI 78

		

		Query: 90  VRLFTLSVLAFTIASALCGLA-SNFETLIAFRLLQGLVSGPMVPLSQTILMRSYPPAKRG 148

		            RL    ++     S +  +  S F  LI  R +QG  +     L   ++ R  P   RG

		Sbjct: 79  KRLLLFGIIINCFGSVIGFVGHSFFSLLIMARFIQGAGAAAFPALVMVVVARYIPKENRG 138

		

		Query: 149 LALGLWAMTVIVAPIFGPLLGGWISDNYTWPWIFYINLPIGIFSAACAYFLLRGRETKTS 208

		            A GL    V +    GP +GG I+    W ++  I +   I        L   ++    

		Sbjct: 139 KAFGLIGSIVAMGEGVGPAIGGMIAHYIHWSYLLLIPMITIITVPFLMKLL---KKEVRI 195

		

		Query: 209 RQRIDAVGLALLVIGVSCLQMMLDLGKDRDWFNSTFIVALALIAVVSLAFMLVWEATEKE 268

		           +   D  G+ L+ +G+    +          F +++ ++  +++V+S    +       +

		Sbjct: 196 KGHFDIKGIILMSVGIVFFML----------FTTSYSISFLIVSVLSFLIFVKHIRKVTD 245

		

		Query: 269 PVVDLSLFKDRNFALGAMIISFGFMAFFGSVVIFPLWLQTVMGYTAGKAGLATA-PVGLL 327

		           P VD  L K+  F +G +     F    G V + P  ++ V   +  + G     P  + 

		Sbjct: 246 PFVDPGLGKNIPFMIGVLCGGIIFGTVAGFVSMVPYMMKDVHQLSTAEIGSVIIFPGTMS 305

		

		Query: 328 ALVLSPLIGRNMHRLDLRMVASFAFIVFAGVSVWNSTFTLDVPFNHVILPRLVQGIGVAC 387

		            ++   + G  + R     V +   + F  VS   ++F L+     + +  +    G++ 

		Sbjct: 306 VIIFGYIGGILVDRRGPLYVLNIG-VTFLSVSFLTASFLLETTSWFMTIIIVFVLGGLSF 364

		

		Query: 388 FFVPMTTITLSSISDERLASASGLSNFLRTLSGAIGTA 425

		               ++TI  SS+  +   +   L NF   LS   G A

		Sbjct: 365 TKTVISTIVSSSLKQQEAGAGMSLLNFTSFLSEGTGIA 402

		

		

		>BCTERIALGSPG#Bacterial general secretion pathway protein G

		          signature.

		          Length = 145

		

		 Score = 36.8 bits (85), Expect = 2e-05

		 Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 5/62 (8%)

		

		Query: 11 SRRVRGFTLIELMIAIAILAVVAILAWRGLDQIMRGRDK--VASAMEDERVFAQMFDQMR 68

		          + + RGFTL+E+M+ I I+ V+A L    +  +M  ++K     A+ D        D  +

		Sbjct: 4  TDKQRGFTLLEIMVVIVIIGVLASLV---VPNLMGNKEKADKQKAVSDIVALENALDMYK 60

		

		Query: 69 ID 70

		          +D

		Sbjct: 61 LD 62

		

		

		>FLGMOTORFLIN#Flagellar motor switch protein FliN signature.

		          Length = 137

		

		 Score = 26.8 bits (59), Expect = 0.035

		 Identities = 25/85 (29%), Positives = 42/85 (49%), Gaps = 5/85 (5%)

		

		Query: 5   ATIARPYAEALFRVAEGGDIAAWSTLVQELAQVARLPEVLSVASSPKVTRTQVVELLLAA 64

		           AT  +  A+A+F+   GGD+   S  +Q++  +  +P  L+V      TR  + ELL   

		Sbjct: 28  ATTTKSAADAVFQQLGGGDV---SGAMQDIDLIMDIPVKLTVELGR--TRMTIKELLRLT 82

		

		Query: 65  VKSPVAAGAEAKNFVQMLVDNHRIA 89

		             S VA    A   + +L++ + IA

		Sbjct: 83  QGSVVALDGLAGEPLDILINGYLIA 107

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 84.9 bits (210), Expect = 1e-22

		 Identities = 36/120 (30%), Positives = 61/120 (50%), Gaps = 2/120 (1%)

		

		Query: 4   TILAIDDSATMRALLQATLAQAGYDVTVAPDGEAGFDMAATVPYDLVLTDQNMPRRSGLE 63

		           TIL  DD A +R +L   L++AGYDV +  +    +   A    DLV+TD  MP  +  +

		Sbjct: 5   TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64

		

		Query: 64  VIAALRKLSAYADTPILVLTTEGSDAFKDAAREAGATGWIEKPIDPAVLVDLVATLSEQT 123

		           ++  ++K  A  D P+LV++ + +      A E GA  ++ KP D   L+ ++     + 

		Sbjct: 65  LLPRIKK--ARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEP 122

		

		

		>PF06580#Sensor histidine kinase

		          Length = 349

		

		 Score = 46.8 bits (111), Expect = 2e-07

		 Identities = 21/151 (13%), Positives = 49/151 (32%), Gaps = 52/151 (34%)

		

		Query: 445 ELDKSLIERIIDPLT--HLVRNSLDHGIETVDKRIAAGKDAVGQLVLSAAHHGGNIVIEV 502

		           +++ ++++  + P+    LV N + HGI              G+++L      G + +EV

		Sbjct: 245 QINPAIMDVQVPPMLVQTLVENGIKHGIA--------QLPQGGKILLKGTKDNGTVTLEV 296

		

		Query: 503 SDDGGGLNRERILAKAAKQGMQVSDNISDDEVWQLIFAPGFSTAETVTDVSGRGVGMDVV 562

		            + G    +                                            G G+  V

		Sbjct: 297 ENTGSLALKNTK--------------------------------------ESTGTGLQNV 318

		

		Query: 563 KRNIQSMGG---HVEISSQAGRGTTTRIVLP 590

		           +  +Q + G    +++S + G      +++P

		Sbjct: 319 RERLQMLYGTEAQIKLSEKQG-KVNAMVLIP 348

		

		

		>OMS28PORIN#OMS28 porin signature.

		          Length = 257

		

		 Score = 30.5 bits (68), Expect = 0.017

		 Identities = 43/197 (21%), Positives = 86/197 (43%), Gaps = 14/197 (7%)

		

		Query: 296 EQAASLQETASSMEQLTGTVRQNAENARQASQLAVNASDIATQGGDVVGQVVSTMQDIAA 355

		           +Q   + +   ++ ++T  V    E  R++S   V ++D A      VG + S M D+A 

		Sbjct: 51  DQKDQVNQALDTINKVTEDVSSKLEGVRESSLELVESND-AGVVKKFVGSM-SLMSDVAK 108

		

		Query: 356 SS---GKVVDIIGTIEGIAFQTNILALNAAVEAARAGEQGRGFAV-VAGEVRSLAQR--- 408

		            +    +   I+    G+  +      N  VE ++   Q    AV VAGE   L ++   

		Sbjct: 109 GTVVASQEATIVAKCSGMVAE----GANKVVEMSKKAVQETQKAVSVAGEATFLIEKQIM 164

		

		Query: 409 -SASAAKEIKQLIGDSAEKVESGSALVARAGSTMDEIVQAVRRVTDIMGEISAASDEQST 467

		            + S   +  +L  +   KVE     +  +   +DE VQ  ++V +++  ++ ++ +Q  

		Sbjct: 165 LNKSPNNKELELTKEEFAKVEQVKETLMASERALDETVQEAQKVLNMVNGLNPSNKDQVL 224

		

		Query: 468 GIEQVNRAVGQMDSVTQ 484

		             + V +A+  +  V Q

		Sbjct: 225 AKKDVAKAISNVVKVAQ 241

		

		

		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D

		           signature.

		          Length = 478

		

		 Score = 56.8 bits (137), Expect = 6e-11

		 Identities = 25/189 (13%), Positives = 60/189 (31%), Gaps = 22/189 (11%)

		

		Query: 9   LKIDRRPIAPAPRRRRWVRYAVAAVLVIIAIAAALALTGRPTVDTTSVTSAYPYQNDTQL 68

		           L++   P++  PR   +       +  I+++   +                     +   

		Sbjct: 46  LELIETPVSRRPRLVAYFIMGFLVIAFILSVLGQV---------------------EIVA 84

		

		Query: 69  NATGYVVPQ-RKAAVASKGQGRVEWLGVLEGTRVKKGEIIARLESRDVEASLAQARAQVL 127

		            A G +    R   +       V+ + V EG  V+KG+++ +L +   EA   + ++ +L

		Sbjct: 85  TANGKLTHSGRSKEIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLL 144

		

		Query: 128 VSRANLGVAQAELKDAQIALRRTAVLAPKGAVPAAQLDTDTARANKARATLGSDQAAIAS 187

		            +R      Q   +  ++       L  +        +      +  +    + Q     

		Sbjct: 145 QARLEQTRYQILSRSIELNKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQ 204

		

		Query: 188 AEANAQAAQ 196

		            E N    +

		Sbjct: 205 KELNLDKKR 213

		

		

		

		 Score = 51.0 bits (122), Expect = 4e-09

		 Identities = 44/220 (20%), Positives = 72/220 (32%), Gaps = 64/220 (29%)

		

		Query: 116 EASLAQARAQVLVSRANLGVAQAELKDAQIALRRTAVLAPKGAVPAAQLDTDTARANKAR 175

		           E +L + RA+ L   A +   +   +  +  L   + L  K A+    +     +  +A 

		Sbjct: 206 ELNLDKKRAERLTVLARINRYENLSRVEKSRLDDFSSLLHKQAIAKHAVLEQENKYVEAV 265

		

		Query: 176 ATLGSDQAAIASAEANAQAAQVAVDQ---------------------------------- 201

		             L   ++ +   E+   +A+                                       

		Sbjct: 266 NELRVYKSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDNIGLLTLELAKNEERQ 325

		

		Query: 202 --TVIRAPFDGIV--LAKHANVGDNITPFSSASDSKGAVVTIA--------DMDTLEVEA 249

		             +VIRAP    V  L  H               ++G VVT A        + DTLEV A

		Sbjct: 326 QASVIRAPVSVKVQQLKVH---------------TEGGVVTTAETLMVIVPEDDTLEVTA 370

		

		Query: 250 DVAESNIAKIRAEQPCEIQLDALPDMRF---AGRVSRIVP 286

		            V   +I  I   Q   I+++A P  R+    G+V  I  

		Sbjct: 371 LVQNKDIGFINVGQNAIIKVEAFPYTRYGYLVGKVKNINL 410

		

		

		>V8PROTEASE#V8 serine protease family signature.

		          Length = 336

		

		 Score = 68.5 bits (167), Expect = 7e-15

		 Identities = 33/183 (18%), Positives = 63/183 (34%), Gaps = 38/183 (20%)

		

		Query: 116 NLGSGVIVSPEGYILTNQHVVDGADQIEVALA------------DGRTATAKVIGSDPET 163

		            + SGV+V     +LTN+HVVD       AL             +G     ++     E 

		Sbjct: 102 FIASGVVVGK-DTLLTNKHVVDATHGDPHALKAFPSAINQDNYPNGGFTAEQITKYSGEG 160

		

		Query: 164 DLAVLKIN--------MTNLPTITLGRSDQSRVGDVVLAIGNPFGVGQTVTMGIISALGR 215

		           DLA++K +           +   T+  + +++V   +   G P           ++ +  

		Sbjct: 161 DLAIVKFSPNEQNKHIGEVVKPATMSNNAETQVNQNITVTGYPGD-------KPVATMWE 213

		

		Query: 216 NHLGINTFEN-FIQTDAPINPGNSGGALVDVNGNLLGINTAIYSRSGGSLGIGFAIPVST 274

		           +   I   +   +Q D     GNSG  + +    ++GI+           G+      + 

		Sbjct: 214 SKGKITYLKGEAMQYDLSTTGGNSGSPVFNEKNEVIGIHWG---------GVPNEFNGAV 264

		

		Query: 275 ART 277

		              

		Sbjct: 265 FIN 267

		

		

		>PF05860#haemagglutination activity domain.

		          Length = 117

		

		 Score = 66.4 bits (162), Expect = 1e-14

		 Identities = 25/134 (18%), Positives = 47/134 (35%), Gaps = 21/134 (15%)

		

		Query: 39  ITPDRSGPTHPVVGVSASGVPLVNITAPKNGVSLNNFTQYNVGTKGAVLVNSGQNLQTQL 98

		           ITPD + P +  +  +     ++           ++F +++V T G              

		Sbjct: 3   ITPDTTLPINSNI-TTEGNTRIIERGTQAGSNLFHSFQEFSVPTSGTAF----------- 50

		

		Query: 99  AGWVQGNPFLGNNAARVIVNQVTSGNPSQLLGPTEIAGNRANLVIANPAGITCAGCGFLN 158

		                   F      + I+++VT G+ S + G    A   ANL + NP GI       L+

		Sbjct: 51  --------FNNPTNIQNIISRVTGGSVSNIDGLIR-ANATANLFLINPNGIIFGQNARLD 101

		

		Query: 159 VPRVTLTTGVPTFN 172

		           +    + +      

		Sbjct: 102 IGGSFVGSTANRLK 115

		

		

		>RTXTOXINA#Gram-negative bacterial RTX toxin determinant A family

		            signature.

		          Length = 1024

		

		 Score = 38.0 bits (88), Expect = 3e-04

		 Identities = 30/142 (21%), Positives = 55/142 (38%), Gaps = 25/142 (17%)

		

		Query: 915  SPEAAQAAASGQLASQLQGMAPAATTA---AMGLVSGGSAGAALGGLASSALPAAASALG 971

		            +    +AAA  +L +++ G      +    A     G S  AA  GL +SA+  A S L 

		Sbjct: 263  ADTRTKAAAGVELTTKVLGNVGKGISQYIIAQRAAQGLSTSAAAAGLIASAVTLAISPLS 322

		

		Query: 972  GAGAASALQTASSLSGAAKQV-----------------AGMVQAARQG---GLAALAAPA 1011

		                A   + A+ +   +++                   G + A+       LA++++  

		Sbjct: 323  FLSIADKFKRANKIEEYSQRFKKLGYDGDSLLAAFHKETGAIDASLTTISTVLASVSSGI 382

		

		Query: 1012 ANAASGALQGALPG--VAGIAG 1031

		            + AA+ +L GA     V  + G

		Sbjct: 383  SAAATTSLVGAPVSALVGAVTG 404

		

		

		>OMPADOMAIN#OMPA domain signature.

		          Length = 346

		

		 Score = 93.8 bits (233), Expect = 5e-24

		 Identities = 37/112 (33%), Positives = 59/112 (52%), Gaps = 11/112 (9%)

		

		Query: 214 FETGSATLTPQGRQILDQMAAALS--KLQNRTVDIIGHTDNSGNRTSNIALSQARADAVK 271

		           F    ATL P+G+  LDQ+ + LS    ++ +V ++G+TD  G+   N  LS+ RA +V 

		Sbjct: 223 FNFNKATLKPEGQAALDQLYSQLSNLDPKDGSVVVLGYTDRIGSDAYNQGLSERRAQSVV 282

		

		Query: 272 GYLITKSIPPQQMTTTGVGPDQPIAPNDTAEGRAR---------NRRIEFRV 314

		            YLI+K IP  +++  G+G   P+  N     + R         +RR+E  V

		Sbjct: 283 DYLISKGIPADKISARGMGESNPVTGNTCDNVKQRAALIDCLAPDRRVEIEV 334

		

		

		>ARGREPRESSOR#Bacterial arginine repressor signature.

		          Length = 149

		

		 Score = 37.5 bits (87), Expect = 1e-05

		 Identities = 24/109 (22%), Positives = 41/109 (37%), Gaps = 6/109 (5%)

		

		Query: 3   RRADRLFQIAELLRGRRLTTAQQLADWL-----SVSPRTVYRDVRDLQLSGVPIEGEAGI 57

		            +  R  +I E++    + T  +L D L     +V+  TV RD+++L L  VP    +  

		Sbjct: 2   NKGQRHIKIREIITANEIETQDELVDILKKDGYNVTQATVSRDIKELHLVKVPTNNGSYK 61

		

		Query: 58  GYRLNRNASLPPLTFTAEELAALAVGARMLETWGGARFAGGARSALAKI 106

		            Y L  +    PL+     L    V           +   G   A+  +

		Sbjct: 62  -YSLPADQRFNPLSKLKRSLMDAFVKIDSASHLIVLKTMPGNAQAIGAL 109

		

		

		>OMPADOMAIN#OMPA domain signature.

		          Length = 346

		

		 Score = 95.8 bits (238), Expect = 3e-26

		 Identities = 25/105 (23%), Positives = 48/105 (45%), Gaps = 5/105 (4%)

		

		Query: 64  SIYFDFDSYSVKDEYQPLMQQHAQYLKSHPQRH--VLIQGNTDERGTSEYNLALGQKRAE 121

		            + F+F+  ++K E Q  + Q    L +   +   V++ G TD  G+  YN  L ++RA+

		Sbjct: 220 DVLFNFNKATLKPEGQAALDQLYSQLSNLDPKDGSVVVLGYTDRIGSDAYNQGLSERRAQ 279

		

		Query: 122 AVRRAMALLGVNDSQMEAVSLGKEKPQASGHDEASWAQNRRADLV 166

		           +V   +   G+   ++ A  +G+  P             +RA L+

		Sbjct: 280 SVVDYLISKGIPADKISARGMGESNPVTG---NTCDNVKQRAALI 321

		

		

		>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.

		          Length = 1541

		

		 Score = 56.6 bits (136), Expect = 9e-11

		 Identities = 30/196 (15%), Positives = 70/196 (35%), Gaps = 13/196 (6%)

		

		Query: 49   STPAGAEAELWTEVPDVPAPRPVVTPTPPAKLAPPPPPVRDEQADIALQQKKRQQEAAAR 108

		            +T       +  +VP VP+    +     A + PP P    E  +   +  K++ +   +

		Sbjct: 994  TTNITTPNNIQADVPSVPSNNEEIARVDEAPVPPPAPATPSETTETVAENSKQESKTVEK 1053

		

		Query: 109  EALLEQQRRAQQLKAQQ----EEARREQLAAQQAAALAAQKAAERDKQKQADKLKQQQLV 164

		                  ++ A +  AQ     +EA+    A  Q   +A   +  ++ Q    K       

		Sbjct: 1054 -----NEQDATETTAQNREVAKEAKSNVKANTQTNEVAQSGSETKETQTTETKETATVEK 1108

		

		Query: 165  E-QQKLEQQKAQQQKQQQQKQAQLEAQEAAKAKADAAAKAKAESQAKAKAEAAARAKADA 223

		            E + K+E    ++ ++  +  +Q+  ++         A+   E+      +         

		Sbjct: 1109 EEKAKVE---TEKTQEVPKVTSQVSPKQEQSETVQPQAEPARENDPTVNIKEPQSQTNTT 1165

		

		Query: 224  AAKAKLDRERNARLAQ 239

		            A   +  +E ++ + Q

		Sbjct: 1166 ADTEQPAKETSSNVEQ 1181

		

		

		

		 Score = 42.7 bits (100), Expect = 2e-06

		 Identities = 27/150 (18%), Positives = 52/150 (34%), Gaps = 12/150 (8%)

		

		Query: 97   QQKKRQQEAAAREALLEQQRRAQQLKAQQEEARREQLAAQQAAALAAQKAAERDKQKQAD 156

		            + +KR Q             +A            E++A    A +     A   +  +  

		Sbjct: 984  EVEKRNQTVDTTNITTPNNIQADVPSVPS---NNEEIARVDEAPVPPPAPATPSETTETV 1040

		

		Query: 157  KLKQQQLVEQQKLEQQKAQQQKQQQQKQAQLEAQEAAKAKADAAAKAK-----AESQAKA 211

		                +Q  +  +  +Q A +   Q ++ A  EA+   KA       A+      E+Q   

		Sbjct: 1041 AENSKQESKTVEKNEQDATETTAQNREVA-KEAKSNVKANTQTNEVAQSGSETKETQTTE 1099

		

		Query: 212  KAEAAARAKADAAAKAKLDRERNARLAQMQ 241

		              E A   K +   KAK++ E+   + ++ 

		Sbjct: 1100 TKETATVEKEE---KAKVETEKTQEVPKVT 1126

		

		

		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase

		           signature.

		          Length = 261

		

		 Score = 85.9 bits (212), Expect = 3e-22

		 Identities = 51/180 (28%), Positives = 84/180 (46%), Gaps = 4/180 (2%)

		

		Query: 2   IVFVTGASAGFGAAIARAFVKGGHRVVATARRKDRLDAL-AAELGDALLP--FELDVRDR 58

		           I F+TGA+ G G A+AR     G  + A     ++L+ + ++   +A     F  DVRD 

		Sbjct: 10  IAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAFPADVRDS 69

		

		Query: 59  TAVEAVPAVLPAEFAALDVLVNNAGLALGVEPAHKASLDEWQTMIDTNCSGLVTVTHALL 118

		            A++ + A +  E   +D+LVN AG+ L     H  S +EW+     N +G+   + ++ 

		Sbjct: 70  AAIDEITARIEREMGPIDILVNVAGV-LRPGLIHSLSDEEWEATFSVNSTGVFNASRSVS 128

		

		Query: 119 PGMIARGRGHIFNLGSVAGTYPYPGGNVYGATKAFVRQFSLNLRADLIGTPLRVTDIEPG 178

		             M+ R  G I  +GS     P      Y ++KA    F+  L  +L    +R   + PG

		Sbjct: 129 KYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCNIVSPG 188

		

		

		>BCTERIALGSPG#Bacterial general secretion pathway protein G

		          signature.

		          Length = 145

		

		 Score = 27.2 bits (60), Expect = 0.026

		 Identities = 10/23 (43%), Positives = 14/23 (60%)

		

		Query: 17 GFTLVELMVAIALAGSIGLFAAP 39

		          GFTL+E+MV I + G +     P

		Sbjct: 9  GFTLLEIMVVIVIIGVLASLVVP 31

		

		

		>PRTACTNFAMLY#Pertactin virulence factor family signature.

		          Length = 910

		

		 Score = 28.5 bits (63), Expect = 0.011

		 Identities = 31/104 (29%), Positives = 43/104 (41%), Gaps = 7/104 (6%)

		

		Query: 7   SMRGTSLLEAVLAVALLAVVMLAVAGSQLAMTRAQRATIWRERALWLADARIERRYA-AA 65

		           ++       A  AV++L    L + G  +   RA      +   + L  A I R  A A 

		Sbjct: 207 NVTAVPASGAPAAVSVLGASELTLDGGHITGGRAAGVAAMQGAVVHLQRATIRRGDAPAG 266

		

		Query: 66  GADDGIAALVVALLPGGAMTLDHGPGGVRYVIVGWRGAGATVST 109

		           GA  G A       PGGA+    GPGG   V+ GW G   + S+

		Sbjct: 267 GAVPGGAV------PGGAVPGGFGPGGFGPVLDGWYGVDVSGSS 304

		

		

		>BCTERIALGSPG#Bacterial general secretion pathway protein G

		          signature.

		          Length = 145

		

		 Score = 38.7 bits (90), Expect = 1e-06

		 Identities = 16/55 (29%), Positives = 29/55 (52%)

		

		Query: 7  MRRVAAFTLLELMIVLAIVAVLAGWGIPSYREHVARMHRASAVAALYRAAQYLEM 61

		            +   FTLLE+M+V+ I+ VLA   +P+   +  +  +  AV+ +      L+M

		Sbjct: 4  TDKQRGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQKAVSDIVALENALDM 58

		

		

		>UREASE#Urea amidohydrolase (urease) protein signature.

		          Length = 570

		

		 Score = 30.5 bits (69), Expect = 0.016

		 Identities = 21/84 (25%), Positives = 33/84 (39%), Gaps = 21/84 (25%)

		

		Query: 19  RQADVFVADGKIAALG-----------TTPAGFNAEKTIDASGLIVAPGLVDLCARLREP 67

		            +AD+ + DG+IAA+G           T   G   E  I   G IV  G +D       P

		Sbjct: 84  VKADIGLKDGRIAAIGKAGNPDMQPGVTIIVGPGTE-VIAGEGKIVTAGGMDSHIHFICP 142

		

		Query: 68  GYEHKATLASEMAAAVAGGVTTLV 91

		                     ++  A+  G+T ++

		Sbjct: 143 ---------QQIEEALMSGLTCML 157

		

		

		>NUCEPIMERASE#Nucleotide sugar epimerase signature.

		          Length = 334

		

		 Score =  178 bits (454), Expect = 1e-55

		 Identities = 90/350 (25%), Positives = 136/350 (38%), Gaps = 43/350 (12%)

		

		Query: 2   ILVTGGAGFIGANFVLDWLRQSDEAVLNVDKLT--YAGNLRTL-QSLDGSPKHVFVRADI 58

		            LVTG AGFIG +     L    + V+ +D L   Y  +L+     L   P   F + D+

		Sbjct: 3   YLVTGAAGFIGFHVSKRLLEAGHQ-VVGIDNLNDYYDVSLKQARLELLAQPGFQFHKIDL 61

		

		Query: 59  CDRAALDALFAEYQPRAVLHFAAESHVDRSIHGPAEFVQTNVVGTFTLLEAARTYWNGLN 118

		            DR  +  LFA      V        V  S+  P  +  +N+ G   +LE  R       

		Sbjct: 62  ADREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFLNILEGCRHN----- 116

		

		Query: 119 EADRSAFRFLHVSTDEVFGSLSAADPQFSETTPYA-PNSPYSATKAGSDHLVRAYHHTYG 177

		                    L+ S+  V+G L+   P FS       P S Y+ATK  ++ +   Y H YG

		Sbjct: 117 ----KIQHLLYASSSSVYG-LNRKMP-FSTDDSVDHPVSLYAATKKANELMAHTYSHLYG 170

		

		Query: 178 LPTLTTNCSNNYGPYQFPEKLIPLMIANALAGKALPVYGDGQNVRDWLYVGDHCSAIREV 237

		           LP         YGP+  P+  +       L GK++ VY  G+  RD+ Y+ D   AI  +

		Sbjct: 171 LPATGLRFFTVYGPWGRPDMALFKFTKAMLEGKSIDVYNYGKMKRDFTYIDDIAEAIIRL 230

		

		Query: 238 L------------------ARGVPGETYNVGGWNEKKNLEVVHTLCDLLDQARPKAAGSY 279

		                              A   P   YN+G  +  + ++ +  L D L     +A  + 

		Sbjct: 231 QDVIPHADTQWTVETGTPAASIAPYRVYNIGNSSPVELMDYIQALEDALGI---EAKKNM 287

		

		Query: 280 RDQITYVTDRPGHDRRYAIDARKLERELGWKPAETFETGLAKTVAWYLDN 329

		                    +PG     + D + L   +G+ P  T + G+   V WY D 

		Sbjct: 288 LPL------QPGDVLETSADTKALYEVIGFTPETTVKDGVKNFVNWYRDF 331

		

		

		>NUCEPIMERASE#Nucleotide sugar epimerase signature.

		          Length = 334

		

		 Score = 44.8 bits (106), Expect = 2e-07

		 Identities = 44/202 (21%), Positives = 66/202 (32%), Gaps = 63/202 (31%)

		

		Query: 11  TILVTGVNGQVGFELLRSLQGLG-RVVPCD-------------RSTL-----------DL 45

		             LVTG  G +GF + + L   G +VV  D             R  L           DL

		Sbjct: 2   KYLVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLKQARLELLAQPGFQFHKIDL 61

		

		Query: 46  SDLDRVRAFVRDLKPSLIVNPAAYTAVDKAESEVDAARRLNADVPRIFAE---------- 95

		           +D + +           +                  A R + + P  +A+          

		Sbjct: 62  ADREGMTDLFASGHFERVFISPH-----------RLAVRYSLENPHAYADSNLTGFLNIL 110

		

		Query: 96  EMARTGG--ALIHYSTDYVFDGTKAGAYTETD-APNPVNAYGATKLEGER---------A 143

		           E  R      L++ S+  V+   +   ++  D   +PV+ Y ATK   E           

		Sbjct: 111 EGCRHNKIQHLLYASSSSVYGLNRKMPFSTDDSVDHPVSLYAATKKANELMAHTYSHLYG 170

		

		Query: 144 IAATGCAHLILRTSWVYGRRGR 165

		           + ATG     LR   VYG  GR

		Sbjct: 171 LPATG-----LRFFTVYGPWGR 187

		

		

		>PF07132#Harpin protein (HrpN)

		          Length = 356

		

		 Score = 28.9 bits (64), Expect = 0.040

		 Identities = 12/30 (40%), Positives = 18/30 (60%), Gaps = 4/30 (13%)

		

		Query: 415 DDDGLTPRAREAFMA----LKSALTEENGN 440

		           DDDG+T  + + FM     +KSA+  + GN

		Sbjct: 293 DDDGMTKGSMDKFMKAVGMIKSAVAGDTGN 322

		

		

		>NUCEPIMERASE#Nucleotide sugar epimerase signature.

		          Length = 334

		

		 Score = 94.5 bits (235), Expect = 4e-24

		 Identities = 65/346 (18%), Positives = 123/346 (35%), Gaps = 57/346 (16%)

		

		Query: 7   IITGITGQDGAYLAELLLDKGYTVYG-----TYRRTSSVNFWRIEELGIAKHPNLHLVEY 61

		           ++TG  G  G ++++ LL+ G+ V G      Y   S     +   L +   P     + 

		Sbjct: 4   LVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVS----LKQARLELLAQPGFQFHKI 59

		

		Query: 62  DLTDVSASIRLLQTTGATEVYNLAAQSFVGVSFDQPVTTAEITGIGPLNLLEAIRIVNPK 121

		           DL D      L  +     V+    +  V  S + P   A+    G LN+LE  R    +

		Sbjct: 60  DLADREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFLNILEGCRHNKIQ 119

		

		Query: 122 IRFYQASTSEMFGKVQAIPQIESTPF-YPRSPYGVAKLYAHWITVNYRESYDIFGCSGIL 180

		                AS+S ++G  + +P        +P S Y   K     +   Y   Y +       

		Sbjct: 120 -HLLYASSSSVYGLNRKMPFSTDDSVDHPVSLYAATKKANELMAHTYSHLYGLPATGLRF 178

		

		Query: 181 FNHESPLRGR-EFVTRKITDSVAKIKLGQLDVLELGNMDAKRDWGFAKEYVEGMWRMLQA 239

		           F    P  GR +    K T ++ + K   +DV   G M  KRD+ +  +  E + R+   

		Sbjct: 179 FTVYGP-WGRPDMALFKFTKAMLEGK--SIDVYNYGKM--KRDFTYIDDIAEAIIRLQDV 233

		

		Query: 240 DEPDT-------------------FVLATNRTETVRDFVRMAFKATGVDLEFKGSDANEI 280

		                                   + +  +    + D+++    A G+       +A + 

		Sbjct: 234 IPHADTQWTVETGTPAASIAPYRVYNIGNSSPVELMDYIQALEDALGI-------EAKKN 286

		

		Query: 281 AVDVATGKTVVRVNPKFHRPAEVDLLIGNPEKAKQKLGWEPKTTLE 326

		            + +              +P +V     + +   + +G+ P+TT++

		Sbjct: 287 MLPL--------------QPGDVLETSADTKALYEVIGFTPETTVK 318

		

		

		>NUCEPIMERASE#Nucleotide sugar epimerase signature.

		          Length = 334

		

		 Score =  120 bits (302), Expect = 8e-34

		 Identities = 70/313 (22%), Positives = 116/313 (37%), Gaps = 42/313 (13%)

		

		Query: 11  RALVTGLGGFTGDYLAQSLRAAGYRVFG---------------TAHDAEATGVDTYRVDL 55

		           + LVTG  GF G ++++ L  AG++V G                       G   +++DL

		Sbjct: 2   KYLVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLKQARLELLAQPGFQFHKIDL 61

		

		Query: 56  CDRAELAKVVADVQPDVVAHLAAIAFV--AHGDADAIYRTNVVGTRNLLEALATYGKRPN 113

		            DR  +  + A    + V        V  +  +  A   +N+ G  N+LE          

		Sbjct: 62  ADREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFLNILEGCRHNK--IQ 119

		

		Query: 114 AVLLASSANIYG-NAAVEIIDESVEPNPANDYAVSKLAMEYMARLWHD--KLPIIVARPF 170

		            +L ASS+++YG N  +    +    +P + YA +K A E MA  +     LP    R F

		Sbjct: 120 HLLYASSSSVYGLNRKMPFSTDDSVDHPVSLYAATKKANELMAHTYSHLYGLPATGLRFF 179

		

		Query: 171 NYTGVGQSSQFLLPKIVGHFQRGERVIELGNIDVERDFSDVRRVVDAYRRLLQLAPAGG- 229

		              G        L K       G+ +       ++RDF+ +  + +A  RL  + P    

		Sbjct: 180 TVYGPWGRPDMALFKFTKAMLEGKSIDVYNYGKMKRDFTYIDDIAEAIIRLQDVIPHADT 239

		

		Query: 230 -----------------VFNVCSGRAVSLKSVIATMEQIAGYSIEVRVNPAFVRANEVRR 272

		                            V+N+ +   V L   I  +E   G  IE + N   ++  +V  

		Sbjct: 240 QWTVETGTPAASIAPYRVYNIGNSSPVELMDYIQALEDALG--IEAKKNMLPLQPGDVLE 297

		

		Query: 273 LQGDGSRLQAAVG 285

		              D   L   +G

		Sbjct: 298 TSADTKALYEVIG 310

		

		

		>NUCEPIMERASE#Nucleotide sugar epimerase signature.

		          Length = 334

		

		 Score =  110 bits (276), Expect = 5e-30

		 Identities = 81/348 (23%), Positives = 131/348 (37%), Gaps = 50/348 (14%)

		

		Query: 1   MTHLVITGANGFVGRALCRRALQDGHTVTALVRRPGGCIDGV-----------REWVHGT 49

		           M +LV TGA GF+G  + +R L+ GH V          ID +           R  +   

		Sbjct: 1   MKYLV-TGAAGFIGFHVSKRLLEAGHQVVG--------IDNLNDYYDVSLKQARLELLAQ 51

		

		Query: 50  ADF-----DHLDEAWPADLAA----DCVIHLAARVHVMRDESPDPDAAFDATNVVGTLRL 100

		             F     D  D     DL A    + V     R+ V R    +P A  D +N+ G L +

		Sbjct: 52  PGFQFHKIDLADREGMTDLFASGHFERVFISPHRLAV-RYSLENPHAYAD-SNLTGFLNI 109

		

		Query: 101 AQAARNHGVRRIVFASSIKAVGEGDDGAPLSEAVEPD-PQDAYGRSKLHAERQLAQFGAS 159

		            +  R++ ++ +++ASS  +V   +   P S     D P   Y  +K   E     +   

		Sbjct: 110 LEGCRHNKIQHLLYASS-SSVYGLNRKMPFSTDDSVDHPVSLYAATKKANELMAHTYSHL 168

		

		Query: 160 AGLDVVVVRPPLVYGPAVRAN--FLRMMDAVARGIPLP-FGAVSARRSIVYVENLADALL 216

		            GL    +R   VYGP  R +    +   A+  G  +  +     +R   Y++++A+A++

		Sbjct: 169 YGLPATGLRFFTVYGPWGRPDMALFKFTKAMLEGKSIDVYNYGKMKRDFTYIDDIAEAII 228

		

		Query: 217 RCAIDPRAAGECFHVADDDAPSVTGLLRLVGDALGKPARLVAVPPVLLRVLGKLTGRSAA 276

		           R       A   + V      +     R+       P  L+      ++ L    G  A 

		Sbjct: 229 RLQDVIPHADTQWTVETGTPAASIAPYRVYNIGNSSPVELMD----YIQALEDALGIEAK 284

		

		Query: 277 IERLTGSLQL--------DTGRIGRVLGWHPPYTTRQGLAATAAWYRS 316

		              L   LQ         DT  +  V+G+ P  T + G+     WYR 

		Sbjct: 285 KNML--PLQPGDVLETSADTKALYEVIGFTPETTVKDGVKNFVNWYRD 330

		

		

		>ECOLNEIPORIN#E.coli/Neisseria porin superfamily signature.

		          Length = 331

		

		 Score =  122 bits (308), Expect = 4e-34

		 Identities = 90/388 (23%), Positives = 141/388 (36%), Gaps = 65/388 (16%)

		

		Query: 1   MKKTLIVAALAGVAASAAHAQSSVTLYGLIDAGITYTNNQHGHSAW-----QETSGSING 55

		           MKK+LI   LA +  +A    + VTLYG I AG+  + +   + A        T     G

		Sbjct: 1   MKKSLIALTLAALPVAAM---ADVTLYGTIKAGVETSRSVAHNGAQAASVETGTGIVDLG 57

		

		Query: 56  SRWGLRGTEDLGGGLKAIFTLENGFGINNGSLKQNGREFGRQAFVGLAHESYGSLTLGRQ 115

		           S+ G +G EDLG GLKAI+ +E    I       +     RQ+F+GL    +G L +GR 

		Sbjct: 58  SKIGFKGQEDLGNGLKAIWQVEQKASIAGT----DSGWGNRQSFIGLKGG-FGKLRVGRL 112

		

		Query: 116 YDSVVDYLG--PLSLTGTQYGGTQFAHPFDNDNLNNSFRINNSVKYQSANYGGLKFGGLY 173

		              + D     P        G  + A P        +  I  SV+Y S  + GL     Y

		Sbjct: 113 NSVLKDTGDINPWDSKSDYLGVNKIAEP-------EARLI--SVRYDSPEFAGLSGSVQY 163

		

		Query: 174 GFSNSTGFANNRAYSVGASYSYMGFNVAAAYMQLNNNINALALAASDPGAVAGDWTFAAS 233

		             +++ G  N+ +Y  G +Y   GF V        ++                       

		Sbjct: 164 ALNDNAGRHNSESYHAGFNYKNGGFFVQYGGAYKRHH--------------QVQENVNIE 209

		

		Query: 234 RQRTWGAGLNYTFGPATAGFVFTQTRLTNSAGISAGQSGVS-TGIPLAGGTRFNNYEVNG 292

		           + +       Y      A +     +  ++  +    S  S T +      RF N     

		Sbjct: 210 KYQIHRLVSGYD---NDALYASVAVQQQDAKLVEENYSHNSQTEVAATLAYRFGNV---- 262

		

		Query: 293 RYALTPAFSLAGSYTYTDSRLDGQTPSWHQFNLQADYALSKRTDLYLQSEYQRVNANGLA 352

		              ++ A    GS+  T+         + Q  + A+Y  SKRT   + + + +       

		Sbjct: 263 TPRVSYAHGFKGSFDATNY-----NNDYDQVVVGAEYDFSKRTSALVSAGWLQEG----- 312

		

		Query: 353 IGANINGLGAASSTNKQIAVTAGMRHRF 380

		                 G     ST    A   G+RH+F

		Sbjct: 313 -----KGESKFVST----AGGVGLRHKF 331

		

		

		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D

		           signature.

		          Length = 478

		

		 Score = 30.6 bits (69), Expect = 0.002

		 Identities = 9/74 (12%), Positives = 26/74 (35%), Gaps = 2/74 (2%)

		

		Query: 32  FLSKRRLLISTWIDVHDTLAEIAQTRDNIASARQRILELPDNAPARAELLTRIEDQSARV 91

		            L +    +    ++    +++ Q    I SA++    +      + E+L ++   +  +

		Sbjct: 254 VLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQL--FKNEILDKLRQTTDNI 311

		

		Query: 92  AEQYAALQFAREQL 105

		                 L    E+ 

		Sbjct: 312 GLLTLELAKNEERQ 325

		

		

		>TONBPROTEIN#Gram-negative bacterial tonB protein signature.

		          Length = 239

		

		 Score = 45.0 bits (106), Expect = 3e-07

		 Identities = 24/126 (19%), Positives = 37/126 (29%)

		

		Query: 107 VAPEPGEPPATIEPPSPRPPAIVEPAPPEPAPEPPAIVEPAPPEPAPEPPAIVEPAPPDP 166

		           V P   EPP  ++PP            P P P   A V    P+P P+P         + 

		Sbjct: 50  VTPADLEPPQAVQPPPEPVVEPEPEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKVQEQ 109

		

		Query: 167 PPALDTSLAIRNLATGGALCLGMSTGNGTYVGFQSCNGSDAQRWRMVRAASPYFNVKNVL 226

		           P      +  R  +          T +           S A   R +    P +  +   

		Sbjct: 110 PKRDVKPVESRPASPFENTAPARLTSSTATAATSKPVTSVASGPRALSRNQPQYPARAQA 169

		

		Query: 227 AEAQGR 232

		              +G+

		Sbjct: 170 LRIEGQ 175

		

		

		

		 Score = 43.8 bits (103), Expect = 7e-07

		 Identities = 21/93 (22%), Positives = 27/93 (29%), Gaps = 5/93 (5%)

		

		Query: 96  APPDPSYPRPPVAPEPGEPPATIEPPSPRPPAIVEPAPPEPAPEPPAIVEPAPPEPAPEP 155

		             P  +   PP      EP     P  P+   +V    P+P P+P         E     

		Sbjct: 55  LEPPQAVQPPPEPVVEPEPEPEPIPEPPKEAPVVIE-KPKPKPKPKPKPVKKVQEQPKRD 113

		

		Query: 156 PAIVEPAPPDP----PPALDTSLAIRNLATGGA 184

		              VE  P  P     PA  TS       +   

		Sbjct: 114 VKPVESRPASPFENTAPARLTSSTATAATSKPV 146

		

		

		

		 Score = 40.4 bits (94), Expect = 1e-05

		 Identities = 18/53 (33%), Positives = 21/53 (39%)

		

		Query: 118 IEPPSPRPPAIVEPAPPEPAPEPPAIVEPAPPEPAPEPPAIVEPAPPDPPPAL 170

		           IE P+P  P  V    P     P A+  P  P   PEP     P PP   P +

		Sbjct: 36  IELPAPAQPISVTMVTPADLEPPQAVQPPPEPVVEPEPEPEPIPEPPKEAPVV 88

		

		

		

		 Score = 31.9 bits (72), Expect = 0.006

		 Identities = 17/97 (17%), Positives = 20/97 (20%), Gaps = 6/97 (6%)

		

		Query: 79  PAPEIVADGVAVSDEPG-APPDPSYPRPPV-APEPGEPPATIEPPSPRPPAIVEPAPPEP 136

		             P+ V        EP   P     P            P     P P      +P     

		Sbjct: 56  EPPQAVQPPPEPVVEPEPEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKVQEQPKRDVK 115

		

		Query: 137 APEPPAIVEPAPPEPAPEPPAIVEPAPPDPPPALDTS 173

		             E      PA P     P  +             TS

		Sbjct: 116 PVESR----PASPFENTAPARLTSSTATAATSKPVTS 148

		

		

		>TCRTETB#Tetracycline resistance protein TetB signature.

		          Length = 458

		

		 Score = 48.3 bits (115), Expect = 3e-08

		 Identities = 59/364 (16%), Positives = 121/364 (33%), Gaps = 52/364 (14%)

		

		Query: 48  SAFPDSASWIGAVPTATQLGYAAGMFLLAPLGDRFDRRGLILLQIAGLSIALIVAAAAPS 107

		           +  P S +W   V TA  L ++ G  +   L D+   + L+L  I       ++     S

		Sbjct: 45  NKPPASTNW---VNTAFMLTFSIGTAVYGKLSDQLGIKRLLLFGIIINCFGSVIGFVGHS 101

		

		Query: 108 LA---VLAAASLAIGVLATIAQQAVPFAAEIAPPAERGHAVGTVMSGLLLGILLARTAAG 164

		                ++A      G  A  A   V  A  I P   RG A G + S + +G  +     G

		Sbjct: 102 FFSLLIMARFIQGAGAAAFPALVMVVVARYI-PKENRGKAFGLIGSIVAMGEGVGPAIGG 160

		

		Query: 165 FVAEYFGWRAVFGASVAALAALAAVIVLRLPRSSPTSTL--------------------S 204

		            +A Y  W  +    +  +  +  ++ L                               S

		Sbjct: 161 MIAHYIHWSYLLLIPMITIITVPFLMKLLKKEVRIKGHFDIKGIILMSVGIVFFMLFTTS 220

		

		Query: 205 YGKLLGSMWHLAVEL--RGLREAS------------------LTGAALFAAFSAFWPVLT 244

		           Y      +  L+  +  + +R+ +                  L G  +F   + F  ++ 

		Sbjct: 221 YSISFLIVSVLSFLIFVKHIRKVTDPFVDPGLGKNIPFMIGVLCGGIIFGTVAGFVSMVP 280

		

		Query: 245 LLLAGAPFHLGPQAAG--LFGIVGAAGALAAPYAGRFADKRGPRAIISLAIALLAASFVI 302

		            ++      L     G  +      +  +     G   D+RGP  ++++ +  L+ SF+ 

		Sbjct: 281 YMM-KDVHQLSTAEIGSVIIFPGTMSVIIFGYIGGILVDRRGPLYVLNIGVTFLSVSFLT 339

		

		Query: 303 FA-LSGTSLVGLVIGVIVLDVGVQAAQIS-NQSRIYALKPDARSRVNTVYMVCYFIGGAL 360

		            + L  T+   + I ++ +  G+   +   +     +LK        ++     F+    

		Sbjct: 340 ASFLLETTSWFMTIIIVFVLGGLSFTKTVISTIVSSSLKQQEAGAGMSLLNFTSFLSEGT 399

		

		Query: 361 GSSV 364

		           G ++

		Sbjct: 400 GIAI 403

		

		

		>PF05272#Virulence-associated E family protein

		          Length = 892

		

		 Score = 28.9 bits (64), Expect = 0.034

		 Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 3/37 (8%)

		

		Query: 21  RVLEPLDLSIGAGETLVLLGPSGCGKTTTLRLIAGLD 57

		           RV+EP         ++VL G  G GK+T +  + GLD

		Sbjct: 587 RVMEP---GCKFDYSVVLEGTGGIGKSTLINTLVGLD 620

		

		

		>NEISSPPORIN#Neisseria sp. porin signature.

		          Length = 348

		

		 Score = 82.0 bits (202), Expect = 9e-20

		 Identities = 97/338 (28%), Positives = 145/338 (42%), Gaps = 45/338 (13%)

		

		Query: 6   AALAQDGVTLYGVID---EFAQYVNTGNGYTAAIGSGGQ---WGSRFGMKGGEDLGGGQK 59

		           AA+A   VTLYG I    +  + V   +G  + + +G +   +GS+ G KG EDLG G K

		Sbjct: 16  AAMAD--VTLYGAIKAGVQTYRSVEHTDGKVSKVETGSEIADFGSKIGFKGQEDLGNGLK 73

		

		Query: 60  VEFALENGFNPNDGSLASSGSMF-NRQAWVGIAGQWGKVRAGRQNSPLFNDQGGQDAFGG 118

		             + LE        S+A + + + N+Q++VG+ G +G +RAG  NSPL N     +A+  

		Sbjct: 74  AVWQLEQ-----GASVAGTNTGWGNKQSFVGLKGGFGTIRAGSLNSPLKNTGANVNAWES 128

		

		Query: 119 VTQASGMDNLTVFAFRTSNTLS--YQSPEIGGFQGGLYFGFGDAGGVRSAGSSRQFDLTY 176

		                 +  ++  A R    LS  Y SPE  GF G + +   D  G  S G S    L Y

		Sbjct: 129 GKFTGNVLEISGMAQREHRYLSVRYDSPEFAGFSGSVQYAPKDNSG--SNGESYHVGLNY 186

		

		Query: 177 EHGPFAAFVAGQWLK---STTTTTTDRTIMAGASYAIGKATVY---GGFSA----VKWAD 226

		           ++  F A  AG + +    T     D    +  S  + K  V+   GG+      V  A 

		Sbjct: 187 QNSGFFAQYAGLFQRYGEGTKKIEYDDQTYSIPSLFVEKLQVHRLVGGYDNNALYVSVAA 246

		

		Query: 227 LGIDSRVYGLSLKYQLNPANYVALGYAY-----------------LHDQTSQGNNADQLG 269

		              D+++YG       N    VA   AY                   D  +  N  DQ+ 

		Sbjct: 247 QQQDAKLYGAMSGNSHNSQTEVAATAAYRFGNVTPRVSYAHGFKGTVDSANHDNTYDQVV 306

		

		Query: 270 LMYEYDLSKRTSFYGALSYLRNRNQAGYTLAGAANPGL 307

		           +  EYD SKRTS   +  +L+    A   ++ A+   L

		Sbjct: 307 VGAEYDFSKRTSALVSAGWLQGGKGADKIVSTASAVVL 344

		

		

		>TCRTETA#Tetracycline resistance protein signature.

		          Length = 399

		

		 Score = 41.7 bits (98), Expect = 3e-06

		 Identities = 77/398 (19%), Positives = 134/398 (33%), Gaps = 39/398 (9%)

		

		Query: 10  RPDGSAALPLLALAAGAFGIGTTEFSPMGLLPVIADGVHVSIPQA---GMLISAYAIGVM 66

		           +P+    + L  +A  A GIG      M +LP +   +  S       G+L++ YA+   

		Sbjct: 2   KPNRPLIVILSTVALDAVGIGLI----MPVLPGLLRDLVHSNDVTAHYGILLALYALMQF 57

		

		Query: 67  VGAPLMTLLLARWSRRSALIALMSIFTIGNLLSAIAPDYTTLLLARLVTSLNHGAFFGLG 126

		             AP++  L  R+ RR  L+  ++   +   + A AP    L + R+V  +        G

		Sbjct: 58  ACAPVLGALSDRFGRRPVLLVSLAGAAVDYAIMATAPFLWVLYIGRIVAGITGATGAVAG 117

		

		Query: 127 SVVAAGLVPRERQASAVATMFMGLTIANVGGVPAATWLGQMIGWRMSFAATAALGLIAIA 186

		           + + A +   + +A     M        V G      +G        F A AAL  +   

		Sbjct: 118 AYI-ADITDGDERARHFGFMSACFGFGMVAGPVLGGLMGG-FSPHAPFFAAAALNGLNFL 175

		

		Query: 187 GLFAALP-------RGEAGKMPNLRAELSVLTRPVVLGALATTVLGA-------GAMFTL 232

		                LP       R    +  N  A         V+ AL               A++ +

		Sbjct: 176 TGCFLLPESHKGERRPLRREALNPLASFRWARGMTVVAALMAVFFIMQLVGQVPAALWVI 235

		

		Query: 233 YTYVAPTLEHVTGATPGFVTAMLVLIGVGFSIGNI-AGGRLADRSLDATLIGFLVLLIVT 291

		           +       E         +   L   G+  S+      G +A R  +   +  ++ +I  

		Sbjct: 236 FG------EDRFHWDATTIGISLAAFGILHSLAQAMITGPVAARLGERRAL--MLGMIAD 287

		

		Query: 292 MAGFPLLARTHVGAAATLLVWGVATFAVVPPLQMRVM--RAAHEAPGLASAVNIGAFNLG 349

		             G+ LLA    G  A  ++  +A+  +  P    ++  +   E  G          +L 

		Sbjct: 288 GTGYILLAFATRGWMAFPIMVLLASGGIGMPALQAMLSRQVDEERQGQLQGSLAALTSLT 347

		

		Query: 350 NALGAAAGGAAISAGFGYAAVPLVGGLIAAAGLALVAL 387

		           + +G     A  +A           G    AG AL  L

		Sbjct: 348 SIVGPLLFTAIYAASITTW-----NGWAWIAGAALYLL 380

		

		

		>PERTACTIN#Pertactin signature.

		          Length = 922

		

		 Score = 36.2 bits (83), Expect = 2e-04

		 Identities = 25/66 (37%), Positives = 28/66 (42%)

		

		Query: 192 KEPVAPLPEPAPTPQGEPMKMTTPVVPTPPAAPVPLSVPSVAPTPGTPVVPAVPAPASAV 251

		           K P AP P P P PQ  P     P  P PP  P P      AP P  P    + A A+A 

		Sbjct: 566 KAPPAPKPAPQPGPQPGPQPPQPPQPPQPPQPPQPPQRQPEAPAPQPPAGRELSAAANAA 625

		

		Query: 252 VAPGAM 257

		           V  G +

		Sbjct: 626 VNTGGV 631

		

		

		>ARGDEIMINASE#Bacterial arginine deiminase signature.

		          Length = 409

		

		 Score = 30.2 bits (68), Expect = 0.021

		 Identities = 10/47 (21%), Positives = 19/47 (40%), Gaps = 6/47 (12%)

		

		Query: 182 QVDRIVDKVPRVDIPGDRVHFV--VEAGRPFYVEPL----FTRDPAA 222

		            + +++  V   ++          V     F ++P+    FTRDP A

		Sbjct: 121 MISKMISGVVTEELKNYTSSLDDLVNGANLFIIDPMPNVLFTRDPFA 167

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 85.7 bits (212), Expect = 2e-21

		 Identities = 36/136 (26%), Positives = 64/136 (47%), Gaps = 5/136 (3%)

		

		Query: 5   ILVVEDEPAISELISVNLQHAGHCPIRAYNAEQAQNLISDVLPDLVLLDWMLPGKSGIAF 64

		           ILV +D+ AI  +++  L  AG+      NA      I+    DLV+ D ++P ++    

		Sbjct: 6   ILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFDL 65

		

		Query: 65  ARDLRNNERTKHIPIIMLTARGDEQDKVLGLEIGADDYVTKPFSPKELMARIKAVL---R 121

		              ++  +    +P+++++A+      +   E GA DY+ KPF   EL+  I   L   +

		Sbjct: 66  LPRIK--KARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPK 123

		

		Query: 122 RRAPQLTEDVVSINGL 137

		           RR  +L +D      L

		Sbjct: 124 RRPSKLEDDSQDGMPL 139

		

		

		>PF06580#Sensor histidine kinase

		          Length = 349

		

		 Score = 39.8 bits (93), Expect = 1e-05

		 Identities = 20/106 (18%), Positives = 35/106 (33%), Gaps = 26/106 (24%)

		

		Query: 328 LVTNAIRY----TPDGGKIFVSWRREGAQGVFSVTDSGFGIPAADLPRLTERFYRVDRSR 383

		           LV N I++     P GGKI +   ++       V ++G                      

		Sbjct: 263 LVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSLAL------------------ 304

		

		Query: 384 SRDTGGTGLGLAIVKHVLQR---HDSHLYVQSEEGRGSTFTARFPA 426

		                 TG GL  V+  LQ     ++ + +  ++G+        P 

		Sbjct: 305 KNTKESTGTGLQNVRERLQMLYGTEAQIKLSEKQGKV-NAMVLIPG 349

		

		

		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase

		           signature.

		          Length = 261

		

		 Score = 89.7 bits (222), Expect = 3e-23

		 Identities = 68/238 (28%), Positives = 109/238 (45%), Gaps = 13/238 (5%)

		

		Query: 2   AYDLQGKVVLITGAAGGIGAATARALHACGARLVLTDVTQASVDRLAAEFDSE--RTLAL 59

		           A  ++GK+  ITGAA GIG A AR L + GA +   D     ++++ +   +E     A 

		Sbjct: 3   AKGIEGKIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAF 62

		

		Query: 60  ALDVTDAAATKAVVQHAVDRFGRLDIAFANAGISWLDVPATVYSCDEQEFERIVEVDLLG 119

		             DV D+AA   +        G +DI    AG+     P  ++S  ++E+E    V+  G

		Sbjct: 63  PADVRDSAAIDEITARIEREMGPIDILVNVAGVLR---PGLIHSLSDEEWEATFSVNSTG 119

		

		Query: 120 VWRTIKAALPEIVRNRGQVLVT-ASVYAFVNGMVNAPYAASKAAVEMLARSLRAELGGTG 178

		           V+   ++    ++  R   +VT  S  A V     A YA+SKAA  M  + L  EL    

		Sbjct: 120 VFNASRSVSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYN 179

		

		Query: 179 STASVLYPGWVATAIAKISFGGNALATKLIEKGFPA------PLRRPIQPDDVAKAVI 230

		              +++ PG   T +    +     A ++I KG         PL++  +P D+A AV+

		Sbjct: 180 IRCNIVSPGSTETDMQWSLWADENGAEQVI-KGSLETFKTGIPLKKLAKPSDIADAVL 236

		

		

		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase

		           signature.

		          Length = 261

		

		 Score = 66.2 bits (161), Expect = 8e-15

		 Identities = 46/182 (25%), Positives = 82/182 (45%), Gaps = 6/182 (3%)

		

		Query: 1   MSTYKLANKVVAITGSTGGLGSALAEALHARGARLALFDLEADRLTAQTRSF---GRPSD 57

		           M+   +  K+  ITG+  G+G A+A  L ++GA +A  D   ++L     S     R ++

		Sbjct: 1   MNAKGIEGKIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAE 60

		

		Query: 58  VLGWTADVRDFESIEAAMANAADHFGQIDVVIANAGIDTMAPMATIDPAAFDRVIDINLN 117

		                ADVRD  +I+   A      G ID+++  AG+     + ++    ++    +N  

		Sbjct: 61  AF--PADVRDSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNST 118

		

		Query: 118 GVWRTFRAGLP-FVQQQRGYMLAISSMAAFVHSPLQASYTASKAGVWAMCDSIRLELRHL 176

		           GV+   R+     + ++ G ++ + S  A V     A+Y +SKA        + LEL   

		Sbjct: 119 GVFNASRSVSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEY 178

		

		Query: 177 GI 178

		            I

		Sbjct: 179 NI 180

		

		

		>HTHTETR#TetR bacterial regulatory protein HTH signature.

		          Length = 215

		

		 Score = 70.4 bits (172), Expect = 4e-17

		 Identities = 28/175 (16%), Positives = 66/175 (37%), Gaps = 8/175 (4%)

		

		Query: 1   MESRTQRRVAATRLAILQAAETLLTEGGLDAVTPEAVATRADVAVQTLYNRVGGRSALLI 60

		           M  +T++    TR  IL  A  L ++ G+ + +   +A  A V    +Y     +S L  

		Sbjct: 1   MARKTKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFS 60

		

		Query: 61  AVAERALEENREYMDAAYASD-GDVETKLRCVAAAYARFAKERPHQFRILVEPPNEPEAL 119

		            + E +     E      A   GD  + LR +             +  ++    ++ E +

		Sbjct: 61  EIWELSESNIGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFV 120

		

		Query: 120 ARIAALIR-------QQNAKLAALISRGIDEGWVHAEVEPEHASTALWAMMNGVI 167

		             +A + +       +   ++   +   I+   + A++    A+  +   ++G++

		Sbjct: 121 GEMAVVQQAQRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYISGLM 175

		

		

		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase

		           signature.

		          Length = 261

		

		 Score =  106 bits (265), Expect = 7e-30

		 Identities = 69/242 (28%), Positives = 111/242 (45%), Gaps = 12/242 (4%)

		

		Query: 1   MNQIELSGRVVVITGGARGIGYAAAQRALRSGAAVSLWDVDGERLARSQRELSELG-TVS 59

		           MN   + G++  ITG A+GIG A A+     GA ++  D + E+L +    L        

		Sbjct: 1   MNAKGIEGKIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAE 60

		

		Query: 60  TVVVELTDEASVDAAATATFERHGAIDVLINSAGITGGNGLTWELPPDVWRRVIDVNLIG 119

		               ++ D A++D          G ID+L+N AG+    GL   L  + W     VN  G

		Sbjct: 61  AFPADVRDSAAIDEITARIEREMGPIDILVNVAGVLR-PGLIHSLSDEEWEATFSVNSTG 119

		

		Query: 120 SYLTCRAVVPRMLEKGYGRIVNIASVAGKEGNPTASHYSASKAGLIGLTKSLGKELATRG 179

		            +   R+V   M+++  G IV + S        + + Y++SKA  +  TK LG ELA   

		Sbjct: 120 VFNASRSVSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYN 179

		

		Query: 180 ILVNAVTPAAAKTEIFDSM------SQQHIDYMLSK----IPMNRFLMPEEAASLILWLA 229

		           I  N V+P + +T++  S+      ++Q I   L      IP+ +   P + A  +L+L 

		Sbjct: 180 IRCNIVSPGSTETDMQWSLWADENGAEQVIKGSLETFKTGIPLKKLAKPSDIADAVLFLV 239

		

		Query: 230 SE 231

		           S 

		Sbjct: 240 SG 241

		

		

		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase

		           signature.

		          Length = 261

		

		 Score =  117 bits (295), Expect = 5e-34

		 Identities = 74/260 (28%), Positives = 118/260 (45%), Gaps = 17/260 (6%)

		

		Query: 3   LEDKVVIVTGGSRGIGRAIAVASAREGADVVVNYWGDNDASYGRRSAIAEVVAEVERAGR 62

		           +E K+  +TG ++GIG A+A   A +GA +         A       + +VV+ ++   R

		Sbjct: 6   IEGKIAFITGAAQGIGEAVARTLASQGAHIA--------AVDYNPEKLEKVVSSLKAEAR 57

		

		Query: 63  RAIAIEGNVALPQTGIDLVRHAVDAFGKVDVLASNAGICPFHAFLDMPPSVLERTIGVNL 122

		            A A   +V       ++        G +D+L + AG+        +     E T  VN 

		Sbjct: 58  HAEAFPADVRDSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNS 117

		

		Query: 123 NGAFYVTQAVARQMKEQGTGGAIVATSSISALVGGGMQTHYTPTKAGVHSLMQSCAIALG 182

		            G F  +++V++ M ++   G+IV   S  A V       Y  +KA      +   + L 

		Sbjct: 118 TGVFNASRSVSKYMMDR-RSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELA 176

		

		Query: 183 PYGIRCNSVMPGTIATDLNAADLEDEDKRRY--------FEKRIPLGRLGQPEDVADCVV 234

		            Y IRCN V PG+  TD+  +   DE+            F+  IPL +L +P D+AD V+

		Sbjct: 177 EYNIRCNIVSPGSTETDMQWSLWADENGAEQVIKGSLETFKTGIPLKKLAKPSDIADAVL 236

		

		Query: 235 FLASDRARYVTGAALLVDGG 254

		           FL S +A ++T   L VDGG

		Sbjct: 237 FLVSGQAGHITMHNLCVDGG 256

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 84.9 bits (210), Expect = 4e-20

		 Identities = 35/157 (22%), Positives = 62/157 (39%), Gaps = 2/157 (1%)

		

		Query: 7   DAPVVLVVDDTAANLALVVDTLEAEGLSVAVARDGHEALRRAELVKPDLILLDVMMPGLD 66

		               +LV DD AA   ++   L   G  V +  +     R       DL++ DV+MP  +

		Sbjct: 2   TGATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDEN 61

		

		Query: 67  GFQTCRALKDNPVTRDIPVIFMTSLTQTEDKITGFRVGAMDFVTKPLQMEEVAVRVQMHL 126

		            F     +K      D+PV+ M++       I     GA D++ KP  + E+   +   L

		Sbjct: 62  AFDLLPRIKK--ARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRAL 119

		

		Query: 127 KLHALQRLQQEQNARLEEEIKTRVQAQDALIEVLDGV 163

		                +  + E +++    +  R  A   +  VL  +

		Sbjct: 120 AEPKRRPSKLEDDSQDGMPLVGRSAAMQEIYRVLARL 156

		

		

		>RTXTOXINA#Gram-negative bacterial RTX toxin determinant A family

		           signature.

		          Length = 1024

		

		 Score = 28.0 bits (62), Expect = 0.016

		 Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 2/46 (4%)

		

		Query: 15  GALDAGAWAIAAALAAAGAGWWIASGWAPSTVARVLLAVVSSGSGI 60

		           GA+DA    I+  LA+  +G   A+    S V   + A+V + +GI

		Sbjct: 362 GAIDASLTTISTVLASVSSGISAAA--TTSLVGAPVSALVGAVTGI 405

		

		

		>TYPE3OMOPROT#Type III secretion system outer membrane O protein

		           family signature.

		          Length = 303

		

		 Score = 31.9 bits (72), Expect = 0.006

		 Identities = 22/56 (39%), Positives = 27/56 (48%), Gaps = 8/56 (14%)

		

		Query: 491 DALRHCRPRRAGDVVTADAAHLYVFLFACEPVDAEDALARIFDVPVDTLSDRVVCL 546

		           D L H  P  AG  V+A A HL V   A        A  R F++PV  LS R +C+

		Sbjct: 58  DWLEHVSPALAGAAVSAGAEHLVVPWLA--------ATERPFELPVPHLSCRRLCV 105

		

		

		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase

		           signature.

		          Length = 261

		

		 Score =  105 bits (262), Expect = 2e-29

		 Identities = 77/254 (30%), Positives = 121/254 (47%), Gaps = 14/254 (5%)

		

		Query: 4   LTGKVAIVTGGSKGIGAAIAKALAAEGASVV-VNYASSKAGADTVVSAIVEAGGRAVAVG 62

		           + GK+A +TG ++GIG A+A+ LA++GA +  V+Y   K   + VVS++      A A  

		Sbjct: 6   IEGKIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKL--EKVVSSLKAEARHAEAFP 63

		

		Query: 63  GDVSKAADAQRIVDAAIENYGRLDVLVNNSGVYEFSPIEAITEEHYRRQFDTNVFGVLLT 122

		            DV  +A    I        G +D+LVN +GV     I ++++E +   F  N  GV   

		Sbjct: 64  ADVRDSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGVFNA 123

		

		Query: 123 TQAAVKHL--GEGASIINISSVVTSITPPASAVYSGTKGAVDAITGVLALELGPRKIRVN 180

		           +++  K++      SI+ + S    +   + A Y+ +K A    T  L LEL    IR N

		Sbjct: 124 SRSVSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCN 183

		

		Query: 181 AINPGMIVTEGTHS--------AGIIGSDLETQVRSQTPLGRLGEPDDIASVAVFLASDD 232

		            ++PG   T+   S          +I   LE   ++  PL +L +P DIA   +FL S  

		Sbjct: 184 IVSPGSTETDMQWSLWADENGAEQVIKGSLE-TFKTGIPLKKLAKPSDIADAVLFLVSGQ 242

		

		Query: 233 ARWLTGERLVASGG 246

		           A  +T   L   GG

		Sbjct: 243 AGHITMHNLCVDGG 256

		

		

		>SOPEPROTEIN#Salmonella type III secretion SopE effector protein

		           signature.

		          Length = 239

		

		 Score = 31.2 bits (70), Expect = 0.004

		 Identities = 19/52 (36%), Positives = 26/52 (50%), Gaps = 8/52 (15%)

		

		Query: 148 IPPFIATLGTMVAARGFAKWFTNGMPVSMLTDQFAAIGAGANPVIIFLVVAA 199

		           I PF+  +G   AA+        G+P +   D F   GAGANP I  L+ +A

		Sbjct: 136 IAPFLQEIGE--AAK------NAGLPGTTKNDVFTPSGAGANPFITPLISSA 179

		

		

		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase

		           signature.

		          Length = 261

		

		 Score = 85.5 bits (211), Expect = 3e-22

		 Identities = 61/254 (24%), Positives = 110/254 (43%), Gaps = 22/254 (8%)

		

		Query: 5   LHGKKVLVVGGSSGIGAAAAKAFAQRGAVVTIASRDPARAGADVAPDG----HVRTEALD 60

		           + GK   + G + GIG A A+  A +GA +     +P +    V+       H      D

		Sbjct: 6   IEGKIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAFPAD 65

		

		Query: 61  ITDTAAVDAFCAR----VGQFDHVVISAAKTATGPLRALPLADAQAAMDSKFWGAY---- 112

		           + D+AA+D   AR    +G  D +V  A     G + +L   + +A       G +    

		Sbjct: 66  VRDSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGVFNASR 125

		

		Query: 113 RIARSIDIAPGGSLTFVSGYLSVRPSTSSVLQGAINAALEALARGLALELAP--VRVNTV 170

		            +++ +     GS+  V    +  P TS     +  AA     + L LELA   +R N V

		Sbjct: 126 SVSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCNIV 185

		

		Query: 171 SPGLIATPLWDKL--APDVRDAMYAGAAQR----LPARRVGQPEDVANAIVYLAT--TPY 222

		           SPG   T +   L    +  + +  G+ +     +P +++ +P D+A+A+++L +    +

		Sbjct: 186 SPGSTETDMQWSLWADENGAEQVIKGSLETFKTGIPLKKLAKPSDIADAVLFLVSGQAGH 245

		

		Query: 223 ATGSTVLIDGGGAI 236

		            T   + +DGG  +

		Sbjct: 246 ITMHNLCVDGGATL 259

		

		

		>DNABINDINGHU#Prokaryotic integration host factor signature.

		          Length = 91

		

		 Score =  118 bits (298), Expect = 3e-38

		 Identities = 35/89 (39%), Positives = 53/89 (59%)

		

		Query: 39  TKAELAELLFDSVGLNKREAKDMVEAFFEVIRDALENGESVKLSGFGNFQLRDKPQRPGR 98

		            K +L   + ++  L K+++   V+A F  +   L  GE V+L GFGNF++R++  R GR

		Sbjct: 3   NKQDLIAKVAEATELTKKDSAAAVDAVFSAVSSYLAKGEKVQLIGFGNFEVRERAARKGR 62

		

		Query: 99  NPKTGEAIPIAARRVVTFHASQKLKALVE 127

		           NP+TGE I I A +V  F A + LK  V+

		Sbjct: 63  NPQTGEEIKIKASKVPAFKAGKALKDAVK 91

		

		

		>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.

		          Length = 1541

		

		 Score = 31.2 bits (70), Expect = 0.016

		 Identities = 30/177 (16%), Positives = 55/177 (31%), Gaps = 18/177 (10%)

		

		Query: 13   AAQAARADDAPEQDAPAAGGDERPRRGLRRGPRSLIARRRAA--AKSKGAEGESQDGEGA 70

		            + Q ++  +  EQDA       R     +    ++ A  +    A+S     E+Q  E  

		Sbjct: 1044 SKQESKTVEKNEQDATETTAQNR--EVAKEAKSNVKANTQTNEVAQSGSETKETQTTETK 1101

		

		Query: 71   DAPPAEAAEAQPARAPRKEGAARGGRKPAAKREGAPKGAQGGQGGQGRRGSPAKAEGGAA 130

		            +    E  E       + +   +   + + K+E         Q    +  +    E    

		Sbjct: 1102 ETATVEKEEKAKVETEKTQEVPKVTSQVSPKQE---------QSETVQPQAEPARENDPT 1152

		

		Query: 131  KAEGDAASQDDLFAYVTSPAFDADNSAGGSGVRAPMLRRGRTQPTNKRVLSPDDDAP 187

		                +  SQ +  A    PA         S V  P+         N  V +P++  P

		Sbjct: 1153 VNIKEPQSQTNTTADTEQPA-----KETSSNVEQPVTESTTVNTGNSVVENPENTTP 1204

		

		

		>FLGMOTORFLIM#Flagellar motor switch protein FliM signature.

		          Length = 344

		

		 Score = 27.6 bits (61), Expect = 0.028

		 Identities = 16/55 (29%), Positives = 26/55 (47%), Gaps = 10/55 (18%)

		

		Query: 112 EGRALAERLPPVFRSVLDELLGG----------FTPEEVGFLKSMLRRILSNYCE 156

		           +G A+ E  P +  S++D L GG           T  E   ++ ++ RIL+N  E

		Sbjct: 112 KGNAVLEVDPSITFSIIDRLFGGTGQAAKVQRDLTDIENSVMEGVIVRILANVRE 166

		

		

		>TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family

		           signature.

		          Length = 639

		

		 Score =  169 bits (429), Expect = 3e-47

		 Identities = 99/435 (22%), Positives = 170/435 (39%), Gaps = 62/435 (14%)

		

		Query: 5   LRNIAIIAHVDHGKTTLVDQLLRQSGTFRENQQIAE--RVMDSNDIEKERGITILAKNCA 62

		           + NI ++AHVD GKTTL + LL  SG   E   + +     D+  +E++RGITI     +

		Sbjct: 3   IINIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITS 62

		

		Query: 63  VEYEGTHINIVDTPGHADFGGEVERVLSMVDSVLLLVDAVEGPMPQTRFVTKKALALGLK 122

		            ++E T +NI+DTPGH DF  EV R LS++D  +LL+ A +G   QTR +      +G+ 

		Sbjct: 63  FQWENTKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALRKMGIP 122

		

		Query: 123 PIVIVNKIDRPGARIDWV-------------INQTFDLFDKLGATE----EQLDFPIV-- 163

		            I  +NKID+ G  +  V             I Q  +L+  +  T     EQ D  I   

		Sbjct: 123 TIFFINKIDQNGIDLSTVYQDIKEKLSAEIVIKQKVELYPNMCVTNFTESEQWDTVIEGN 182

		

		Query: 164 -----------------YASGLNGY---ASLDP-----AAREGDMRPLFEAVLQHVPVRP 198

		                                 +      SL P     A     +  L E +        

		Sbjct: 183 DDLLEKYMSGKSLEALELEQEESIRFHNCSLFPVYHGSAKNNIGIDNLIEVITNKFYSST 242

		

		Query: 199 ADPDAPLQLQITSLDYSTYVGRIGVGRITRGRIKPGQPVAMRFGPEGDVLNRKINQVLSF 258

		               + L  ++  ++YS    R+   R+  G +     V  R   +  +   KI ++ + 

		Sbjct: 243 HRGQSELCGKVFKIEYSEKRQRLAYIRLYSGVLHLRDSV--RISEKEKI---KITEMYTS 297

		

		Query: 259 TGLERVQVDSAEAGDIVLINGIEDVGIGATICAVDTPEALPMITVDEPTLTMNFLVNSSP 318

		              E  ++D A +G+IV++   E + + + +           I    P L      +   

		Sbjct: 298 INGELCKIDKAYSGEIVILQN-EFLKLNSVLGDTKLLPQRERIENPLPLLQTTVEPSKPQ 356

		

		Query: 319 LAGREGKFVTSRQIRDRLMKELNHNVALRVKDTGDETVFEVSGRGELHLTILVENMRRE- 377

		                   +      D L++         V     E +  +S  G++ + +    ++ + 

		Sbjct: 357 QREMLLDALLEISDSDPLLR-------YYVDSATHEII--LSFLGKVQMEVTCALLQEKY 407

		

		Query: 378 GYELAVSRPRVVMQE 392

		             E+ +  P V+  E

		Sbjct: 408 HVEIEIKEPTVIYME 422

		

		

		

		 Score = 34.4 bits (79), Expect = 0.001

		 Identities = 16/100 (16%), Positives = 32/100 (32%), Gaps = 1/100 (1%)

		

		Query: 387 RVVMQEIDGVRHEPYELLTVDVEDEHQGGVMEELGRRKGEMLDMASDGRGRTRLEYKISA 446

		             V+++      EPY    +    E+      +  +    ++D          L  +I A

		Sbjct: 525 EQVLKKAGTELLEPYLSFKIYAPQEYLSRAYTDAPKYCANIVD-TQLKNNEVILSGEIPA 583

		

		Query: 447 RGLIGFQSEFLTLTRGTGLMSHIFDSYAPVKDGSVFERRN 486

		           R +  ++S+    T G  +       Y       V + R 

		Sbjct: 584 RCIQEYRSDLTFFTNGRSVCLTELKGYHVTTGEPVCQPRR 623

		

		

		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D

		           signature.

		          Length = 478

		

		 Score = 31.7 bits (72), Expect = 0.005

		 Identities = 9/92 (9%), Positives = 29/92 (31%), Gaps = 5/92 (5%)

		

		Query: 48  EVPAPAAGVLAQVLQNDGDTVVADQIIATID---TEAKAGAAEAAAGAAEVKPAAAPAAA 104

		           E+      ++ +++  +G++V    ++  +     EA     +++   A +         

		Sbjct: 98  EIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARL--EQTRYQI 155

		

		Query: 105 APAAQPAAAVASSSAAASPAASKLLAEKGLSA 136

		              +     +        P    +  E+ L  

		Sbjct: 156 LSRSIELNKLPELKLPDEPYFQNVSEEEVLRL 187

		

		

		>cloacin#Cloacin signature.

		          Length = 551

		

		 Score = 35.5 bits (81), Expect = 5e-04

		 Identities = 29/83 (34%), Positives = 35/83 (42%), Gaps = 5/83 (6%)

		

		Query: 30  GGSGSISKGISGGSGSGGSDSISTSGGGTSSGTSGSTSGGTSGSTSGSTSGSTSGSTSGS 89

		            G+ S S  I+GG    G    ++ G G SS    +  GG SGS      GS  G+  G 

		Sbjct: 11  TGAHSTSGNINGGPTGLGVGGGASDGSGWSS--ENNPWGGGSGSGIHWGGGSGHGNGGG- 67

		

		Query: 90  TSGTTSGTSSGTSGTSGVSANPV 112

		                SG  SGT G     A PV

		Sbjct: 68  --NGNSGGGSGTGGNLSAVAAPV 88

		

		

		>PREPILNPTASE#Type IV prepilin cysteine protease (C20) family

		           signature.

		          Length = 290

		

		 Score = 44.8 bits (106), Expect = 3e-08

		 Identities = 27/120 (22%), Positives = 50/120 (41%), Gaps = 10/120 (8%)

		

		Query: 10  FLGWAAFVAAGDIRFRRIRNSLVVAGLFGALVAAAIGRNPFGISLTQSLVGAAVGLVCFF 69

		                  +   D+    + + L +  L+G L+   +    F +SL  +++GA  G +  +

		Sbjct: 140 LTWVLVALTFIDLDKMLLPDQLTLPLLWGGLLFNLL--GGF-VSLGDAVIGAMAGYLVLW 196

		

		Query: 70  PLFAL-------RVMGAADVKVFAVLGAWCGAPMLLLLWIVGSLAAGVHALCVMLLSRTS 122

		            L+           MG  D K+ A LGAW G   L ++ ++ SL      + ++LL    

		Sbjct: 197 SLYWAFKLLTGKEGMGYGDFKLLAALGAWLGWQALPIVLLLSSLVGAFMGIGLILLRNHH 256

		

		

		>BCTERIALGSPD#Bacterial general secretion pathway protein D

		           signature.

		          Length = 660

		

		 Score =  140 bits (353), Expect = 6e-38

		 Identities = 61/249 (24%), Positives = 115/249 (46%), Gaps = 8/249 (3%)

		

		Query: 177 VQVDVRVVEFSRSVLKQVGFNF-FKQSNGFSFGSFSPGGVQSYNGGSGPGTAGYIPALGA 235

		           V V+  + E   +    +G  +  K +    F +       +  G +     G + +  A

		Sbjct: 347 VLVEAIIAEVQDADGLNLGIQWANKNAGMTQFTNSGLPISTAIAGANQYNKDGTVSSSLA 406

		

		Query: 236 PVASAFNLVVNAAGRGIF-ADLSLLEANNMARVLAEPTLVALSGQSASFLAGGEIPVPSP 294

		              S+FN +     +G +   L+ L ++    +LA P++V L    A+F  G E+PV + 

		Sbjct: 407 SALSSFNGIAAGFYQGNWAMLLTALSSSTKNDILATPSIVTLDNMEATFNVGQEVPVLTG 466

		

		Query: 295 QGLGSTA-----IQWKQYGVGLSLTPTVLGPNRIALKVAPESSQLDFVNSVTISGVAVPG 349

		               S       ++ K  G+ L + P +   + + L++  E S +    S T S +    

		Sbjct: 467 SQTTSGDNIFNTVERKTVGIKLKVKPQINEGDSVLLEIEQEVSSVADAASSTSSDLGAT- 525

		

		Query: 350 ITTRRADTTVELGDGESFVIGGLIDRQTMSNVSKVPLLGDLPIIGTFFKNLNYQQNDKEL 409

		             TR  +  V +G GE+ V+GGL+D+       KVPLLGD+P+IG  F++ + + + + L

		Sbjct: 526 FNTRTVNNAVLVGSGETVVVGGLLDKSVSDTADKVPLLGDIPVIGALFRSTSKKVSKRNL 585

		

		Query: 410 LIIVTPHLV 418

		           ++ + P ++

		Sbjct: 586 MLFIRPTVI 594

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 37.5 bits (87), Expect = 1e-04

		 Identities = 22/131 (16%), Positives = 46/131 (35%), Gaps = 12/131 (9%)

		

		Query: 24  EAHVRW-LADTLVSAG--AVEAASLEPGMLAQRITGLNPALVFIDFSERSDAASVAAAAV 80

		           +A +R  L   L  AG      ++       + I   +  LV  D     + A      +

		Sbjct: 12  DAAIRTVLNQALSRAGYDVRITSNAATLW--RWIAAGDGDLVVTDVVMPDENAFDLLPRI 69

		

		Query: 81  RAAYPALPIVALGSLAQPESTLAALRAGVRDFI-------DVSASAEEALRTTRGLLSHV 133

		           + A P LP++ + +     + + A   G  D++       ++      AL   +   S +

		Sbjct: 70  KKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKRRPSKL 129

		

		Query: 134 SEPASRHGKVV 144

		            + +     +V

		Sbjct: 130 EDDSQDGMPLV 140

		

		

		>PF07132#Harpin protein (HrpN)

		          Length = 356

		

		 Score = 28.9 bits (64), Expect = 0.039

		 Identities = 13/21 (61%), Positives = 13/21 (61%)

		

		Query: 431 GGMGGGGFGGGFGGGGFGRGG 451

		           G M GGG GGG GG G   GG

		Sbjct: 62  GSMMGGGLGGGLGGLGSSLGG 82

		

		

		>VACCYTOTOXIN#Helicobacter pylori vacuolating cytotoxin signature.

		          Length = 1291

		

		 Score = 30.0 bits (67), Expect = 0.037

		 Identities = 61/267 (22%), Positives = 96/267 (35%), Gaps = 30/267 (11%)

		

		Query: 44  TSDPSGCLSDAKNNVTSSANI----NDKGYAFTLISATATANPTAGNDQIAVSCGRWDSA 99

		            + P G   D  N+  S+       NDK  +    S T   NP   N        + +  

		Sbjct: 324 IAPPEGGYKDKPNDKPSNTTQNNAKNDKQESSQNNSNTQVINPP--NSA-----QKTEIQ 376

		

		Query: 100 TAYVTPASASANAAQVTAYRQVNYFFLGLLSQLSGRQAVVSATATARAAAIDTFSVGSTL 159

		              V     +     V     VN   +   +  + R     A+ T  AA +     G  L

		Sbjct: 377 PTQVIDGPFAGGKNTV-----VNINRINTNADGTIRVGGFKASLTTNAAHLHIGKGGINL 431

		

		Query: 160 ANLNTSSSAILDPLLTGL-LGATTNVNVGLANYQALAGANVTLGQLATVATQLGTAGMSS 218

		           +N  +  S +++ L   + +     VN       ALAG++      A   T+ GTA  ++

		Sbjct: 432 SNQASGRSLLVENLTGNITVDGPLRVN-NQVGGYALAGSSANFEFKAGTDTKNGTATFNN 490

		

		Query: 219 PASVGKLLGLNLTVSDILSLTATAVGSNTTVGTVLTALKTSVGANVNANKISLGSLLQYS 278

		             S+G+   +NL V    + TA   G +T  G   T   + V   VN NK+        +

		Sbjct: 491 DISLGRF--VNLKVD---AHTANFKGIDTGNGGFNTLDFSGVTNKVNINKLI-------T 538

		

		Query: 279 GGNAEAAANASINVLQLLLATAEIGAY 305

		                A  N +IN L +      +G Y

		Sbjct: 539 ASTNVAVKNFNINELVVKTNGVSVGEY 565

		

		

		>PF00577#Outer membrane usher protein FimD

		          Length = 878

		

		 Score =  676 bits (1747), Expect = 0.0

		 Identities = 240/855 (28%), Positives = 360/855 (42%), Gaps = 65/855 (7%)

		

		Query: 1   MLVVVSPSHATEFNSSFLDIDGTSNVDLSQFSQPDFTLPGEYMLDVQVNDLFYGLQAIQF 60

		                  S    FN  FL  D  +  DLS+F       PG Y +D+ +N+ +   + + F

		Sbjct: 37  AAQAPLSSAELYFNPRFLADDPQAVADLSRFENGQELPPGTYRVDIYLNNGYMATRDVTF 96

		

		Query: 61  IALDASGAGKPCLPPELVARFGLKPSLAKDLPRLQGGRCVDLG-AIEGATVRYLKSDGRL 119

		              D+     PCL    +A  GL  +    +  L    CV L   I  AT +      RL

		Sbjct: 97  NTGDSEQGIVPCLTRAQLASMGLNTASVSGMNLLADDACVPLTSMIHDATAQLDVGQQRL 156

		

		Query: 120 KITIPQAALEFTDSTYLPPSSWSDGIAGAMLDYRVIANTNRNFGSDGGQTNSIQAYGTIG 179

		            +TIPQA +      Y+PP  W  GI   +L+Y    N+ +N    GG ++        G

		Sbjct: 157 NLTIPQAFMSNRARGYIPPELWDPGINAGLLNYNFSGNSVQNRI--GGNSHYAYLNLQSG 214

		

		Query: 180 ANWDAWRLRGDYQAQSNVGNTAYADRT-FRFSRLYAFRALPSIQSTVTFGDDYLSSDIFD 238

		            N  AWRLR +     N  +++   +  ++    +  R +  ++S +T GD Y   DIFD

		Sbjct: 215 LNIGAWRLRDNTTWSYNSSDSSSGSKNKWQHINTWLERDIIPLRSRLTLGDGYTQGDIFD 274

		

		Query: 239 TFALTGASIRSDDRMLPPSLRGYAPLISGVARTNATVTVSQAGRVLYVTRVSPGAFALQN 298

		                GA + SDD MLP S RG+AP+I G+AR  A VT+ Q G  +Y + V PG F + +

		Sbjct: 275 GINFRGAQLASDDNMLPDSQRGFAPVIHGIARGTAQVTIKQNGYDIYNSTVPPGPFTIND 334

		

		Query: 299 IN-TSVQGTLDVTVDEEDGSVQRFQVTTAAVPFLARTGQLRYKAAVGKPRQFGGAGITPF 357

		           I      G L VT+ E DGS Q F V  ++VP L R G  RY    G+ R        P 

		Sbjct: 335 IYAAGNSGDLQVTIKEADGSTQIFTVPYSSVPLLQREGHTRYSITAGEYRSGNAQQEKPR 394

		

		Query: 358 FGFGEAAYGLPFDITLYGGFIAASGYTSIALGVGRDFGTFGAVSADVTHARAHLWWNGAT 417

		           F      +GLP   T+YGG   A  Y +   G+G++ G  GA+S D+T A + L  + + 

		Sbjct: 395 FFQSTLLHGLPAGWTIYGGTQLADRYRAFNFGIGKNMGALGALSVDMTQANSTL-PDDSQ 453

		

		Query: 418 RNGNSYRINYSKHFDGLDADVRFFGYRFSEREYTNFAQFSGDPTAYGL------------ 465

		            +G S R  Y+K  +    +++  GYR+S   Y NFA  +                    

		Sbjct: 454 HDGQSVRFLYNKSLNESGTNIQLVGYRYSTSGYFNFADTTYSRMNGYNIETQDGVIQVKP 513

		

		Query: 466 ---------ANSKQRYSATMSKRFGDTST-YFSYDQTTYW-ARASEQRVGLTLTRAFSIG 514

		                     N + +   T++++ G TST Y S    TYW     +++    L  AF   

		Sbjct: 514 KFTDYYNLAYNKRGKLQLTVTQQLGRTSTLYLSGSHQTYWGTSNVDEQFQAGLNTAF--- 570

		

		Query: 515 ALRNLNVSVSAFRTQSAGASGNQFSVTATLPIGGRHTVTSNLTTGSGSTSMNAGYIYDDP 574

		              ++N ++S   T++A   G    +   + I   H + S+  +     S +    +D  

		Sbjct: 571 --EDINWTLSYSLTKNAWQKGRDQMLALNVNIPFSHWLRSDSKSQWRHASASYSMSHDLN 628

		

		Query: 575 AGRT----------------YQINAGATDGRASANASFRQRTSTYQ-----LSAQASTLA 613

		              T                Y +  G   G    + S    T  Y+      +   S  +

		Sbjct: 629 GRMTNLAGVYGTLLEDNNLSYSVQTGYAGGGDGNSGSTGYATLNYRGGYGNANIGYSH-S 687

		

		Query: 614 NAYAAASLEVDGSLVATQYGVSAHANGNAGDTRLLVSTDGVPDVPLS-GTLTHTDSRGYA 672

		           +        V G ++A   GV+        DT +LV   G  D  +   T   TD RGYA

		Sbjct: 688 DDIKQLYYGVSGGVLAHANGVTLGQPL--NDTVVLVKAPGAKDAKVENQTGVRTDWRGYA 745

		

		Query: 673 VLDGISPYNVYDATVNVEKLPLEVQVSNPIQRMVLTDGAIGFVKFSAARGSNLYLTLTDV 732

		           VL   + Y      ++   L   V + N +  +V T GAI   +F A  G  L +TLT  

		Sbjct: 746 VLPYATEYRENRVALDTNTLADNVDLDNAVANVVPTRGAIVRAEFKARVGIKLLMTLTH- 804

		

		Query: 733 AGKPLPFGASVQDAANGKELGIVGEAGAAFLTQVQPKSALVVRAGERT--LCAVN-ALPN 789

		             KPLPFGA V    + +  GIV + G  +L+ +     + V+ GE     C  N  LP 

		Sbjct: 805 NNKPLPFGAMVTS-ESSQSSGIVADNGQVYLSGMPLAGKVQVKWGEEENAHCVANYQLPP 863

		

		Query: 790 QLQLEG-TPIPVTCQ 803

		           + Q +  T +   C+

		Sbjct: 864 ESQQQLLTQLSAECR 878

		

		

		>PF05272#Virulence-associated E family protein

		          Length = 892

		

		 Score = 28.9 bits (64), Expect = 0.030

		 Identities = 12/23 (52%), Positives = 13/23 (56%)

		

		Query: 35  VTALCGPNGCGKSTLLRTLAGLQ 57

		              L G  G GKSTL+ TL GL 

		Sbjct: 598 SVVLEGTGGIGKSTLINTLVGLD 620

		

		

		>2FE2SRDCTASE#Ferric iron reductase signature.

		          Length = 262

		

		 Score = 76.2 bits (187), Expect = 2e-18

		 Identities = 57/198 (28%), Positives = 87/198 (43%), Gaps = 16/198 (8%)

		

		Query: 58  DAMVRHYGGDPAQHARALMSQWSKYYFGRAAPAGVVAALTLGRPLDMAPERTFVAL-DDG 116

		           D + R+      ++ + L+S W+++Y G   P  ++A LT  + LD++PE       + G

		Sbjct: 75  DHIYRNQPMMIREN-KPLISLWAQWYIGLMVPPLMLALLTQEKALDVSPEHFHAEFHETG 133

		

		Query: 117 MPAALYF--APDALGAPCSEPAPRYAGLVAHLGEVIDLLAAMGRVTPRVLWSNAGNLLDY 174

		             A  +     D    P S        +   L  V+  L A G +  +++WSN G L+++

		Sbjct: 134 RVACFWVDVCEDKNATPHSPQHRMETLISQALVPVVQALEATGEINGKLIWSNTGYLINW 193

		

		Query: 175 LLDTY--RLLPCVADPVRDADWLFGASCVHGEPNPLRLPVRDAVPRSPLLPTPFRARRVC 232

		            L      L     + +R A   F  +  +GE NPL    R  V R  LL      RR C

		Sbjct: 194 YLTEMKQLLGEATVESLRHA-LFFEKTLTNGEDNPL---WRTVVLRDGLL-----VRRTC 244

		

		Query: 233 CLRYEIPGETQLCGSCPL 250

		           C RY +P   Q CG C L

		Sbjct: 245 CQRYRLPD-VQQCGDCTL 261

		

		

		>FERRIBNDNGPP#Ferrichrome-binding periplasmic protein signature.

		          Length = 296

		

		 Score =  111 bits (279), Expect = 1e-30

		 Identities = 68/272 (25%), Positives = 114/272 (41%), Gaps = 15/272 (5%)

		

		Query: 67  PQRVVALDFMFAESVIALDLVPVGMADTALYPGWLGYGSDRLAHVTDIGSRQEPGLEAIA 126

		           P R+VAL+++  E ++AL +VP G+ADT  Y  W+         V D+G R EP LE + 

		Sbjct: 35  PNRIVALEWLPVELLLALGIVPYGVADTINYRLWVSEPP-LPDSVIDVGLRTEPNLELLT 93

		

		Query: 127 AVKPDLIIGVGFRHAPIFAALDRIAPTILFQFSPNVSEDGVPVTQLDWMREIFRTIGAVT 186

		            +KP  ++     + P    L RIAP   F FS            L   R+    +  + 

		Sbjct: 94  EMKPSFMVW-SAGYGPSPEMLARIAPGRGFNFSDGKQ-------PLAMARKSLTEMADLL 145

		

		Query: 187 GRDARAKAIDAQLDAGIARNAARLTAAGRSGERIALLQDLGLPDRYWAYTGNSTSAGLAR 246

		              + A+   AQ +  I     R     + G R  LL  L  P     +  NS    +  

		Sbjct: 146 NLQSAAETHLAQYEDFIRSMKPRFV---KRGARPLLLTTLIDPRHMLVFGPNSLFQEILD 202

		

		Query: 247 ALGLE-PWPKKPTREGTLYVTSADLLRQRDLAVLFVTATGMDVPLSSKLDSPVWRFVPAL 305

		             G+   W  +    G+  V+   L   +D+ VL          + + + +P+W+ +P +

		Sbjct: 203 EYGIPNAWQGETNFWGSTAVSIDRLAAYKDVDVLCFDHDNSKD-MDALMATPLWQAMPFV 261

		

		Query: 306 RDHRIALIERNIWGFGGPMSALKLADVMTDTM 337

		           R  R   +   +W +G  +SA+    V+ + +

		Sbjct: 262 RAGRFQRVP-AVWFYGATLSAMHFVRVLDNAI 292

		

		

		>TYPE4SSCAGA#Type IV secretion system CagA exotoxin signature.

		          Length = 1147

		

		 Score = 32.0 bits (72), Expect = 0.005

		 Identities = 15/35 (42%), Positives = 20/35 (57%)

		

		Query: 237 AIHAGDAPNVIPDRAQMRLSVRALKPEVRDLLEAR 271

		           AI+    P+V PD A     ++ L PE RDLL+ R

		Sbjct: 227 AINQEPVPHVQPDIATTTTDIQGLPPEARDLLDER 261

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 42.1 bits (99), Expect = 2e-06

		 Identities = 36/178 (20%), Positives = 57/178 (32%), Gaps = 20/178 (11%)

		

		Query: 7   PRARAVFPFAALVAQQP-----LQQALLLAAIDPSLGGVLVSGPRGTAKSTAARALAELL 61

		                      LV +        +    L   D +   ++++G  GT K   ARAL +  

		Sbjct: 128 KLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTDLT---LMITGESGTGKELVARALHDYG 184

		

		Query: 62  P--EGEFVTLPLSASDEQVTGTLDLAHALAA--NGVRFRPGLLARAHRGVLYVDEVNLLA 117

		               G FV + ++A    +  +    H   A         G   +A  G L++DE+  + 

		Sbjct: 185 KRRNGPFVAINMAAIPRDLIESELFGHEKGAFTGAQTRSTGRFEQAEGGTLFLDEIGDMP 244

		

		Query: 118 DGLVDTLLDVAASGVNVVERDGVSHAH--DARFVLVGTMNPE----EGELRPQLLDRF 169

		                 LL V   G       G       D R V     + +    +G  R  L  R 

		Sbjct: 245 MDAQTRLLRVLQQG--EYTTVGGRTPIRSDVRIVAATNKDLKQSINQGLFREDLYYRL 300

		

		

		>TCRTETB#Tetracycline resistance protein TetB signature.

		          Length = 458

		

		 Score = 31.0 bits (70), Expect = 0.007

		 Identities = 23/125 (18%), Positives = 45/125 (36%), Gaps = 4/125 (3%)

		

		Query: 40  GIGDGAASLLTTIPILLMGVGALSARRLQRVTGIAGGVWLGVVLIGFAC-ASRIGAQHAW 98

		                + + + T  +L   +G     +L    GI   +  G+++  F      +G     

		Sbjct: 45  NKPPASTNWVNTAFMLTFSIGTAVYGKLSDQLGIKRLLLFGIIINCFGSVIGFVGHSFFS 104

		

		Query: 99  VLLASACCAGIGIAMVQALLPGFVKAHFATRI--GGAMGVYSTSIMGGAVLASVVAPFAA 156

		           +L+ +    G G A   AL+   V A +  +   G A G+  + +  G  +   +    A

		Sbjct: 105 LLIMARFIQGAGAAAFPALVMVVV-ARYIPKENRGKAFGLIGSIVAMGEGVGPAIGGMIA 163

		

		Query: 157 ARWGW 161

		               W

		Sbjct: 164 HYIHW 168

		

		

		>adhesinmafb#Neisseria meningitidis: adhesin MafB signature.

		          Length = 467

		

		 Score = 29.3 bits (65), Expect = 0.014

		 Identities = 21/74 (28%), Positives = 34/74 (45%), Gaps = 6/74 (8%)

		

		Query: 88  FESGAILLYLADKTGQLIPKDAAGRYETIQWVMFQMGGIGP----MFGQVGFFHKFAGRD 143

		           +E G       D  G +   D  G+   IQ    QMG +      + G +G+  +F+G  

		Sbjct: 45  YEPGGKYHLFGDPRGSV--SDRTGKINVIQDYTHQMGNLLIQQANINGTIGYHTRFSGHG 102

		

		Query: 144 YEDKRPRDRYAAES 157

		           +E+  P D +AA+S

		Sbjct: 103 HEEHAPFDNHAADS 116

		

		

		>NEISSPPORIN#Neisseria sp. porin signature.

		          Length = 348

		

		 Score = 61.9 bits (150), Expect = 8e-13

		 Identities = 101/408 (24%), Positives = 147/408 (36%), Gaps = 94/408 (23%)

		

		Query: 1   MKTKLAALAALAGCSAFAHAQSSFTLYGVVDTGLLYQSTSAASFRPNAPNTGKVFRMKDG 60

		           MK  L AL   A   A   A +  TLYG +  G+        ++R      GKV +++ G

		Sbjct: 1   MKKSLIALTLAALPVA---AMADVTLYGAIKAGV-------QTYRSVEHTDGKVSKVETG 50

		

		Query: 61  ---GIYSSFWGIKGSEDLGGGYKVNFKL-QGSFDSGTGRLQLSDTPGAVAIFNQIASLGV 116

		                + S  G KG EDLG G K  ++L QG+  +GT               N+ + +G+

		Sbjct: 51  SEIADFGSKIGFKGQEDLGNGLKAVWQLEQGASVAGTNT----------GWGNKQSFVGL 100

		

		Query: 117 SGPFGTVTAGRQIVPMIYAMADTDVRNAQFFGSVLTAWLGLNTAAGWPATSTNGAIGALY 176

		            G FGT+ AG     +   + +T        G+ + AW            S        Y

		Sbjct: 101 KGGFGTIRAGS----LNSPLKNT--------GANVNAWESGKFTGNVLEISGMAQREHRY 148

		

		Query: 177 DSNALVYQSPTFGGVSLALEYAP-------------------GGVAGQFQGGTRESVVLR 217

		            S  + Y SP F G S +++YAP                    G   Q+ G         

		Sbjct: 149 LS--VRYDSPEFAGFSGSVQYAPKDNSGSNGESYHVGLNYQNSGFFAQYAG--------L 198

		

		Query: 218 YSNYGLNASAVYYNGHDTNPAPGVAPT--------GVDNNRFVYVGAKYTVRDFSVSASY 269

		           +  YG     + Y+    +                G DNN  +YV      +D  +   Y

		Sbjct: 199 FQRYGEGTKKIEYDDQTYSIPSLFVEKLQVHRLVGGYDNNA-LYVSVAAQQQDAKL---Y 254

		

		Query: 270 GNGRNPAHADRVNLDMLSAGVGYRF---TPALQVASAVYYLKDRNRATNRSTAVVLTADY 326

		           G     +H  +     ++A   YRF   TP +  A       D     N    VV+ A+Y

		Sbjct: 255 GAMSGNSHNSQTE---VAATAAYRFGNVTPRVSYAHGFKGTVDSANHDNTYDQVVVGAEY 311

		

		Query: 327 SLSKRTMVYAQAGHVNNRGTMDQMLVYGQPVAPGVGTTAAMVGLRHNF 374

		             SKRT     AG +   G     +V          +TA+ V LRH F

		Sbjct: 312 DFSKRTSALVSAGWL-QGGKGADKIV----------STASAVVLRHKF 348