PredictBias

		>SUBTILISIN#Subtilisin serine protease family (S8) signature.

		          Length = 326

		

		 Score = 91.8 bits (228), Expect = 8e-22

		 Identities = 42/160 (26%), Positives = 64/160 (40%), Gaps = 24/160 (15%)

		

		Query: 264 DIDWTQTDDDTKYESHGMHVTGIVAGNSKEAAATGERFLGIAPEAQVMFMRVFANDIMGS 323

		           + D     D      HG HV G +A             +G+APEA ++ ++V      G 

		Sbjct: 74  EGDPEIFKDY---NGHGTHVAGTIAAT-----ENENGVVGVAPEADLLIIKVLNKQGSGQ 125

		

		Query: 324 AESLFIKAIEDAVALGADVINLSLGTANGAQLSGSKPLMEAIEKAKKAGVSVVVAAGNER 383

		            + + I+ I  A+    D+I++SLG            L EA++KA  + + V+ AAGNE 

		Sbjct: 126 YDWI-IQGIYYAIEQKVDIISMSLGGP-----EDVPELHEAVKKAVASQILVMCAAGNEG 179

		

		Query: 384 VYGSDHDDPLATNPDYGLVGSPSTGRTPTSVAAINSKWVI 423

		                 D+          +G P       SV AIN     

		Sbjct: 180 DGDDRTDE----------LGYPGCYNEVISVGAINFDRHA 209

		

		

		

		 Score = 78.7 bits (194), Expect = 2e-17

		 Identities = 36/147 (24%), Positives = 58/147 (39%), Gaps = 18/147 (12%)

		

		Query: 561 FDSVVSKAPSQKGNEMNHFSNWGLTSDGYLKPDITAPGGDIYSTYNDNHYGSQTGTSMAS 620

		           ++ V+S          + FSN         + D+ APG DI ST     Y + +GTSMA+

		Sbjct: 194 YNEVISVGAINFDRHASEFSNSNN------EVDLVAPGEDILSTVPGGKYATFSGTSMAT 247

		

		Query: 621 PQIAGASLLVKQ-YLEKTQPNLPKEKIADIVKNLLMSNAQIHVNPETKTTTSPRQQGAGL 679

		           P +AGA  L+KQ      + +L        +   L+               SP+ +G GL

		Sbjct: 248 PHVAGALALIKQLANASFERDL----TEPELYAQLIKRT-------IPLGNSPKMEGNGL 296

		

		Query: 680 LNIDGAVTSGLYVTGKDNYGSISLGNI 706

		           L +            +   G +S  ++

		Sbjct: 297 LYLTAVEELSRIFDTQRVAGILSTASL 323

		

		

		

		 Score = 40.6 bits (95), Expect = 4e-05

		 Identities = 11/34 (32%), Positives = 18/34 (52%), Gaps = 1/34 (2%)

		

		Query: 127 HDWVKTKGAWDKGYKGQGKVVAVIDTGIDPAHQS 160

		            + ++    W++   G+G  VAV+DTG D  H  

		Sbjct: 26  VEMIQAPAVWNQTR-GRGVKVAVLDTGCDADHPD 58

		

		

		>BINARYTOXINA#Clostridial binary toxin A signature.

		          Length = 454

		

		 Score = 38.5 bits (89), Expect = 2e-05

		 Identities = 42/170 (24%), Positives = 70/170 (41%), Gaps = 27/170 (15%)

		

		Query: 88  INTSLDKAKGELSQLTPELRDQVAQLDAATHRLVIPWNIVVYRYVYETFLRDIGVSHADL 147

		           IN  L  + G L+   PEL  +V  ++ A     IP N++VYR          G     L

		Sbjct: 295 INNYL-ISNGPLNNPNPELDSKVNNIENALKLTPIPSNLIVYRRS--------GPQEFGL 345

		

		Query: 148 TSYYRNHQFDPHILCKIK---------LGTRYTKHSFMSTT--ALKNGAMTHRPVEVRIC 196

		           T     + F+     KI+          G   T  +F+ST+  ++   A   R + +RI 

		Sbjct: 346 TLTSPEYDFN-----KIENIDAFKEKWEGKVITYPNFISTSIGSVNMSAFAKRKIILRIN 400

		

		Query: 197 VKKGAKAAFVEPYSAVPSEVELLFPRGCQLEV--VGAYVSQDQKKLHIEA 244

		           + K +  A++        E E+L   G + ++  V +Y      KL ++A

		Sbjct: 401 IPKDSPGAYLSAIPGYAGEYEVLLNHGSKFKINKVDSYKDGTVTKLILDA 450

		

		

		>BACTRLTOXIN#Bacterial toxin signature.

		          Length = 266

		

		 Score = 98.5 bits (245), Expect = 5e-27

		 Identities = 55/216 (25%), Positives = 96/216 (44%), Gaps = 20/216 (9%)

		

		Query: 35  LNYAYEIIPVDYTNC-NIDYLTTHDFYIDISSYKKKNF-SVDSEVESYITTKFTKNQKVN 92

		           + Y Y+   V  T   ++D    HD   +IS  K KN+  V +E+ +    K  K++ V+

		Sbjct: 51  MKYLYDDHYVSATKVKSVDKFLAHDLIYNISDKKLKNYDKVKTELLNEDLAKKYKDEVVD 110

		

		Query: 93  IFGLPYIFTRYDVYY------------IYGGVTPSVNSNSENSKIVGNLLID--GVQQKT 138

		           ++G  Y    Y                +YGG+T     N  ++  + N+L+     ++ T

		Sbjct: 111 VYGSNYYVNCYFSSKDNVGKVTGGKTCMYGGITKHEG-NHFDNGNLQNVLVRVYENKRNT 169

		

		Query: 139 LINPIKIDKPIFTIQEFDFKIRQYLMQTYKIYDPN-SPYIKGQLEIAINGNKHESFNLYD 197

		           +   ++ DK   T QE D K R +L+    +Y+ N SPY  G ++   N      +++  

		Sbjct: 170 ISFEVQTDKKSVTAQELDIKARNFLINKKNLYEFNSSPYETGYIKFIENNGNTFWYDMMP 229

		

		Query: 198 ATSS-STRSDIFKKYKDNKTINMKDFSHFDIYLWTK 232

		           A      +S     Y DNKT++ K     +++L TK

		Sbjct: 230 APGDKFDQSKYLMMYNDNKTVDSKS-VKIEVHLTTK 264

		

		

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

		           signature.

		          Length = 261

		

		 Score = 99.7 bits (248), Expect = 2e-27

		 Identities = 68/252 (26%), Positives = 109/252 (43%), Gaps = 24/252 (9%)

		

		Query: 6   KVVLVTGCASGIGYAQARYFLKQGHHVYGVDKSDKPDLSGNFHFIKLDLSSELAPL---- 61

		           K+  +TG A GIG A AR    QG H+  VD + +               +E  P     

		Sbjct: 9   KIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAFPADVRD 68

		

		Query: 62  -----------FKVVPSVDILCNTAGILDAYKPLLDVSDEEVEHLFDINFFATVKLTRHY 110

		                       + +  +DIL N AG+L     +  +SDEE E  F +N       +R  

		Sbjct: 69  SAAIDEITARIEREMGPIDILVNVAGVLRP-GLIHSLSDEEWEATFSVNSTGVFNASRSV 127

		

		Query: 111 LRRMVEKQSGVIINMCSIASFIAGGGGVAYTSSKHALAGFTRQLALDYAKDQIHIFGIAP 170

		            + M++++SG I+ + S  + +      AY SSK A   FT+ L L+ A+  I    ++P

		Sbjct: 128 SKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCNIVSP 187

		

		Query: 171 GAVKTAM-----TANDFEP---GGLADWVARETPIGRWTKPDEVAELTGFLASGKARSMQ 222

		           G+ +T M        +       G  +      P+ +  KP ++A+   FL SG+A  + 

		Sbjct: 188 GSTETDMQWSLWADENGAEQVIKGSLETFKTGIPLKKLAKPSDIADAVLFLVSGQAGHIT 247

		

		Query: 223 GEIVKIDGGWTL 234

		              + +DGG TL

		Sbjct: 248 MHNLCVDGGATL 259

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 91.8 bits (228), Expect = 1e-23

		 Identities = 29/133 (21%), Positives = 65/133 (48%), Gaps = 1/133 (0%)

		

		Query: 3   KILIVDDEKPISDIIKFNLTKEGYDIVTAFDGREAVTIFEEEKPDLIILDLMLPELDGLE 62

		            IL+ DD+  I  ++   L++ GYD+    +             DL++ D+++P+ +  +

		Sbjct: 5   TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64

		

		Query: 63  VAKEIRKT-SHVPIIMLSAKDSEFDKVIGLEIGADDYVTKPFSNRELLARVKAHLRRTET 121

		           +   I+K    +P++++SA+++    +   E GA DY+ KPF   EL+  +   L   + 

		Sbjct: 65  LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKR 124

		

		Query: 122 IETAVAEENASSG 134

		             + + +++    

		Sbjct: 125 RPSKLEDDSQDGM 137

		

		

		>PF06580#Sensor histidine kinase

		          Length = 349

		

		 Score = 44.1 bits (104), Expect = 7e-07

		 Identities = 30/187 (16%), Positives = 72/187 (38%), Gaps = 34/187 (18%)

		

		Query: 253 DETNRMMRMISDLL--NLSRIDNQVTQLAVEMTNFTAFITSILNRFDLVKNQHTGTGKVY 310

		            +   M+  +S+L+  +L   + +   LA E+T   +++     +F   +++     ++ 

		Sbjct: 191 TKAREMLTSLSELMRYSLRYSNARQVSLADELTVVDSYLQLASIQF---EDRLQFENQIN 247

		

		Query: 311 EIVRDYPITSVWIEIDNDKMTQVIENILNNAIKYSPDGGKITVRMKTTDTQLIISISDQG 370

		             + D  +  + ++        ++EN + + I   P GGKI ++    +  + + + + G

		Sbjct: 248 PAIMDVQVPPMLVQT-------LVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTG 300

		

		Query: 371 LGIPKTDLPLIFDRFYRVDKARSRAQGGTGLGLAIAKEIIKQHHGF---IWAKSDYGKGS 427

		               K                    +  TG GL   +E ++  +G    I      GK  

		Sbjct: 301 SLALKNT------------------KESTGTGLQNVRERLQMLYGTEAQIKLSEKQGKV- 341

		

		Query: 428 TFTIVLP 434

		              +++P

		Sbjct: 342 NAMVLIP 348

		

		

		>GPOSANCHOR#Gram-positive coccus surface protein anchor signature.

		          Length = 539

		

		 Score = 47.4 bits (112), Expect = 3e-07

		 Identities = 48/313 (15%), Positives = 94/313 (30%), Gaps = 10/313 (3%)

		

		Query: 209 AKVAKQFLELDANRKQLQLDILVKDIDIAQERQTKDTEALAALQQDLASYYAKRQSMEED 268

		           + VA +       + Q + D    + +  + + +  +    AL+        +  + +E 

		Sbjct: 41  SAVATRSQTDTLEKVQERADKFEIENNTLKLKNSDLSFNNKALKDHNDELTEELSNAKEK 100

		

		Query: 269 YQKFKQKKQVLSQESDQTQTTLLELTKLIADLEKQIELVKLESGQ---EAEKKAEAKKHL 325

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

		Sbjct: 101 LRKNDKSLSEKASKIQELEARKADLEKALEGAMNFSTADSAKIKTLEAEKAALAARKADL 160

		

		Query: 326 EQLQEQLDGFQAEEKQCTEQLLHIDQQLCDVKQQLNELSNALERFSSDPDQLMETLREEF 385

		           E+  E    F   +    + L      L   + +L +       FS+     ++TL  E 

		Sbjct: 161 EKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMNFSTADSAKIKTLEAEK 220

		

		Query: 386 VLLMQKEAALSNQLTALKAHLDKEKQARQHKAQEYQLLVTKLDQLNDESQKAQAHYKAQK 445

		             L  ++A L   L         +    +    E   L  +  +L    + A     A  

		Sbjct: 221 AALAARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMNFSTADS 280

		

		Query: 446 EQVEMLLQNYQEGDKRVQELERDYQLNQERLFDLLDQ-------KKGKEARKASLESIQK 498

		            +++ L       +    +LE   Q+       L          KK  EA    LE   K

		Sbjct: 281 AKIKTLEAEKAALEAEKADLEHQSQVLNANRQSLRRDLDASREAKKQLEAEHQKLEEQNK 340

		

		Query: 499 SHSQFYAGVRAVL 511

		                   +R  L

		Sbjct: 341 ISEASRQSLRRDL 353

		

		

		

		 Score = 30.8 bits (69), Expect = 0.034

		 Identities = 38/243 (15%), Positives = 88/243 (36%), Gaps = 18/243 (7%)

		

		Query: 169 KYKTRKKETQIKLNQTQDNLDRLEDIIYELDTQLAPLEKQAKVAKQFLELDANRKQLQLD 228

		             +   +            +  LE     L+ + A LEK  + A  F          ++ 

		Sbjct: 229 DLEKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMNFSTA----DSAKIK 284

		

		Query: 229 ILVKDIDIAQERQTKDTEALAALQ-------QDLASYYAKRQSMEEDYQKFKQKKQVLSQ 281

		            L  +    +  +         L        +DL +    ++ +E ++QK +++ ++   

		Sbjct: 285 TLEAEKAALEAEKADLEHQSQVLNANRQSLRRDLDASREAKKQLEAEHQKLEEQNKISEA 344

		

		Query: 282 ESDQTQTTLLELTKLIADLEKQIELVKLESGQEAEKKAEAKKHLEQLQEQLDGFQAEEKQ 341

		                +  L    +    LE + + ++       E+   ++   + L+  LD  +  +KQ

		Sbjct: 345 SRQSLRRDLDASREAKKQLEAEHQKLE-------EQNKISEASRQSLRRDLDASREAKKQ 397

		

		Query: 342 CTEQLLHIDQQLCDVKQQLNELSNALERFSSDPDQLMETLREEFVLLMQKEAALSNQLTA 401

		             + L   + +L  +++   EL  + +    +  +L   L  E   L +K A  + +L  

		Sbjct: 398 VEKALEEANSKLAALEKLNKELEESKKLTEKEKAELQAKLEAEAKALKEKLAKQAEELAK 457

		

		Query: 402 LKA 404

		           L+A

		Sbjct: 458 LRA 460

		

		

		

		 Score = 30.4 bits (68), Expect = 0.044

		 Identities = 30/163 (18%), Positives = 54/163 (33%), Gaps = 8/163 (4%)

		

		Query: 676 ELEQISEELTRLVEQLKITEKEVAALQSDLIAKKEELTQLKLAGDQARLAEQRAQMAYQQ 735

		            LE     L      L+   +      +   AK + L   K A       E R     + 

		Sbjct: 145 TLEAEKAALAARKADLEKALEGAMNFSTADSAKIKTLEAEKAA------LEARQAELEKA 198

		

		Query: 736 LQEKQEDSKALLAALDQSQTTHSDESLLAEQARIEEALTAIAKKKNALTCDIDDIKENKD 795

		           L+     S A  A +   +      +L A +A +E+AL        A +  I  ++  K 

		Sbjct: 199 LEGAMNFSTADSAKIKTLE--AEKAALAARKADLEKALEGAMNFSTADSAKIKTLEAEKA 256

		

		Query: 796 LIRQKTQNIHQALSQARLQERDLLNEKKFEQANQSRLRTQLKQ 838

		            +  +   + +AL  A         + K  +A ++ L  +   

		Sbjct: 257 ALEARQAELEKALEGAMNFSTADSAKIKTLEAEKAALEAEKAD 299

		

		

		>TCRTETA#Tetracycline resistance protein signature.

		          Length = 399

		

		 Score = 38.3 bits (89), Expect = 4e-05

		 Identities = 28/141 (19%), Positives = 59/141 (41%), Gaps = 13/141 (9%)

		

		Query: 52  SVIGVLFNLFGGVIADSFKR----KKIIITTNILCGTACLVLSFLTKEQWLVYAIVLTNV 107

		           +  G+L +L   +I          ++ ++   I  GT  ++L+F T   W+ + I+   V

		Sbjct: 253 AAFGILHSLAQAMITGPVAARLGERRALMLGMIADGTGYILLAFAT-RGWMAFPIM---V 308

		

		Query: 108 ILAFMSAFSSPSYKAFTKEIVKKDSISQLNSLLETTSTVIKVTVPMVAIFLYKLLGIHGV 167

		           +LA       P+ +A     V ++   QL   L   +++  +  P++   +Y       +

		Sbjct: 309 LLAS-GGIGMPALQAMLSRQVDEERQGQLQGSLAALTSLTSIVGPLLFTAIYA----ASI 363

		

		Query: 168 LLLDGLSFLIAALLISFILPV 188

		              +G +++  A L    LP 

		Sbjct: 364 TTWNGWAWIAGAALYLLCLPA 384

		

		

		>FLGMOTORFLIM#Flagellar motor switch protein FliM signature.

		          Length = 344

		

		 Score = 26.0 bits (57), Expect = 0.043

		 Identities = 16/63 (25%), Positives = 25/63 (39%), Gaps = 8/63 (12%)

		

		Query: 3   PLIQSLTEGQLR-SDIPNFRPGDTVRVHAKVVE-------GTRERIQIFEGVVISRKGQG 54

		            ++  +   +L   DI   R GD +R+H   V        G R++     GVV  +    

		Sbjct: 260 DVVAEVGSLRLSVRDILGLRVGDIIRLHDTHVGDPFVLSIGNRKKFLCQPGVVGKKIAAQ 319

		

		Query: 55  ISE 57

		           I E

		Sbjct: 320 ILE 322

		

		

		>PF08280#M protein trans-acting positive regulator

		          Length = 530

		

		 Score = 66.0 bits (161), Expect = 7e-15

		 Identities = 43/160 (26%), Positives = 70/160 (43%), Gaps = 2/160 (1%)

		

		Query: 5   LRPLLGNNILNSLPFKRILVSFSRLFISNLQVLLPDIHLFHYLRRQQKRNKSFYNTLKTI 64

		           +  LL N         + L+ FS+ F+ NLQ  +P+ +LF  +    K N+  Y +LK I

		Sbjct: 332 IITLLPNLKEQKASLVKALMFFSKSFLFNLQHFIPETNLF--VSPYYKGNQKLYTSLKLI 389

		

		Query: 65  VEEWMSAEGIVGKLPSYHLLLFTIQLEELLKTYLPPIPVYLLTNNTAALDLMTNALSIYF 124

		           VEEWM+       L   H  LF   +E++L+   PP+ V  + +N     L+T++   YF

		Sbjct: 390 VEEWMAKLPGKRYLNHKHFHLFCHYVEQILRNIQPPLVVVFVASNFINAHLLTDSFPRYF 449

		

		Query: 125 PPAIATVMPVNVEIIPFKDIVKEKQSVIIADRQYLNLIQH 164

		                      +       I   K  ++I   Q +  + H

		Sbjct: 450 SDKSIDFHSYYLLQDNVYQIPDLKPDLVITHSQLIPFVHH 489

		

		

		>PF08280#M protein trans-acting positive regulator

		          Length = 530

		

		 Score =  204 bits (521), Expect = 3e-64

		 Identities = 92/290 (31%), Positives = 164/290 (56%), Gaps = 5/290 (1%)

		

		Query: 1   MLHLHLETKLQDKLSLLNILLDVSEVSIDQLCQETELKKQRVYNLLFEMIKDLEDTLTLT 60

		           ++  +LE+ ++ K  L+ +    S + I ++ ++T L   ++ +   E+     D+L++T

		Sbjct: 34  LIEKYLESSIESKCQLVVLFFKTSSLPITEVAEKTGLTFLQLNHYCEELNAFFPDSLSMT 93

		

		Query: 61  ICDDTVSIPYKTYQLKMPYFKKLYQTSIFLKMLCFLIE--PGELSLHDFIKREYISQATA 118

		           I    +S  + T+  K  Y  +LY +S  L++L FLI+       L DF +  ++S ++A

		Sbjct: 94  IQKRMISCQF-THPSKETYLYQLYASSNVLQLLAFLIKNGSHSRPLTDFARSHFLSNSSA 152

		

		Query: 119 YRIRTNCRKYLKKVGLNVRQNHVVGPEYRIRFLIALLHYQFGMTIYDFDKTSMNKVVSLI 178

		           YR+R      L+   L + +N +VG EYRIR+LIALL+ +FG+ +YD  +   N + S +

		Sbjct: 153 YRMREALIPLLRNFELKLSKNKIVGEEYRIRYLIALLYSKFGIKVYDLTQQDKNIIHSFL 212

		

		Query: 179 INSNQATTLNDASKAPYEFSYFAILISLIWKRRHDNLGIPQTDAFKHLKKLSIYRDIKMT 238

		            +S+  T L  +      FS++ IL++L WKR   ++ IPQT  F+ LKKL +Y  +K +

		Sbjct: 213 SHSS--THLKTSPWLSESFSFYDILLALSWKRHQFSVTIPQTRIFQQLKKLFVYDSLKKS 270

		

		Query: 239 SQEIIGKWYHPELTDEDLDYIFLCFCTTNNPFHKDKWTPKKVKELFELVM 288

		           S++II  +     +  DLDY++L + T NN F   +WTP+ +++  +L  

		Sbjct: 271 SRDIIETYCQLNFSAGDLDYLYLIYITANNSFASLQWTPEHIRQCCQLFE 320

		

		

		>TYPE3IMSPROT#Type III secretion system inner membrane S protein

		           family signature.

		          Length = 354

		

		 Score = 30.9 bits (70), Expect = 0.003

		 Identities = 15/76 (19%), Positives = 32/76 (42%), Gaps = 1/76 (1%)

		

		Query: 37  SYQDFLDVLLSLFQFVVIILVLFFYSATINLGEVLTFLTQTSWHWQILCYLVLYLMAIIE 96

		           S +  ++ L S+ + V++ ++++      NL  +L   T        L   +L  + +I 

		Sbjct: 133 SIKSLVEFLKSILKVVLLSILIWII-IKGNLVTLLQLPTCGIECITPLLGQILRQLMVIC 191

		

		Query: 97  MTLLVLILIFDVLLQK 112

		               V+I I D   + 

		Sbjct: 192 TVGFVVISIADYAFEY 207

		

		

		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D

		           signature.

		          Length = 478

		

		 Score = 44.4 bits (105), Expect = 5e-07

		 Identities = 21/112 (18%), Positives = 45/112 (40%), Gaps = 13/112 (11%)

		

		Query: 139 QQLQDLNDAYADAQAEVNKAQIALNDTVVISSVSGTVVE-----VNNDIDPSSKNSQTLV 193

		            +L+   D       E+ K +     +V+ + VS  V +         +      ++TL+

		Sbjct: 302 DKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTT----AETLM 357

		

		Query: 194 HVATEGQ-LQVKGTLTEYDLANVKVGQSVKIKSKVYSNQEW---TGKISYVS 241

		            +  E   L+V   +   D+  + VGQ+  IK + +    +    GK+  ++

		Sbjct: 358 VIVPEDDTLEVTALVQNKDIGFINVGQNAIIKVEAFPYTRYGYLVGKVKNIN 409

		

		

		

		 Score = 37.1 bits (86), Expect = 1e-04

		 Identities = 19/115 (16%), Positives = 36/115 (31%), Gaps = 9/115 (7%)

		

		Query: 60  VKVGDQVTQGQQLVQYNTTTA-------QSAYDTAVRSLNKIGRQINHLKTYGVPAV--S 110

		           VK G+ V +G  L++     A       QS+   A     +       ++   +P +   

		Sbjct: 112 VKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELKLP 171

		

		Query: 111 TETNRDEATGEETTTTVQPSAQQNANYKQQLQDLNDAYADAQAEVNKAQIALNDT 165

		            E      + EE         +Q + ++ Q           +AE       +N  

		Sbjct: 172 DEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRY 226

		

		

		>UREASE#Urea amidohydrolase (urease) protein signature.

		          Length = 570

		

		 Score = 37.4 bits (87), Expect = 1e-04

		 Identities = 21/81 (25%), Positives = 30/81 (37%), Gaps = 20/81 (24%)

		

		Query: 20  ADVLIDGKQIVKIASA-----------IECQEAQVIDASGLIVAPGLVDIHVHFREPGQT 68

		           AD+ +   +I  I  A           I     +VI   G IV  G +D H+HF  P Q 

		Sbjct: 86  ADIGLKDGRIAAIGKAGNPDMQPGVTIIVGPGTEVIAGEGKIVTAGGMDSHIHFICPQQ- 144

		

		Query: 69  HKEDIHTGALAAAAGGVTTVV 89

		                      A   G+T ++

		Sbjct: 145 --------IEEALMSGLTCML 157

		

		

		>PF04605#Virulence-associated protein D (VapD)

		          Length = 125

		

		 Score = 27.5 bits (61), Expect = 0.008

		 Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 5/44 (11%)

		

		Query: 7  RMILMFDMPTDTAEE-----RKAYRKFRKFLLSEGFIMHQFSIY 45

		          R  + FD+ T + E+     R+ Y   +KF+L  GF   Q+S Y

		Sbjct: 5  RKAINFDLSTKSLEKYFKDTREPYSLIKKFMLENGFEHRQYSGY 48

		

		

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

		           signature.

		          Length = 639

		

		 Score =  112 bits (282), Expect = 3e-28

		 Identities = 51/156 (32%), Positives = 81/156 (51%), Gaps = 8/156 (5%)

		

		Query: 12  KIRNFSIIAHIDHGKSTLADRILEK---TETVSSREMQAQLLDSMDLERERGITIKLNAI 68

		           KI N  ++AH+D GK+TL + +L        + S +      D+  LER+RGITI+    

		Sbjct: 2   KIINIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGIT 61

		

		Query: 69  ELNYTAKDGETYIFHLIDTPGHVDFTYEVSRSLAACEGAILVVDAAQGIEAQTLANVYLA 128

		              +     E    ++IDTPGH+DF  EV RSL+  +GAIL++ A  G++AQT    +  

		Sbjct: 62  SFQW-----ENTKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHAL 116

		

		Query: 129 LDNDLEILPVINKIDLPAADPERVRHEVEDVIGLDA 164

		               +  +  INKID    D   V  ++++ +  + 

		Sbjct: 117 RKMGIPTIFFINKIDQNGIDLSTVYQDIKEKLSAEI 152

		

		

		

		 Score = 93.0 bits (231), Expect = 7e-22

		 Identities = 44/214 (20%), Positives = 93/214 (43%), Gaps = 16/214 (7%)

		

		Query: 171 SAKAGIGIEEILEQIVEKVPAPTGDVDAPLQALIFDSVYDAYRGVILQVRIVNGIVKPGD 230

		           SAK  IGI+ ++E I  K  + T    + L   +F   Y   R  +  +R+ +G++   D

		Sbjct: 220 SAKNNIGIDNLIEVITNKFYSSTHRGQSELCGKVFKIEYSEKRQRLAYIRLYSGVLHLRD 279

		

		Query: 231 KIQMMSNGKTFDVTEVGIFTP-KAVGRDFLATGDVGYVAASIKTVADTRVGDTVTLANNP 289

		            +++    K   +TE+      +    D   +G++  +      +    +GDT  L    

		Sbjct: 280 SVRISEKEKI-KITEMYTSINGELCKIDKAYSGEIVILQNEFLKLNSV-LGDTKLLPQRE 337

		

		Query: 290 AKEALHGYKQMNPMVFAGIYPIESNKYNDLREALEKLQLNDASLQFE--PETSQALGFGF 347

		             E         P++   + P +  +   L +AL ++  +D  L++     T + +    

		Sbjct: 338 RIENPL------PLLQTTVEPSKPQQREMLLDALLEISDSDPLLRYYVDSATHEII---- 387

		

		Query: 348 RCGFLGLLHMDVIQERLEREFNIDLIMTAPSVVY 381

		              FLG + M+V    L+ ++++++ +  P+V+Y

		Sbjct: 388 -LSFLGKVQMEVTCALLQEKYHVEIEIKEPTVIY 420

		

		

		

		 Score = 43.3 bits (102), Expect = 2e-06

		 Identities = 21/104 (20%), Positives = 41/104 (39%), Gaps = 12/104 (11%)

		

		Query: 393 VSNPSEFPDPTRVAFIE----------EPYVKAQIMVPQEFVGAVMELSQRKRGDFVTMD 442

		           VS P++F     +   +          EPY+  +I  PQE++      + +   + V   

		Sbjct: 510 VSTPADFRMLAPIVLEQVLKKAGTELLEPYLSFKIYAPQEYLSRAYTDAPKYCANIVDTQ 569

		

		Query: 443 YIDDNRVNVIYQIPLAEIVFDFFDKLKSSTRGYASFDYDMSEYR 486

		            + +N V +  +IP   I  ++   L   T G +    ++  Y 

		Sbjct: 570 -LKNNEVILSGEIPARCI-QEYRSDLTFFTNGRSVCLTELKGYH 611

		

		

		>GPOSANCHOR#Gram-positive coccus surface protein anchor signature.

		          Length = 539

		

		 Score = 65.9 bits (160), Expect = 3e-14

		 Identities = 36/105 (34%), Positives = 48/105 (45%), Gaps = 12/105 (11%)

		

		Query: 189 QPGKPAPKTPEVPQNPDTAPHTPKTPRIPGQSKDVTPAPQNPSNRGLNKPQTQGGNQLAK 248

		           +  K A +  ++     +   TP             P  +    +G         NQ   

		Sbjct: 447 KLAKQAEELAKLRAGKASDSQTPDAK----------PGNKAVPGKGQAPQAGTKPNQ--N 494

		

		Query: 249 TPAAHDTHRQLPATGETTNPFFTAAAVAIMTTAGVVAVAKRQENN 293

		                +T RQLP+TGET NPFFTAAA+ +M TAGV AV KR+E N

		Sbjct: 495 KAPMKETKRQLPSTGETANPFFTAAALTVMATAGVAAVVKRKEEN 539

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 73.7 bits (181), Expect = 2e-17

		 Identities = 30/130 (23%), Positives = 57/130 (43%), Gaps = 1/130 (0%)

		

		Query: 3   KILAIDDDKEILKLMKTALEIENYHVITCQEIELPIVFDDFKGYDLILLDIMMPNISGTE 62

		            IL  DDD  I  ++  AL    Y V           +      DL++ D++MP+ +  +

		Sbjct: 5   TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64

		

		Query: 63  FCYKIREE-VHSPIIFVSALDGDNEIVQALNIGGDDFIVKPFSLKQFVAKVNSHLKREER 121

		              +I++     P++ +SA +     ++A   G  D++ KPF L + +  +   L   +R

		Sbjct: 65  LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKR 124

		

		Query: 122 AKIKNEAEER 131

		              K E + +

		Sbjct: 125 RPSKLEDDSQ 134

		

		

		>NISIN#Nisin signature.

		          Length = 57

		

		 Score = 26.7 bits (58), Expect = 0.001

		 Identities = 17/32 (53%), Positives = 23/32 (71%), Gaps = 2/32 (6%)

		

		Query: 4  TIKDFDLDL-KTNKKDT-ATPYVGSRYLCTPG 33

		          + KDF+LDL   +KKD+ A+P + S  LCTPG

		Sbjct: 2  STKDFNLDLVSVSKKDSGASPRITSISLCTPG 33

		

		

		>ANTHRAXTOXNA#Anthrax toxin LF subunit signature.

		          Length = 800

		

		 Score = 31.3 bits (70), Expect = 0.003

		 Identities = 17/47 (36%), Positives = 29/47 (61%), Gaps = 7/47 (14%)

		

		Query: 184 NKWYLFPYDWSLKLLEPMTRMRINSIPFGAEFVPDYSQIFISLFLGI 230

		           NK Y+   +W+    +P+T+ +IN+IP  AEF+ + S I  S  +G+

		Sbjct: 639 NKAYI---EWT----DPITKAKINTIPTSAEFIKNLSSIRRSSNVGV 678

		

		

		>MYCMG045#Hypothetical mycoplasma lipoprotein (MG045) signature.

		          Length = 483

		

		 Score = 36.6 bits (84), Expect = 1e-04

		 Identities = 24/82 (29%), Positives = 42/82 (51%), Gaps = 4/82 (4%)

		

		Query: 31  SGSQSDKLVIYNWGDYIDPALLKKFTKETGIEVQYETFDSNEAMYTKIKQGGTTYDIAVP 90

		           S   S   V+ N+  YI P LL++   +    + + T+ SNE +         TY +AV 

		Sbjct: 21  SSCGSTTFVLANFESYISPLLLER--VQEKHPLTFLTYPSNEKLINGF--ANNTYSVAVA 76

		

		Query: 91  SDYTIDKMIKENLLNKLDKSKL 112

		           S Y + ++I+ +LL+ +D S+ 

		Sbjct: 77  STYAVSELIERDLLSPIDWSQF 98

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 66.8 bits (163), Expect = 5e-15

		 Identities = 23/131 (17%), Positives = 50/131 (38%), Gaps = 2/131 (1%)

		

		Query: 3   VLIIEDDPMVDFIHRNYLEKLNLFDRIISSDSMKAVQSILTDYAIDLILLDIHITDGNGI 62

		           +L+ +DD  +  +    L +      +  + +   +   +     DL++ D+ + D N  

		Sbjct: 6   ILVADDDAAIRTVLNQALSRAGY--DVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63

		

		Query: 63  QFLEKWRTQHIPCEVIIISAANDGNIIRDGFHLGIIDYLIKPFTFERFQESIQQFVTHRE 122

		             L + +       V+++SA N           G  DYL KPF        I + +   +

		Sbjct: 64  DLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPK 123

		

		Query: 123 HLANQQLEQAQ 133

		              ++  + +Q

		Sbjct: 124 RRPSKLEDDSQ 134

		

		

		>TYPE3IMSPROT#Type III secretion system inner membrane S protein

		           family signature.

		          Length = 354

		

		 Score = 32.0 bits (73), Expect = 0.002

		 Identities = 14/75 (18%), Positives = 27/75 (36%), Gaps = 8/75 (10%)

		

		Query: 172 TIGILERIVIGVCMIMG---QFASIGLVFTAKSIA-RYNKISESPAFAEYYLIGSLF--- 224

		               L   ++ V  +M         G + + ++I     KI+        + I SL    

		Sbjct: 82  EFFYLCFPLLTVAALMAIASHVVQYGFLISGEAIKPDIKKINPIEGAKRIFSIKSLVEFL 141

		

		Query: 225 -SILSVFIAAWICFF 238

		            SIL V + + + + 

		Sbjct: 142 KSILKVVLLSILIWI 156

		

		

		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D

		           signature.

		          Length = 478

		

		 Score = 26.7 bits (59), Expect = 0.024

		 Identities = 8/28 (28%), Positives = 14/28 (50%)

		

		Query: 87  EILAPADGLVSKIHVVANQTVESEQVLI 114

		           EI    + +V +I V   ++V    VL+

		Sbjct: 98  EIKPIENSIVKEIIVKEGESVRKGDVLL 125

		

		

		

		 Score = 26.3 bits (58), Expect = 0.029

		 Identities = 13/40 (32%), Positives = 22/40 (55%)

		

		Query: 51  VKAPMSGTVLSIFATEGKAVKKGEAVLVLEAMKMENEILA 90

		           +K   +  V  I   EG++V+KG+ +L L A+  E + L 

		Sbjct: 99  IKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLK 138

		

		

		

		 Score = 25.9 bits (57), Expect = 0.038

		 Identities = 12/65 (18%), Positives = 25/65 (38%), Gaps = 3/65 (4%)

		

		Query: 17  LRELVDGETVEVSQPAAPATEKEMNANAAGGGIQVKAPMSGTV--LSIFATEGKAVKKGE 74

		            +  +  +  + +      T +            ++AP+S  V  L +  TEG  V   E

		Sbjct: 296 FKNEILDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVH-TEGGVVTTAE 354

		

		Query: 75  AVLVL 79

		            ++V+

		Sbjct: 355 TLMVI 359

		

		

		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D

		           signature.

		          Length = 478

		

		 Score = 29.4 bits (66), Expect = 0.004

		 Identities = 10/49 (20%), Positives = 22/49 (44%)

		

		Query: 65  AIPSPMPGTILKVLVAVGDQVTENQPLLILEAMKMENEIVASSAGTITA 113

		            I       + +++V  G+ V +   LL L A+  E + + + +  + A

		Sbjct: 98  EIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQA 146

		

		

		

		 Score = 26.7 bits (59), Expect = 0.030

		 Identities = 9/30 (30%), Positives = 13/30 (43%)

		

		Query: 102 EIVASSAGTITAIHVGPGQVVNPGDGLITI 131

		           EI       +  I V  G+ V  GD L+ +

		Sbjct: 98  EIKPIENSIVKEIIVKEGESVRKGDVLLKL 127

		

		

		>LIPPROTEIN48#Mycoplasma P48 major surface lipoprotein signature.

		          Length = 428

		

		 Score = 65.8 bits (160), Expect = 4e-14

		 Identities = 76/299 (25%), Positives = 120/299 (40%), Gaps = 45/299 (15%)

		

		Query: 36  DLKVAMVTDTGGVDDKSFNQSAWEGLQSWGKEMGLQKGTGFDYFQSTSESEYATNLDTAV 95

		            LK  ++TD G +DDKSFNQSA+E L++      + K TG +       S + +  ++A+

		Sbjct: 61  KLKPVLITDEGKIDDKSFNQSAFEALKA------INKQTGIEINNVEPSSNFESAYNSAL 114

		

		Query: 96  SGGYQLIYGIGFALKDAIAKAAGD------NEGVKFVIIDDIIEGKDNV-ASVTFADHEA 148

		           S G+++    GF  + +I +             +K + ID  IE +     S+ F   E+

		Sbjct: 115 SAGHKIWVLNGFKHQQSIKQYIDAHREELERNQIKIIGIDFDIETEYKWFYSLQFNIKES 174

		

		Query: 149 AYLAGIAAAKTTKTK-----TVGFVGGMEGTVITRFEKGFEAGVKS---------VDDTI 194

		           A+  G A A     +      V   GG     +T F +GF  G+           +  T 

		Sbjct: 175 AFTTGYAIASWLSEQDESKRVVASFGGGAFPGVTTFNEGFAKGILYYNQKHKSSKIYHTS 234

		

		Query: 195 QVKVDYAGSFGDAAKGKTIAAAQYAAGADVIYQAAGG---TGAGVFNEAKAINEKRSEAD 251

		            VK+D +G          I     +  ADV Y         G   F   +  N+ +    

		Sbjct: 235 PVKLD-SGFTAGEKMNTVINNVLSSTPADVKYNPHVILSVAGPATFETVRLANKGQ---- 289

		

		Query: 252 KVWVIGVDRDQKDEGKYTSKDGKEANFVLASSIKEVGKAVQLINKQVADKKFPGGKTTV 310

		             +VIGVD DQ        +D      +L S +K + +AV      +  +K  G K  V

		Sbjct: 290 --YVIGVDSDQG-----MIQDKDR---ILTSVLKHIKQAVYETLLDLILEKEEGYKPYV 338

		

		

		>PF06580#Sensor histidine kinase

		          Length = 349

		

		 Score = 39.1 bits (91), Expect = 2e-05

		 Identities = 15/75 (20%), Positives = 31/75 (41%), Gaps = 5/75 (6%)

		

		Query: 312 YGKIFYFQNQVNRSLRMDKALLKQLITILFDNAIKY----TDKNGIIEIIVKTTDKNLLI 367

		           +     F+NQ+N ++  D  +   L+  L +N IK+      + G I +     +  + +

		Sbjct: 236 FEDRLQFENQINPAIM-DVQVPPMLVQTLVENGIKHGIAQLPQGGKILLKGTKDNGTVTL 294

		

		Query: 368 SVIDNGPGITDEEKK 382

		            V + G       K+

		Sbjct: 295 EVENTGSLALKNTKE 309

		

		

		>PF05272#Virulence-associated E family protein

		          Length = 892

		

		 Score = 33.5 bits (76), Expect = 6e-04

		 Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 2/41 (4%)

		

		Query: 32  KGELVVIL-GASGAGKSTVLNILGGMD-TVDAGQVIIDGKD 70

		           K +  V+L G  G GKST++N L G+D   D    I  GKD

		Sbjct: 594 KFDYSVVLEGTGGIGKSTLINTLVGLDFFSDTHFDIGTGKD 634

		

		

		>HTHTETR#TetR bacterial regulatory protein HTH signature.

		          Length = 215

		

		 Score = 41.2 bits (96), Expect = 6e-07

		 Identities = 13/48 (27%), Positives = 25/48 (52%)

		

		Query: 4  RHTETKAYVKTALTTLLTEQSFETLTVSDLTKKAGINRGTFYLHYTDK 51

		             ET+ ++      L ++Q   + ++ ++ K AG+ RG  Y H+ DK

		Sbjct: 8  EAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDK 55

		

		

		>BACTRLTOXIN#Bacterial toxin signature.

		          Length = 266

		

		 Score =  276 bits (706), Expect = 7e-96

		 Identities = 114/257 (44%), Positives = 160/257 (62%), Gaps = 19/257 (7%)

		

		Query: 11  MVFFVLVTFLGLTISQEVFA--QQDPDPSQLHRSS-LVKNLQNIYFLYEGDPVTHENVKS 67

		           ++ F L+    +  +  V A  Q DP P  LH+SS     + N+ +LY+   V+   VKS

		Sbjct: 11  ILIFALIL---VISTPNVLAESQPDPMPDDLHKSSEFTGTMGNMKYLYDDHYVSATKVKS 67

		

		Query: 68  VDQLLSHDLIYNVSGP---NYDKLKTELKNQEMATLFKDKNVDIYSVEYYHLCYLCE--- 121

		           VD+ L+HDLIYN+S     NYDK+KTEL N+++A  +KD+ VD+Y   YY  CY      

		Sbjct: 68  VDKFLAHDLIYNISDKKLKNYDKVKTELLNEDLAKKYKDEVVDVYGSNYYVNCYFSSKDN 127

		

		Query: 122 ---NAERSACIYGGVTNHEGNHLEIP--KKIVVKVSIDGIQSLSFDIETNKKMVTAQELD 176

		                    C+YGG+T HEGNH +    + ++V+V  +   ++SF+++T+KK VTAQELD

		Sbjct: 128 VGKVTGGKTCMYGGITKHEGNHFDNGNLQNVLVRVYENKRNTISFEVQTDKKSVTAQELD 187

		

		Query: 177 YKVRKYLTDNKQLYTNGPSKYETGYIKFIPKNKESFWFDFFPEP--EFTQSKYLMIYKDN 234

		            K R +L + K LY    S YETGYIKFI  N  +FW+D  P P  +F QSKYLM+Y DN

		Sbjct: 188 IKARNFLINKKNLYEFNSSPYETGYIKFIENNGNTFWYDMMPAPGDKFDQSKYLMMYNDN 247

		

		Query: 235 ETLDSNTSQIEVYLTTK 251

		           +T+DS + +IEV+LTTK

		Sbjct: 248 KTVDSKSVKIEVHLTTK 264

		

		

		>UREASE#Urea amidohydrolase (urease) protein signature.

		          Length = 570

		

		 Score = 27.8 bits (62), Expect = 0.009

		 Identities = 11/54 (20%), Positives = 21/54 (38%), Gaps = 5/54 (9%)

		

		Query: 46  VARNAVEAVEQIAYDKDIK---GIEKLTEAKIAVRDELSKHNVYLSDK--QMEV 94

		              ++V  V Q + D  +    G+ K   A    R  + K ++  +     +EV

		Sbjct: 486 RTNSSVTFVSQASLDAGLAGRLGVAKELVAVQNTRGGIGKASMIHNSLTPHIEV 539

		

		

		>FRAGILYSIN#Fragilysin metallopeptidase (M10C) enterotoxin

		           signature.

		          Length = 405

		

		 Score = 28.5 bits (63), Expect = 0.006

		 Identities = 15/63 (23%), Positives = 25/63 (39%), Gaps = 5/63 (7%)

		

		Query: 40  VSAPVKHVLDNNKKAMEALESAIVKISDD-----LKDNNFKWTESKNHRDRLQKVQDQHE 94

		           + APV   +D    +   L + +  +SD      LKDN F      +   R +   D   

		Sbjct: 38  IDAPVTASIDLQSVSYTDLATQLNDVSDFGKMIILKDNGFNRQVHVSMDKRTKIQLDNEN 97

		

		Query: 95  IRI 97

		           +R+

		Sbjct: 98  VRL 100

		

		

		>CARBMTKINASE#Bacterial carbamate kinase signature.

		          Length = 314

		

		 Score = 25.9 bits (57), Expect = 0.007

		 Identities = 13/41 (31%), Positives = 18/41 (43%), Gaps = 14/41 (34%)

		

		Query: 25  EFGWITLEDVPKKYR--------------DKVKQLVESGNI 51

		           E GWI  ED  + +R              + +K+LVE G I

		Sbjct: 148 EKGWIVKEDSGRGWRRVVPSPDPKGHVEAETIKKLVERGVI 188

		

		

		>FLGFLGJ#Flagellar protein FlgJ signature.

		          Length = 313

		

		 Score = 37.0 bits (85), Expect = 3e-04

		 Identities = 32/139 (23%), Positives = 57/139 (41%), Gaps = 9/139 (6%)

		

		Query: 294 VFSQLYLESFWGDTPVGRAD----NNWGGI----TWTGATTRPSGINVSQGQSRAEGGYY 345

		           + +Q  LES WG   + R +     N  G+     W G  T  +      G+++     +

		Sbjct: 174 ILAQAALESGWGQRQIRRENGEPSYNLFGVKASGNWKGPVTEITTTEYENGEAKKVKAKF 233

		

		Query: 346 NHYASVDDYLKDYAYLLAEQGIY-AVKGKLTIDEYTRGLFRVGGATYDYAAAGYDHYAPL 404

		             Y+S  + L DY  LL     Y AV    + ++  + L   G AT  + A    +    

		Sbjct: 234 RVYSSYLEALSDYVGLLTRNPRYAAVTTAASAEQGAQALQDAGYATDPHYARKLTNMIQQ 293

		

		Query: 405 MRDIRAGINRNNNGAMDNV 423

		           M+ I   +++  +  +DN+

		Sbjct: 294 MKSISDKVSKTYSMNIDNL 312

		

		

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

		          Length = 1541

		

		 Score = 27.7 bits (61), Expect = 0.031

		 Identities = 15/91 (16%), Positives = 36/91 (39%), Gaps = 9/91 (9%)

		

		Query: 8    EQSGAQEEAKEQTFDDILSDPKKQAEFDKRVAKAIDTARN-KWVAETEEKENEAK----- 61

		            E +    E  ++   ++ ++ +   E  +  ++  +T         T EKE +AK     

		Sbjct: 1060 ETTAQNREVAKEAKSNVKANTQ-TNEVAQSGSETKETQTTETKETATVEKEEKAKVETEK 1118

		

		Query: 62   --RLAKMNAEQKAQHEKAKLEARIAELEAER 90

		               + K+ ++   + E+++     AE   E 

		Sbjct: 1119 TQEVPKVTSQVSPKQEQSETVQPQAEPAREN 1149

		

		

		>PF06580#Sensor histidine kinase

		          Length = 349

		

		 Score = 26.0 bits (57), Expect = 0.021

		 Identities = 7/45 (15%), Positives = 19/45 (42%)

		

		Query: 29  LFLAIAIFGMMVTVSYFSYRDARQYYESQITGLRTQLSRTQKQLK 73

		           +   + +   M ++ YF +   + Y +++I   +      + QL 

		Sbjct: 120 IIFNVVVVTFMWSLLYFGWHFFKNYKQAEIDQWKMASMAQEAQLM 164

		

		

		>ANTHRAXTOXNA#Anthrax toxin LF subunit signature.

		          Length = 800

		

		 Score = 27.4 bits (60), Expect = 0.029

		 Identities = 23/89 (25%), Positives = 40/89 (44%), Gaps = 1/89 (1%)

		

		Query: 71  QAEAKVEKYKETIRRAMELSQKKKVDAGMFKVSLRKSKKVEILDETKIPLDYMQEKIEYK 130

		           +  A  E Y E+  +    ++K K +   FK S+    K E  +ET   +   Q+ ++  

		Sbjct: 30  EVNAMNEHYTESDIKRNHKTEKNKTEKEKFKDSINNLVKTEFTNETLDKIQQTQDLLKKI 89

		

		Query: 131 PMKS-EISKALKSGIDISGVELIETESLQ 158

		           P    EI   L   I  + ++L+E + LQ

		Sbjct: 90  PKDVLEIYSELGGEIYFTDIDLVEHKELQ 118

		

		

		>FLGFLGJ#Flagellar protein FlgJ signature.

		          Length = 313

		

		 Score = 92.1 bits (228), Expect = 4e-23

		 Identities = 44/125 (35%), Positives = 63/125 (50%), Gaps = 8/125 (6%)

		

		Query: 23  SLTAAQTILESGWGKHA-------PHNALFGIKADSSWTGKSFDTKTQEEYQAGVVTDIV 75

		            L  AQ  LESGWG+         P   LFG+KA  +W G   +  T E Y+ G    + 

		Sbjct: 172 HLILAQAALESGWGQRQIRRENGEPSYNLFGVKASGNWKGPVTEITTTE-YENGEAKKVK 230

		

		Query: 76  DRFRAYDSWTDSIIDHGKFLNDNPRYQAVIGETDYKKACHAIKDAGYATASGYAELLIQL 135

		            +FR Y S+ +++ D+   L  NPRY AV      ++   A++DAGYAT   YA  L  +

		Sbjct: 231 AKFRVYSSYLEALSDYVGLLTRNPRYAAVTTAASAEQGAQALQDAGYATDPHYARKLTNM 290

		

		Query: 136 IEEND 140

		           I++  

		Sbjct: 291 IQQMK 295

		

		

		>ARGREPRESSOR#Bacterial arginine repressor signature.

		          Length = 149

		

		 Score = 27.5 bits (61), Expect = 0.027

		 Identities = 8/24 (33%), Positives = 15/24 (62%)

		

		Query: 147 GELAKILKQNGINIGQNKLFQWLR 170

		            EL  ILK++G N+ Q  + + ++

		Sbjct: 23  DELVDILKKDGYNVTQATVSRDIK 46

		

		

		>HELNAPAPROT#Helicobacter neutrophil-activating protein A family

		           signature.

		          Length = 153

		

		 Score =  151 bits (383), Expect = 1e-49

		 Identities = 49/154 (31%), Positives = 85/154 (55%), Gaps = 4/154 (2%)

		

		Query: 19  KKEASKNEKT--KAVLNQAVADLSVAASIVHQVHWYMRGPGFLYLHPKMDELLDSLNANL 76

		           K E +K  +T  +  LN  +++  +  S +H+ HWY++GP F  LH K +EL D     +

		Sbjct: 2   KTENAKTNQTLVENSLNTQLSNWFLLYSKLHRFHWYVKGPHFFTLHEKFEELYDHAAETV 61

		

		Query: 77  DEMSERLITIGGAPYSTLAEFSKHSKLDEAKGTYDKTVAQHLARLVEVYLYLSSLYQVGL 136

		           D ++ERL+ IGG P +T+ E+++H+ + +     + + ++ +  LV  Y  +SS  +  +

		Sbjct: 62  DTIAERLLAIGGQPVATVKEYTEHASITDGGN--ETSASEMVQALVNDYKQISSESKFVI 119

		

		Query: 137 DITDEEGDAGTNDLFTAAKTEAEKTIWMLQAERG 170

		            + +E  D  T DLF     E EK +WML +  G

		Sbjct: 120 GLAEENQDNATADLFVGLIEEVEKQVWMLSSYLG 153

		

		

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

		           signature.

		          Length = 290

		

		 Score = 30.2 bits (68), Expect = 0.005

		 Identities = 42/160 (26%), Positives = 58/160 (36%), Gaps = 25/160 (15%)

		

		Query: 70  GLIIILWASMVHWVSASYCYLLLFSLLFSLF--DWRSQ------EYPFILWLFSFVSLLL 121

		            L+ +  A  +     +   LLL  +L +L   D            P +     F  L  

		Sbjct: 118 ALLSVAVAMTLAPGWGTLAALLLTWVLVALTFIDLDKMLLPDQLTLPLLWGGLLFNLLGG 177

		

		Query: 122 FYSIN---------YLSLILLLLGLLAHLRPFSIGAGDFFYLASLALVLDLTSLIWLIQL 172

		           F S+          YL L  L            +G GDF  LA+L   L   +L  ++ L

		Sbjct: 178 FVSLGDAVIGAMAGYLVLWSLYWAFKLLTGKEGMGYGDFKLLAALGAWLGWQALPIVLLL 237

		

		Query: 173 ASLAGITACLLL-------GIKRIPFIPYLSFGLFWIVLL 205

		           +SL G    + L         K IPF PYL+    WI LL

		Sbjct: 238 SSLVGAFMGIGLILLRNHHQSKPIPFGPYLAIA-GWIALL 276

		

		

		>HTHTETR#TetR bacterial regulatory protein HTH signature.

		          Length = 215

		

		 Score = 33.8 bits (77), Expect = 2e-05

		 Identities = 9/34 (26%), Positives = 19/34 (55%)

		

		Query: 8  KLILQGGKAMVTIKQVAEEAGVSRSTVSRYISQK 41

		          +L  Q G +  ++ ++A+ AGV+R  +  +   K

		Sbjct: 22 RLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDK 55

		

		

		>LPSBIOSNTHSS#Lipopolysaccharide core biosynthesis protein

		           signature.

		          Length = 166

		

		 Score =  153 bits (388), Expect = 2e-50

		 Identities = 58/157 (36%), Positives = 94/157 (59%), Gaps = 2/157 (1%)

		

		Query: 5   IGLYTGSFDPVTNGHLDIVKRASGLFDQIYVGIFDNPTKKSYFKLEVRKAMLTQALADFT 64

		             +Y GSFDP+T GHLDI++R   LFDQ+YV +  NP K+  F ++ R   + +A+A   

		Sbjct: 2   NAIYPGSFDPITFGHLDIIERGCRLFDQVYVAVLRNPNKQPMFSVQERLEQIAKAIAHLP 61

		

		Query: 65  NVIVVTSHERLAIDVAKELRVTHLIRGLRNATDFEYEENLEYFNHLLAPNIETVYLISRN 124

		           N  V +  E L ++ A++ +   ++RGLR  +DFE E  +   N  LA ++ETV+L +  

		Sbjct: 62  NAQVDSF-EGLTVNYARQRQAGAILRGLRVLSDFELELQMANTNKTLASDLETVFLTTST 120

		

		Query: 125 KWQALSSSRVRELIHFQSSLEGLVPQSVIAQV-EKMN 160

		           ++  LSSS V+E+  F  ++E  VP  V A + ++ +

		Sbjct: 121 EYSFLSSSLVKEVARFGGNVEHFVPSHVAAALYDQFH 157

		

		

		>CARBMTKINASE#Bacterial carbamate kinase signature.

		          Length = 314

		

		 Score =  405 bits (1043), Expect = e-145

		 Identities = 141/315 (44%), Positives = 204/315 (64%), Gaps = 6/315 (1%)

		

		Query: 3   KQKIVVALGGNAIL--STDASAKAQQEALISTSKSLVKLIKEGHEVIVTHGNGPQVGNLL 60

		            +++V+ALGGNA+       S +   + +  T++ + ++I  G+EV++THGNGPQVG+LL

		Sbjct: 2   GKRVVIALGGNALQQRGQKGSYEEMMDNVRKTARQIAEIIARGYEVVITHGNGPQVGSLL 61

		

		Query: 61  LQQAAADSEKN-PAMPLDTCVAMTEGSIGFWLVNALDNELQAQGIQKEVAAVVTQVIVDA 119

		           L   A  +    PA P+D   AM++G IG+ +  AL NEL+ +G++K+V  ++TQ IVD 

		Sbjct: 62  LHMDAGQATYGIPAQPMDVAGAMSQGWIGYMIQQALKNELRKRGMEKKVVTIITQTIVDK 121

		

		Query: 120 KDPAFENPTKPIGPFLTEEDAKKQMAESGASFKEDAGRGWRKVVPSPKPVGIKEANVIRS 179

		            DPAF+NPTKP+GPF  EE AK+   E G   KED+GRGWR+VVPSP P G  EA  I+ 

		Sbjct: 122 NDPAFQNPTKPVGPFYDEETAKRLAREKGWIVKEDSGRGWRRVVPSPDPKGHVEAETIKK 181

		

		Query: 180 LVDSGVVVVSAGGGGVPVVEDATSKTLTGVEAVIDKDFASQTLSELVDADLFIVLTGVDN 239

		           LV+ GV+V+++GGGGVPV+ +     + GVEAVIDKD A + L+E V+AD+F++LT V+ 

		Sbjct: 182 LVERGVIVIASGGGGVPVILED--GEIKGVEAVIDKDLAGEKLAEEVNADIFMILTDVNG 239

		

		Query: 240 VYVNFNKPDQAKLEEVTVSQMKEYITQDQFAPGSMLPKVEAAIAFVENKPNAKAIITSLE 299

		             + +    +  L EV V ++++Y  +  F  GSM PKV AAI F+E     +AII  LE

		Sbjct: 240 AALYYGTEKEQWLREVKVEELRKYYEEGHFKAGSMGPKVLAAIRFIEW-GGERAIIAHLE 298

		

		Query: 300 NIDNVLSANAGTQII 314

		                L    GTQ++

		Sbjct: 299 KAVEALEGKTGTQVL 313

		

		

		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D

		           signature.

		          Length = 478

		

		 Score = 34.8 bits (80), Expect = 0.001

		 Identities = 11/73 (15%), Positives = 27/73 (36%), Gaps = 6/73 (8%)

		

		Query: 724 YLPLADLLNVEEELARLDKELAKWQKELDMVGKKLGNERFVANAKPEVVQKEKDKQADYQ 783

		            +    +L  E +      EL  ++ +L+ +  ++       +AK E     +  + +  

		Sbjct: 248 AIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEI------LSAKEEYQLVTQLFKNEIL 301

		

		Query: 784 AKYDATQERIAEM 796

		            K   T + I  +

		Sbjct: 302 DKLRQTTDNIGLL 314

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 84.1 bits (208), Expect = 2e-19

		 Identities = 35/170 (20%), Positives = 62/170 (36%), Gaps = 10/170 (5%)

		

		Query: 3   KVLLVDDEYMILQGLTMIIDWQALGFEVVQTARSGKEALAYLTQYPVDVMISDVTMPGMT 62

		            +L+ DD+  I   L   +     G++V     +      ++     D++++DV MP   

		Sbjct: 5   TILVADDDAAIRTVLNQAL--SRAGYDVR-ITSNAATLWRWIAAGDGDLVVTDVVMPDEN 61

		

		Query: 63  GLDLIEAAKTYHPQLQTLILSGYQEFSYVQKAMELETKGYLLKPVDKAELQAKMKQFKDW 122

		             DL+   K   P L  L++S    F    KA E     YL KP D  EL   + +    

		Sbjct: 62  AFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAE 121

		

		Query: 123 LDAQQAESIRQEAYHDSLLTLWLTDELSEKEFQQLSQGLPAAALTGFTVL 172

		              + ++          L+             Q++ + L     T  T++

		Sbjct: 122 PKRRPSKLEDDSQDGMPLVG-------RSAAMQEIYRVLARLMQTDLTLM 164

		

		

		>PF06580#Sensor histidine kinase

		          Length = 349

		

		 Score =  181 bits (462), Expect = 2e-54

		 Identities = 70/324 (21%), Positives = 133/324 (41%), Gaps = 34/324 (10%)

		

		Query: 250 LSKAYRMQYNRSGDLLAYVAVRKSYLLAEAVRTVFVYGLVSLLLAWLLLQLL-FRVFRNY 308

		           L+ AYR    R G  L     +    +  A   + +   V+    W LL  +  +     

		Sbjct: 55  LTHAYRSFIKRQG-WLKLNMGQIILRVLPACVVIGMVWFVANTSIWRLLAFINTKPVAFT 113

		

		Query: 309 IQQVSEITDTVEMVAAGDLSLTIDNSHMELELYHISEAINQMLASIKAYIDEVYVLEVEQ 368

		           +     I   V +V           + M   LY      +      +A ID+   +    

		Sbjct: 114 LPLALSIIFNVVVV-----------TFMWSLLYF---GWHFFKNYKQAEIDQWK-MASMA 158

		

		Query: 369 RDAQMRALQSQINPHFLYNTLEYIRMYALSCQQEELADVIYAFASLLRNNI--SQDKMTT 426

		           ++AQ+ AL++QINPHF++N L  IR   L     +  +++ + + L+R ++  S  +  +

		Sbjct: 159 QEAQLMALKAQINPHFMFNALNNIRALILE-DPTKAREMLTSLSELMRYSLRYSNARQVS 217

		

		Query: 427 LKEELAFCEKYIYLYQMRYPDSFAYHVKIDESVADLAIPKFVIQPLVENYFVHGIDYSRH 486

		           L +EL   + Y+ L  +++ D   +  +I+ ++ D+ +P  ++Q LVEN   HGI     

		Sbjct: 218 LADELTVVDSYLQLASIQFEDRLQFENQINPAIMDVQVPPMLVQTLVENGIKHGIAQLPQ 277

		

		Query: 487 DNALSIKALDETDYLLIQVLDNGRGISQERLADMEKRLQEHQTTGNSSIGLQNVYLRLFH 546

		              + +K   +   + ++V + G              L    T  ++  GLQNV  RL  

		Sbjct: 278 GGKILLKGTKDNGTVTLEVENTG-------------SLALKNTKESTGTGLQNVRERLQM 324

		

		Query: 547 HFRDRVSWSMAKEPNGGFIIQIRI 570

		            +       ++++  G     + I

		Sbjct: 325 LYGTEAQIKLSEKQ-GKVNAMVLI 347

		

		

		>PF03309#Bvg accessory factor

		          Length = 271

		

		 Score = 29.7 bits (67), Expect = 0.013

		 Identities = 13/65 (20%), Positives = 23/65 (35%), Gaps = 7/65 (10%)

		

		Query: 3  LLCIDIGGTSLKFALCHN----GQLSQQSSFPT--PSSLEKFYQLLDQEVARYSAYHFSG 56

		          LL ID+  T     L        ++ QQ    T    + ++    +D  +    A   +G

		Sbjct: 2  LLAIDVRNTHTVVGLISGSGDHAKVVQQWRIRTEPEVTADELALTIDG-LIGDDAERLTG 60

		

		Query: 57 IAISS 61

		           +  S

		Sbjct: 61 ASGLS 65

		

		

		>PF05043#Transcriptional activator

		          Length = 493

		

		 Score = 54.9 bits (132), Expect = 4e-10

		 Identities = 30/162 (18%), Positives = 71/162 (43%), Gaps = 7/162 (4%)

		

		Query: 3   IEDLMDKERRAQYRLLVTLYHAKETLRLKDLMRLSNLSKVTLLKYIDNLNHLCREQGLAC 62

		           + DL+ K+   Q  LL  L+  K      +L  L N ++  +   + ++     +     

		Sbjct: 1   MRDLLSKKSHRQLELLELLFEHKRWFHRSELAELLNCTERAVKDDLSHVKSAFPDLIF-- 58

		

		Query: 63  QLLLEKDSLSLKENGQFHWEDLVALLLKESVAYQILTYMYCHEHFNITNLSVELMVSEAT 122

		                     +  +     E +     K S  + IL +++ +E     ++  E  +S ++

		Sbjct: 59  -HSSTNGIRIINTDDS-DIEMVYHHFFKHSTHFSILEFIFFNEGCQAESICKEFYISSSS 116

		

		Query: 123 LNRQLAHLNQLLS---EFDLALSQGRQLGSELQWRYFYFELF 161

		           L R ++ +N+++    +F+++L+  + +G+E   RYF+ + F

		Sbjct: 117 LYRIISQINKVIKRQFQFEVSLTPVQIIGNERDIRYFFAQYF 158

		

		

		>THERMOLYSIN#Thermolysin metalloprotease (M4) family signature.

		          Length = 544

		

		 Score = 39.2 bits (91), Expect = 2e-06

		 Identities = 15/78 (19%), Positives = 29/78 (37%), Gaps = 3/78 (3%)

		

		Query: 49  NQPKTSQTSKKVKLSEDKAKSIALKDASVTEADAQMLSVTQDNEDGKAVYEIEFQNKDQE 108

		            +   S    ++   +D A  +  +  +  E     L +  D E  +  YE+  +     

		Sbjct: 134 TEAAISIQQAEMIAKQDVADRVTKERPAAEEGKPTRLVIYPDEETPRLAYEVNVRFLTPV 193

		

		Query: 109 ---YSYTIDANSGDIVEK 123

		              + Y IDA  G ++ K

		Sbjct: 194 PGNWIYMIDAADGKVLNK 211

		

		

		>HTHTETR#TetR bacterial regulatory protein HTH signature.

		          Length = 215

		

		 Score = 41.9 bits (98), Expect = 3e-07

		 Identities = 13/65 (20%), Positives = 28/65 (43%)

		

		Query: 19 KETRRIARESMEIALLNLLETKPLGDITISELVTKAGVSRNAFYRNYTSKEAIIEQLLVG 78

		          K+  +  R+ +    L L   + +   ++ E+   AGV+R A Y ++  K  +  ++   

		Sbjct: 6  KQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWEL 65

		

		Query: 79 VIRRI 83

		              I

		Sbjct: 66 SESNI 70

		

		

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

		           signature.

		          Length = 639

		

		 Score = 81.8 bits (202), Expect = 5e-18

		 Identities = 46/139 (33%), Positives = 65/139 (46%), Gaps = 18/139 (12%)

		

		Query: 461 IMGHVDHGKTTLLDTLRNSRVATGEAG------------------GITQHIGAYQIEEAG 502

		           ++ HVD GKTTL ++L  +  A  E G                  GIT   G    +   

		Sbjct: 8   VLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQWEN 67

		

		Query: 503 KKITFLDTPGHAAFTSMRARGASVTDITILIVAADDGVMPQTIEAINHSKAAGVPIIVAI 562

		            K+  +DTPGH  F +   R  SV D  IL+++A DGV  QT    +  +  G+P I  I

		Sbjct: 68  TKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALRKMGIPTIFFI 127

		

		Query: 563 NKIDKPGANPERVIAELAE 581

		           NKID+ G +   V  ++ E

		Sbjct: 128 NKIDQNGIDLSTVYQDIKE 146

		

		

		>FLGFLGJ#Flagellar protein FlgJ signature.

		          Length = 313

		

		 Score = 92.5 bits (229), Expect = 4e-23

		 Identities = 44/125 (35%), Positives = 63/125 (50%), Gaps = 8/125 (6%)

		

		Query: 23  SLTAAQAILESGWGKHA-------PHNALFGIKADASWTGKSFNTKTQEEYQPGIVTDIV 75

		            L  AQA LESGWG+         P   LFG+KA  +W G      T E Y+ G    + 

		Sbjct: 172 HLILAQAALESGWGQRQIRRENGEPSYNLFGVKASGNWKGPVTEITTTE-YENGEAKKVK 230

		

		Query: 76  DRFRAYDSWTDSIIDHGKFLNDNPRYQSVVGETDYKKACHAIKDAGYATASGYAELLIQL 135

		            +FR Y S+ +++ D+   L  NPRY +V      ++   A++DAGYAT   YA  L  +

		Sbjct: 231 AKFRVYSSYLEALSDYVGLLTRNPRYAAVTTAASAEQGAQALQDAGYATDPHYARKLTNM 290

		

		Query: 136 IEEND 140

		           I++  

		Sbjct: 291 IQQMK 295

		

		

		>PF07212#Hyaluronoglucosaminidase

		          Length = 336

		

		 Score = 44.3 bits (104), Expect = 4e-07

		 Identities = 29/99 (29%), Positives = 45/99 (45%), Gaps = 16/99 (16%)

		

		Query: 3  LEERIPIKVLFDRKDAAEWQKLNPVVDDGELVVELDTHRLKVGDGKLNYNDLPYYEGPQG 62

		          + E IP++V F R  A EW + + ++ + E+  E DT   K GDGK  ++ L Y   P  

		Sbjct: 1  MTETIPLRVQFKRMTAEEWTRSDVILLESEIGFETDTGYAKFGDGKNQFSKLKYLNKP-- 58

		

		Query: 63 ESITKVQLSENGDLSVWIGDKET--KLGNIKGQKGDKGT 99

		                      DL  +   +ET  K+  ++  K DK  

		Sbjct: 59 ------------DLGAFAQKEETNSKITKLESSKADKNA 85

		

		

		>MICOLLPTASE#Microbial collagenase metalloprotease (M9) signature.

		          Length = 1104

		

		 Score = 29.3 bits (65), Expect = 0.036

		 Identities = 16/72 (22%), Positives = 32/72 (44%), Gaps = 2/72 (2%)

		

		Query: 123 TSDVVILADGVIEIIDLKYGKGMPVSANQNPQMGLYALGAYASYDMV--YDFDRIKMTII 180

		           +  + ++ D  +E+I+          ANQ  +  +   G  +  D    Y FD  K   +

		Sbjct: 850 SKKIKVVEDKPVEVINESEPNNDFEKANQIAKSNMLVKGTLSEEDYSDKYYFDVAKKGNV 909

		

		Query: 181 QPRLDSVSSVDI 192

		           +  L++++SV I

		Sbjct: 910 KITLNNLNSVGI 921

		

		

		>SACTRNSFRASE#Streptothricin acetyltransferase signature.

		          Length = 173

		

		 Score = 61.9 bits (150), Expect = 1e-14

		 Identities = 27/86 (31%), Positives = 40/86 (46%), Gaps = 4/86 (4%)

		

		Query: 62  CLLARLDEKVVGLLNLSGEVLSQGQAEADVFMLVAKTYRGYGIGQLLLEIALDWAEENPY 121

		             L  L+   +G + +          E    + VAK YR  G+G  LL  A++WA+EN +

		Sbjct: 67  AFLYYLENNCIGRIKIRSNWNGYALIED---IAVAKDYRKKGVGTALLHKAIEWAKENHF 123

		

		Query: 122 IESLKLDVQVRNTKAIYLYKKYGFRI 147

		              L L+ Q  N  A + Y K+ F I

		Sbjct: 124 C-GLMLETQDINISACHFYAKHHFII 148

		

		

		>TYPE3IMSPROT#Type III secretion system inner membrane S protein

		           family signature.

		          Length = 354

		

		 Score = 32.0 bits (73), Expect = 0.005

		 Identities = 19/123 (15%), Positives = 43/123 (34%), Gaps = 8/123 (6%)

		

		Query: 372 LTAVSTAVCFLLSILLLPLVGIVPAAATAPALIIVGVMMVSSFLDVNWSKF--ADALPAF 429

		           L+ V   V      L  PL+ +    A A  ++  G ++    +  +  K    +     

		Sbjct: 72  LSYVVDNVLLEFFYLCFPLLTVAALMAIASHVVQYGFLISGEAIKPDIKKINPIEGAKRI 131

		

		Query: 430 FAA-FFMALCYSISYGIAAAFIFYCLVK-----VVEGKTKDIHPIIWGATFLFIVNFIIL 483

		           F+    +    SI   +  + + + ++K     +++  T  I  I      +     +I 

		Sbjct: 132 FSIKSLVEFLKSILKVVLLSILIWIIIKGNLVTLLQLPTCGIECITPLLGQILRQLMVIC 191

		

		Query: 484 TIL 486

		           T+ 

		Sbjct: 192 TVG 194

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 46.0 bits (109), Expect = 3e-08

		 Identities = 21/118 (17%), Positives = 51/118 (43%), Gaps = 6/118 (5%)

		

		Query: 2   KILLIDDHRLFAKSIQLLFQQYD-EVDVIDTITSHFNDVTIDLSKYDIILLDINLANISK 60

		            IL+ DD       +     +   +V +     + +  +       D+++ D+ +     

		Sbjct: 5   TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWI--AAGDGDLVVTDVVMP---D 59

		

		Query: 61  ENGLEIAKELIQSTPHLKVVMLTGYVKSIYRERAKKVGAYGFVDKNIDPKQLISILKK 118

		           EN  ++   + ++ P L V++++     +   +A + GAY ++ K  D  +LI I+ +

		Sbjct: 60  ENAFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGR 117

		

		

		>ARGREPRESSOR#Bacterial arginine repressor signature.

		          Length = 149

		

		 Score = 29.8 bits (67), Expect = 0.006

		 Identities = 21/85 (24%), Positives = 38/85 (44%), Gaps = 11/85 (12%)

		

		Query: 1  MKKKERHEKILDILKVDGFIKVKDIIDEM-----NISDMTARRDLDTLADKGLL-IRTHG 54

		          M K +RH KI +I+  +      +++D +     N++  T  RD+  L    L+ + T+ 

		Sbjct: 1  MNKGQRHIKIREIITANEIETQDELVDILKKDGYNVTQATVSRDIKEL---HLVKVPTNN 57

		

		Query: 55 GAQYLDYSSAKDEGHEKTHTEKKVL 79

		          G+    YS   D+        K+ L

		Sbjct: 58 GSYK--YSLPADQRFNPLSKLKRSL 80

		

		

		>PF04605#Virulence-associated protein D (VapD)

		          Length = 125

		

		 Score = 29.5 bits (66), Expect = 0.009

		 Identities = 8/44 (18%), Positives = 17/44 (38%), Gaps = 2/44 (4%)

		

		Query: 227 INGYKVTSWNDLTEAV-DLATRD-LGPSQTIKVTYKSHQRLKTV 268

		            +  ++     L E + DL  +D     +        +Q+LK +

		Sbjct: 80  FDITEIGEQYSLKETIQDLCAKDFHQKLKEFTEKTPKNQKLKDL 123

		

		

		>PF05272#Virulence-associated E family protein

		          Length = 892

		

		 Score = 34.7 bits (79), Expect = 6e-04

		 Identities = 14/56 (25%), Positives = 20/56 (35%), Gaps = 9/56 (16%)

		

		Query: 34  IVFVGPSGCGKSTTLRMIAGLEDISEGELKIGGEVVNDKSPKDRDIAMVFQNYALY 89

		           +V  G  G GKST +  + GL+  S+    IG           +D          Y

		Sbjct: 599 VVLEGTGGIGKSTLINTLVGLDFFSDTHFDIG---------TGKDSYEQIAGIVAY 645

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 33.7 bits (77), Expect = 7e-04

		 Identities = 10/30 (33%), Positives = 19/30 (63%)

		

		Query: 229 ALWSEHGNLVQTAQRLYIHRNSLQYKLDKF 258

		           AL +  GN ++ A  L ++RN+L+ K+ + 

		Sbjct: 444 ALTATRGNQIKAADLLGLNRNTLRKKIREL 473

		

		

		>STREPKINASE#Streptococcus streptokinase protein signature.

		          Length = 440

		

		 Score =  815 bits (2106), Expect = 0.0

		 Identities = 389/440 (88%), Positives = 410/440 (93%)

		

		Query: 1   MKNYLSIGVIALLFALTFGTVKSVQAIAGYGWLPDRPPINNSQLVVSMAGIVEGTDKKVF 60

		           MKNYLS G+ ALLFALTFGTV SVQAIAG  WL DRP +NNSQLVVS+AG VEGT++ + 

		Sbjct: 1   MKNYLSFGMFALLFALTFGTVNSVQAIAGPEWLLDRPSVNNSQLVVSVAGTVEGTNQDIS 60

		

		Query: 61  INFFEIDLTSQPAHGGKTEQGLSPKSKPFATDNGAMPHKLEKADLLKAIQKQLIANVHSN 120

		           + FFEIDLTS+PAHGGKTEQGLSPKSKPFATD+GAM HKLEKADLLKAIQ+QLIANVHSN

		Sbjct: 61  LKFFEIDLTSRPAHGGKTEQGLSPKSKPFATDSGAMSHKLEKADLLKAIQEQLIANVHSN 120

		

		Query: 121 DGYFEVIDFASDATITDRNGKVYFADKDGSVTLPTQPVQEFLLKGHVRVRPYKEKPVQNQ 180

		           D YFEVIDFASDATITDRNGKVYFADKDGSVTLPTQPVQEFLL GHVRVRPYKEKP+QNQ

		Sbjct: 121 DDYFEVIDFASDATITDRNGKVYFADKDGSVTLPTQPVQEFLLSGHVRVRPYKEKPIQNQ 180

		

		Query: 181 AKSVDVEYTVQFTPLNPDDDFRPGLKDTKLLKTLAIGDTITSQELLAQAQSILNKTHPGY 240

		           AKSVDVEYTVQFTPLNPDDDFRPGLKDTKLLKTLAIGDTITSQELLAQAQSILNK HPGY

		Sbjct: 181 AKSVDVEYTVQFTPLNPDDDFRPGLKDTKLLKTLAIGDTITSQELLAQAQSILNKNHPGY 240

		

		Query: 241 TIYERDSSIVTHDNDIFRTILPMDQEFTYHVKNREQAYEINPKTGIKEKTNNTDLVSEKY 300

		           TIYERDSSIVTHDNDIFRTILPMDQEFTY VKNREQAY IN K+G+ E+ NNTDL+SEKY

		Sbjct: 241 TIYERDSSIVTHDNDIFRTILPMDQEFTYRVKNREQAYRINKKSGLNEEINNTDLISEKY 300

		

		Query: 301 YVLKQGEKPYDPFDRSHLKLFTIKYVDVNTNELLKSEQLLTASERNLDFRDLYDPRDKAK 360

		           YVLK+GEKPYDPFDRSHLKLFTIKYVDV+TNELLKSEQLLTASERNLDFRDLYDPRDKAK

		Sbjct: 301 YVLKKGEKPYDPFDRSHLKLFTIKYVDVDTNELLKSEQLLTASERNLDFRDLYDPRDKAK 360

		

		Query: 361 LLYNNLDAFDIMDYTLTGKVEDNHDKNNRVVTVYMGKRPKGAKGSYHLAYDKDLYTEEER 420

		           LLYNNLDAF IMDYTLTGKVEDNHD  NR++TVYMGKRP+G   SYHLAYDKD YTEEER

		Sbjct: 361 LLYNNLDAFGIMDYTLTGKVEDNHDDTNRIITVYMGKRPEGENASYHLAYDKDRYTEEER 420

		

		Query: 421 KAYSYLRDTGTPIPDNPKDK 440

		           + YSYLR TGTPIPDNP DK

		Sbjct: 421 EVYSYLRYTGTPIPDNPNDK 440

		

		

		>GPOSANCHOR#Gram-positive coccus surface protein anchor signature.

		          Length = 539

		

		 Score = 62.0 bits (150), Expect = 9e-16

		 Identities = 30/47 (63%), Positives = 34/47 (72%)

		

		Query: 1   MAKTPVANNHRRLPATGEQANPFFTAAAVAVMTTAGVLAVTKRKENN 47

		             K P+    R+LP+TGE ANPFFTAAA+ VM TAGV AV KRKE N

		Sbjct: 493 QNKAPMKETKRQLPSTGETANPFFTAAALTVMATAGVAAVVKRKEEN 539

		

		

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

		          Length = 1541

		

		 Score = 51.6 bits (123), Expect = 3e-09

		 Identities = 50/294 (17%), Positives = 100/294 (34%), Gaps = 27/294 (9%)

		

		Query: 44   ISLTQKTTATTSENWHHIDKDGLIPLGISLEAAKEEFKKEVEESRLSEAQKETYKQKIKT 103

		            I     +  + +E    +D+  + P   +  +   E   E  +      +K        T

		Sbjct: 1003 IQADVPSVPSNNEEIARVDEAPVPPPAPATPSETTETVAENSKQESKTVEKNEQDATETT 1062

		

		Query: 104  APDKDKLLFTYHSEYMTAVKDLPASTESTTQPVEA-PVQETQASASDSMVTGDSTSVTTD 162

		            A +++        E  + VK    + E      E    Q T+   + ++   +   V T+

		Sbjct: 1063 AQNREVA-----KEAKSNVKANTQTNEVAQSGSETKETQTTETKETATVEKEEKAKVETE 1117

		

		Query: 163  SPEETPSSESPVAPALSEA-----PAQPAESEEPSVAA----SSEETPSPSTPAAPSTPA 213

		              +E P   S V+P   ++      A+PA   +P+V      S   T + +   A  T +

		Sbjct: 1118 KTQEVPKVTSQVSPKQEQSETVQPQAEPARENDPTVNIKEPQSQTNTTADTEQPAKETSS 1177

		

		Query: 214  APETPEEPAAPS----QPAESEESSVAATTSPS--------PSTPAESETQTPPAVTKDS 261

		              E P   +          E+ E++  ATT P+        P        ++ P   + +

		Sbjct: 1178 NVEQPVTESTTVNTGNSVVENPENTTPATTQPTVNSESSNKPKNRHRRSVRSVPHNVEPA 1237

		

		Query: 262  DKPSSAAEKPAASSLVSEQTVQQPTSKRSSDKKEEQEQSYSPNRSLSRQVRAHE 315

		               S+     A   L S  T    +  R+  +        + ++ +S+    +E

		Sbjct: 1238 TTSSNDRSTVALCDLTSTNTNAVLSDARAKAQFVALNVGKAVSQHISQLEMNNE 1291

		

		

		

		 Score = 37.7 bits (87), Expect = 7e-05

		 Identities = 18/127 (14%), Positives = 41/127 (32%), Gaps = 5/127 (3%)

		

		Query: 174  VAPALSEAPAQPAESEEPSVAASSEETPSPSTPAAPSTPAAPETPEEPAAPSQPAESEES 233

		                 +       +++ PSV +++EE            P  P  P  P+  ++       

		Sbjct: 991  TVDTTNITTPNNIQADVPSVPSNNEEIARVDE-----APVPPPAPATPSETTETVAENSK 1045

		

		Query: 234  SVAATTSPSPSTPAESETQTPPAVTKDSDKPSSAAEKPAASSLVSEQTVQQPTSKRSSDK 293

		              + T   +     E+  Q      +      +  +    +   SE    Q T  + +  

		Sbjct: 1046 QESKTVEKNEQDATETTAQNREVAKEAKSNVKANTQTNEVAQSGSETKETQTTETKETAT 1105

		

		Query: 294  KEEQEQS 300

		             E++E++

		Sbjct: 1106 VEKEEKA 1112

		

		

		

		 Score = 30.8 bits (69), Expect = 0.010

		 Identities = 44/204 (21%), Positives = 73/204 (35%), Gaps = 22/204 (10%)

		

		Query: 130  ESTTQPVEAPVQETQASASDSMVTGDSTSVTTDSPEETPSSESPVAPALSEAPAQPAESE 189

		            E   Q V+     T  +        D  SV +++ E     E+PV P             

		Sbjct: 986  EKRNQTVDTTNITTPNNIQ-----ADVPSVPSNNEEIARVDEAPVPPPA---------PA 1031

		

		Query: 190  EPSVAASSEETPSPSTPAAPSTPAAPETPEEPAAPS-QPAESEESSVAATTSPSPSTPAE 248

		             PS   ++E     S   + +     +   E  A + + A+  +S+V A T  +    + 

		Sbjct: 1032 TPS--ETTETVAENSKQESKTVEKNEQDATETTAQNREVAKEAKSNVKANTQTNEVAQSG 1089

		

		Query: 249  SET-QTPPAVTKDSDKPSSAAEKPAASSLVSEQTVQQPTSKRS--SDKKEEQEQSYSPNR 305

		            SET +T    TK  +  +   E+ A       Q V + TS+ S   ++ E  +    P R

		Sbjct: 1090 SETKETQTTETK--ETATVEKEEKAKVETEKTQEVPKVTSQVSPKQEQSETVQPQAEPAR 1147

		

		Query: 306  SLSRQVRAHESGKYLPSTGEKAQP 329

		                 V   E      +T +  QP

		Sbjct: 1148 ENDPTVNIKEPQSQTNTTADTEQP 1171

		

		

		>SUBTILISIN#Subtilisin serine protease family (S8) signature.

		          Length = 326

		

		 Score =  106 bits (266), Expect = 6e-27

		 Identities = 50/226 (22%), Positives = 85/226 (37%), Gaps = 47/226 (20%)

		

		Query: 117 KAGKGAGTVVAVIDAGFDKNHEAWRLTDKTKARYQSKEDLEKAKKEHGITYGEWVNDKVA 176

		              +G G  VAV+D G D +H                 DL KA+   G  + +       

		Sbjct: 36  NQTRGRGVKVAVLDTGCDADHP----------------DL-KARIIGGRNFTDDDEGDPE 78

		

		Query: 177 YYHDYSKDGKTAVDQEHGTHVSGILSGNAPSETKEPYRLEGAMPEAQLLLMRVEIVNGLA 236

		            + DY+          HGTHV+G ++            + G  PEA LL+++V    G  

		Sbjct: 79  IFKDYNG---------HGTHVAGTIAATENE-----NGVVGVAPEADLLIIKVLNKQGSG 124

		

		Query: 237 DYARNYAQAIIDAVNLGAKVINMSFGNAALAYANLPDETKKAFDYAKSKGVSIVTSAGND 296

		            Y     Q I  A+     +I+MS G           E  +A   A +  + ++ +AGN+

		Sbjct: 125 QYD-WIIQGIYYAIEQKVDIISMSLGGPED-----VPELHEAVKKAVASQILVMCAAGNE 178

		

		Query: 297 SSFGGKTRLPLADHPDYGVVGTPAAADSTLTVASYSPDKQLTETAT 342

		                +T            +G P   +  ++V + + D+  +E + 

		Sbjct: 179 GDGDDRT----------DELGYPGCYNEVISVGAINFDRHASEFSN 214

		

		

		

		 Score = 79.9 bits (197), Expect = 5e-18

		 Identities = 37/139 (26%), Positives = 58/139 (41%), Gaps = 22/139 (15%)

		

		Query: 457 NATPKVLPTASGTK---LSRFSSWGLTADGNIKPDIAAPGQDILSSVANNKYAKLSGTSM 513

		               +V+   +       S FS+         + D+ APG+DILS+V   KYA  SGTSM

		Sbjct: 192 GCYNEVISVGAINFDRHASEFSNSNN------EVDLVAPGEDILSTVPGGKYATFSGTSM 245

		

		Query: 514 SAPLVAGIMGL-LQKQYETQYPDMTPSERLDLAKKVLMSSATALYDEDEKAYFSPRQQGA 572

		           + P VAG + L  Q    +   D+T  E        L+     L +       SP+ +G 

		Sbjct: 246 ATPHVAGALALIKQLANASFERDLTEPE----LYAQLIKRTIPLGN-------SPKMEGN 294

		

		Query: 573 GAVDAKKASA-ATMYVTDK 590

		           G +        + ++ T +

		Sbjct: 295 GLLYLTAVEELSRIFDTQR 313