PredictBias

		>HTHTETR#TetR bacterial regulatory protein HTH signature.

		          Length = 215

		

		 Score = 40.8 bits (95), Expect = 7e-07

		 Identities = 19/99 (19%), Positives = 34/99 (34%), Gaps = 6/99 (6%)

		

		Query: 1  MPRP---QSSDLSQRLYRSALHHLARHGYAACKLAAITLEAKTSKQAIYRRWPHGKQQLA 57

		          M R    ++ +  Q +   AL   ++ G ++  L  I   A  ++ AIY  +   K  L 

		Sbjct: 1  MARKTKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFK-DKSDLF 59

		

		Query: 58 IEALRFGFSRVPYQAAGSASFDEELDTSYAALQHALTHT 96

		           E      S +           +      + L+  L H 

		Sbjct: 60 SEIWELSESNI--GELELEYQAKFPGDPLSVLREILIHV 96

		

		

		>PF04183#IucA / IucC family

		          Length = 580

		

		 Score = 28.3 bits (63), Expect = 0.026

		 Identities = 27/164 (16%), Positives = 52/164 (31%), Gaps = 28/164 (17%)

		

		Query: 49  NIGTTNVLRTGK-KSLTALTLLCDTLKATLS---------VLIIAEWAPLGASNPLAIYL 98

		            I  T+  R    + + A  L    L+   +          +I+ E A    S+    Y 

		Sbjct: 277 TIYNTSCYRGIPGRYIAAGPLASRWLQQVFATDATLVQSGAVILGEPAAGYVSHEG--YA 334

		

		Query: 99  PLIAGGFAFLGHLYPIW----LKFNGGKGVATYLGVLFAVYWPMALGFIALWISTALITR 154

		            L    + +   L  IW     ++         +  L              +I  + +  

		Sbjct: 335 ALARAPYRYQEMLGVIWRENPCRWLKPDESPVLMATLMECD-ENNQPLAGAYIDRSGLDA 393

		

		Query: 155 FSSLSALLTSLLTPFILWVFNQYETAGLMALMTLILWMKHHENI 198

		            + L+ L   ++ P +  +  +Y  A L+A         H +NI

		Sbjct: 394 ETWLTQLFRVVVVP-LYHLLCRYGVA-LIA---------HGQNI 426

		

		

		>BLACTAMASEA#Beta-lactamase class A signature.

		          Length = 286

		

		 Score = 41.7 bits (98), Expect = 4e-06

		 Identities = 30/127 (23%), Positives = 55/127 (43%), Gaps = 17/127 (13%)

		

		Query: 34  IVVDAKTGKVLYAENANARRYPASTTKIMTLFVLFEELEAGRLSLNTRMKVSR-----YA 88

		           I +D  +G+ L A  A+ R    ST K++    +   ++AG   L  ++   +     Y+

		Sbjct: 43  IEMDLASGRTLTAWRADERFPMMSTFKVVLCGAVLARVDAGDEQLERKIHYRQQDLVDYS 102

		

		Query: 89  AGRPPTKLYLKAGSTLRVKDAIYALITKSANDASTVIAEHISGSEAAFAKRMTSTARAIG 148

		              P ++ +L  G T+   +   A IT S N A+ ++   + G        +T+  R IG

		Sbjct: 103 ---PVSEKHLADGMTV--GELCAAAITMSDNSAANLLLATVGGPAG-----LTAFLRQIG 152

		

		Query: 149 MRNTTFR 155

		             +   R

		Sbjct: 153 --DNVTR 157

		

		

		>SYCDCHAPRONE#Gram-negative bacterial type III secretion SycD

		           chaperone signature.

		          Length = 168

		

		 Score = 29.9 bits (67), Expect = 0.021

		 Identities = 23/120 (19%), Positives = 49/120 (40%), Gaps = 3/120 (2%)

		

		Query: 652 ERFDKEISTLEQGIASQPESSALRYAYALALIRRQRYEPAVEQLERATDISPRDAQGWFV 711

		           E F K   T+        ++    Y+ A    +  +YE A +  +    +   D++ +  

		Sbjct: 16  ESFLKGGGTIAMLNEISSDTLEQLYSLAFNQYQSGKYEDAHKVFQALCVLDHYDSRFFLG 75

		

		Query: 712 LGLAEQRTGR-GTGIHALRKAAELSA-DPQYLYAYCESLLKARH-SESRDCVDKLREVVG 768

		           LG   Q  G+    IH+    A +   +P++ +   E LL+    +E+   +   +E++ 

		Sbjct: 76  LGACRQAMGQYDLAIHSYSYGAIMDIKEPRFPFHAAECLLQKGELAEAESGLFLAQELIA 135

		

		

		>FLGMOTORFLIN#Flagellar motor switch protein FliN signature.

		          Length = 137

		

		 Score = 72.2 bits (177), Expect = 4e-20

		 Identities = 30/75 (40%), Positives = 49/75 (65%)

		

		Query: 6   DISVEISVVLGQAEMPIHQLLRMGRGGVIGLDAHESDDVLILANKTPIARGQVMVIGEKV 65

		           DI V+++V LG+  M I +LLR+ +G V+ LD    + + IL N   IA+G+V+V+ +K 

		Sbjct: 59  DIPVKLTVELGRTRMTIKELLRLTQGSVVALDGLAGEPLDILINGYLIAQGEVVVVADKY 118

		

		Query: 66  GVRITEVLERGPEVR 80

		           GVRIT+++     +R

		Sbjct: 119 GVRITDIITPSERMR 133

		

		

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

		           signature.

		          Length = 261

		

		 Score = 97.4 bits (242), Expect = 2e-26

		 Identities = 71/251 (28%), Positives = 115/251 (45%), Gaps = 12/251 (4%)

		

		Query: 9   IAIITGAAGDIGRAIAAALTSD-YHLALVDIDADALEGAGKTLATQGAKLSLHRCDLTCP 67

		           IA ITGAA  IG A+A  L S   H+A VD + + LE    +L  +         D+   

		Sbjct: 10  IAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAFPADVRDS 69

		

		Query: 68  ADLTALKEQL-APLGRVSLLVNNAGAAAALSLQELTAEQLRQDLALNLEAATNIFKTFED 126

		           A +  +  ++   +G + +LVN AG      +  L+ E+     ++N     N  ++   

		Sbjct: 70  AAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGVFNASRSVSK 129

		

		Query: 127 DLK--QGGNLINIAS-VNGMAVFGHPAYSMAKAGLIHFTRLVATEYGKYGLRANTVAPGT 183

		            +   + G+++ + S   G+      AY+ +KA  + FT+ +  E  +Y +R N V+PG+

		Sbjct: 130 YMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCNIVSPGS 189

		

		Query: 184 VRT----QAWNARAAANPKVFEEAAYW---YPLGRVAEPEDVANAVAFLASPAANAITGV 236

		             T      W     A   +      +    PL ++A+P D+A+AV FL S  A  IT  

		Sbjct: 190 TETDMQWSLWADENGAEQVIKGSLETFKTGIPLKKLAKPSDIADAVLFLVSGQAGHITMH 249

		

		Query: 237 CLPVDCGLTSG 247

		            L VD G T G

		Sbjct: 250 NLCVDGGATLG 260

		

		

		>PF06057#Type IV secretory pathway VirJ component

		          Length = 243

		

		 Score = 31.3 bits (71), Expect = 0.004

		 Identities = 19/76 (25%), Positives = 33/76 (43%), Gaps = 10/76 (13%)

		

		Query: 146 RTPVCVIAAGAKALLDLPKTM-EVLETRGVPVISYGVDELPAFWSRTSGIKAPTRLDSAA 204

		           + P+ +  +G      L K +  +L+ +G PV+  G   L  +W +    K P   D   

		Sbjct: 50  KPPLVIFLSGDGGWATLDKAVGGILQQQGWPVV--GWSSLKYYWKQ----KDPK--DVTQ 101

		

		Query: 205 DIAKLL-KARGEFGGH 219

		           D   ++ K + EFG  

		Sbjct: 102 DTLAIIDKYQAEFGTQ 117

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 91.4 bits (227), Expect = 2e-21

		 Identities = 41/125 (32%), Positives = 65/125 (52%), Gaps = 12/125 (9%)

		

		Query: 726 ARILLVEDEEAVRAFAARALSSRGYEVFEAGSGTEALEVMEEEGGAMDLVVSDVVMPEMD 785

		           A IL+ +D+ A+R    +ALS  GY+V    +       +    G  DLVV+DVVMP+ +

		Sbjct: 4   ATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDG--DLVVTDVVMPDEN 61

		

		Query: 786 GPSLLVELRKMQPDLKIIFVSGYAE-----EAFEKNLPAEETFNFLPKPFTLKQLATTVK 840

		              LL  ++K +PDL ++ +S         +A E     +  +++LPKPF L +L   + 

		Sbjct: 62  AFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASE-----KGAYDYLPKPFDLTELIGIIG 116

		

		Query: 841 EVLAE 845

		             LAE

		Sbjct: 117 RALAE 121

		

		

		>TYPE3IMSPROT#Type III secretion system inner membrane S protein

		           family signature.

		          Length = 354

		

		 Score =  318 bits (816), Expect = e-109

		 Identities = 103/346 (29%), Positives = 184/346 (53%), Gaps = 5/346 (1%)

		

		Query: 8   SEKTEEPTQKRLDDAHEKGDVPKSQEVSTWFAVLGTAMAMTFLADRTAGSLSGLLENFFD 67

		            EKTE+PT K++ DA +KG V KS+EV +   ++  +  +  L+D      S L+    +

		Sbjct: 3   GEKTEQPTPKKIRDARKKGQVAKSKEVVSTALIVALSAMLMGLSDYYFEHFSKLMLIPAE 62

		

		Query: 68  KAGQMRLDGPALVLLWRDLGPALLAIIAAP-MAVMLLFAMAGNLIQHKPIWSSERLKPKL 126

		              Q  L     +    D        +  P + V  L A+A +++Q+  + S E +KP +

		Sbjct: 63  ---QSYLPFSQALSYVVDNVLLEFFYLCFPLLTVAALMAIASHVVQYGFLISGEAIKPDI 119

		

		Query: 127 EKVSPLKGLKRLFSQESLANFLKGLVKILVVAGLMGLVLWPQRRVLDTLVFRDLRLLLEE 186

		           +K++P++G KR+FS +SL  FLK ++K+++++ L+ +++      L  L    +  +   

		Sbjct: 120 KKINPIEGAKRIFSIKSLVEFLKSILKVVLLSILIWIIIKGNLVTLLQLPTCGIECITPL 179

		

		Query: 187 TKELSLQLIGAILAVMTVIAGVDYLWQRQKWFKKQRMTRREIKEEYKQAEGDPQIKAKIR 246

		             ++  QL+        VI+  DY ++  ++ K+ +M++ EIK EYK+ EG P+IK+K R

		Sbjct: 180 LGQILRQLMVICTVGFVVISIADYAFEYYQYIKELKMSKDEIKREYKEMEGSPEIKSKRR 239

		

		Query: 247 ELRVMRSRHRMMSAVPEATVVIANPTHYAVALHYEEG-MGAPKCVAKGVDALALRIRRVA 305

		           +         M   V  ++VV+ANPTH A+ + Y+ G    P    K  DA    +R++A

		Sbjct: 240 QFHQEIQSRNMRENVKRSSVVVANPTHIAIGILYKRGETPLPLVTFKYTDAQVQTVRKIA 299

		

		Query: 306 EDAQVPVVENPPLARTLHAAMDLDELVPEEHFEAVAKVIGYVMQLK 351

		           E+  VP+++  PLAR L+    +D  +P E  EA A+V+ ++ +  

		Sbjct: 300 EEEGVPILQRIPLARALYWDALVDHYIPAEQIEATAEVLRWLERQN 345

		

		

		>TYPE3IMRPROT#Type III secretion system inner membrane R protein

		           family signature.

		          Length = 261

		

		 Score =  103 bits (259), Expect = 9e-29

		 Identities = 60/242 (24%), Positives = 112/242 (46%), Gaps = 6/242 (2%)

		

		Query: 14  VFFLVFARVGTMIMLVPVFGERAIPVRIRLIVALMLCYVLYPLV-QPLYPLGELQQLPVL 72

		           ++F    RV  +I   P+  ER++P R++L +A+M+ + + P +     P+     L + 

		Sbjct: 15  LYFWPLLRVLALISTAPILSERSVPKRVKLGLAMMITFAIAPSLPANDVPVFSFFALWLA 74

		

		Query: 73  LRYLFLELVLGFFVGLGMRLIAYALQTAGAIIANQSGLAFAMGGDMTNFGEQGAMVGSFL 132

		           ++    ++++G  +G  M+    A++TAG II  Q GL+FA   D  +      ++   +

		Sbjct: 75  VQ----QILIGIALGFTMQFAFAAVRTAGEIIGLQMGLSFATFVDPAS-HLNMPVLARIM 129

		

		Query: 133 AMLGTTLVLATNLHYVIIAGIHDSFTLFPPGRILPVGDMAHMAVDTVSHVFVIAAHIGAP 192

		            ML   L L  N H  +I+ + D+F   P G      +         S +F+    +  P

		Sbjct: 130 DMLALLLFLTFNGHLWLISLLVDTFHTLPIGGEPLNSNAFLALTKAGSLIFLNGLMLALP 189

		

		Query: 193 FILFGLVFYFGLGLLNKLMPQLQIFFVAMPVAILAGFTLLMLLLSTLMGWYLQQYEAVLS 252

		            I   L     LGLLN++ PQL IF +  P+ +  G +L+  L+  +  +    +  + +

		Sbjct: 190 LITLLLTLNLALGLLNRMAPQLSIFVIGFPLTLTVGISLMAALMPLIAPFCEHLFSEIFN 249

		

		Query: 253 PF 254

		             

		Sbjct: 250 LL 251

		

		

		>TYPE3IMQPROT#Type III secretion system inner membrane Q protein

		          family signature.

		          Length = 86

		

		 Score = 58.2 bits (141), Expect = 4e-15

		 Identities = 25/82 (30%), Positives = 49/82 (59%)

		

		Query: 5  EVLDIASSGIWTLIKLSVPVLLVGLVVGVIVALFQALTQIQEQTLVFVPKIISIFLALLV 64

		          +++   +  ++ ++ LS    +V  ++G++V LFQ +TQ+QEQTL F  K++ + L L +

		Sbjct: 3  DLVFAGNKALYLVLILSGWPTIVATIIGLLVGLFQTVTQLQEQTLPFGIKLLGVCLCLFL 62

		

		Query: 65 AFPFMGSVLGSFTEQISQLIVS 86

		             + G VL S+  Q+  L ++

		Sbjct: 63 LSGWYGEVLLSYGRQVIFLALA 84

		

		

		>FLGPRINGFLGI#Flagellar P-ring protein signature.

		          Length = 373

		

		 Score =  383 bits (986), Expect = e-135

		 Identities = 187/369 (50%), Positives = 252/369 (68%), Gaps = 9/369 (2%)

		

		Query: 10  RTFKALLLLLLLPYLIHPANSA--SRIKDIADFEGIRENQLIGYGLVVGLNGSGDGLNNA 67

		           R   A L+   LP+L  P   A  SRIKDIA  +  R+NQLIGYGLVVGL G+GD L ++

		Sbjct: 5   RIIAAALVFSALPFLSTPPAQADTSRIKDIASLQAGRDNQLIGYGLVVGLQGTGDSLRSS 64

		

		Query: 68  PFTRQSLQAMLERLGVNTNELDLNTKNAAAVMVTANLPPFSTQGSRIDVAVSALGDASSL 127

		           PFT QS++AML+ LG+ T     N KN AAVMVTANLPPF++ GSR+DV VS+LGDA+SL

		Sbjct: 65  PFTEQSMRAMLQNLGITTQGGQSNAKNIAAVMVTANLPPFASPGSRVDVTVSSLGDATSL 124

		

		Query: 128 QGGTLLVTPLIGANGETYAIAQGPVTVAGFEASGDAASITRGVPTSGRVANGGLVEKEVD 187

		           +GG L++T L GA+G+ YA+AQG + V GF A GDAA++T+GV TS RV NG ++E+E+ 

		Sbjct: 125 RGGNLIMTSLSGADGQIYAVAQGALIVNGFSAQGDAATLTQGVTTSARVPNGAIIERELP 184

		

		Query: 188 FKLASLDTLRIALRNPDLTTTRRVALAINEL----IGLPTAEPLDSATVRISLPRLYDGN 243

		            K      L + LRNPD +T  RVA  +N       G P AEP DS  + +  PR+ D  

		Sbjct: 185 SKFKDSVNLVLQLRNPDFSTAVRVADVVNAFARARYGDPIAEPRDSQEIAVQKPRVAD-- 242

		

		Query: 244 IVDLLTDIEQLVIEPDMPARIVIDESSGIIVMGKEVKVSTVAVAQGNLTVTIAEAPQVSQ 303

		           +  L+ +IE L +E D PA++VI+E +G IV+G +V++S VAV+ G LTV + E+PQV Q

		Sbjct: 243 LTRLMAEIENLTVETDTPAKVVINERTGTIVIGADVRISRVAVSYGTLTVQVTESPQVIQ 302

		

		Query: 304 PDPFSLGETTQVPRTNVSVDEDNSHLAIVSEAVTLQQLVDGLNALGISPRDLIAILQAIK 363

		           P PFS G+T   P+T++   ++ S +AI  E   L+ LV GLN++G+    +IAILQ IK

		Sbjct: 303 PAPFSRGQTAVQPQTDIMAMQEGSKVAI-VEGPDLRTLVAGLNSIGLKADGIIAILQGIK 361

		

		Query: 364 AAGALQAEI 372

		           +AGALQAE+

		Sbjct: 362 SAGALQAEL 370

		

		

		>FLGFLGJ#Flagellar protein FlgJ signature.

		          Length = 313

		

		 Score = 40.9 bits (95), Expect = 2e-07

		 Identities = 21/79 (26%), Positives = 39/79 (49%), Gaps = 1/79 (1%)

		

		Query: 22  PTNNLDKKAKEFEAVYLNQLMQSMFSGLQEGGTYGSGPGSDAWRSMLLGEYANQLAQSGG 81

		           P  N+   A++ E +++  +++SM   L + G + S   +  + SM   + A Q+    G

		Sbjct: 29  PAANIRPVARQVEGMFVQMMLKSMRDALPKDGLFSS-EHTRLYTSMYDQQIAQQMTAGKG 87

		

		Query: 82  IGLAETIKAQMLEIQEANQ 100

		           +GLAE +  QM   Q   +

		Sbjct: 88  LGLAEMMVKQMTPEQPLPE 106

		

		

		>FLAGELLIN#Flagellin signature.

		          Length = 507

		

		 Score = 56.2 bits (135), Expect = 9e-11

		 Identities = 42/313 (13%), Positives = 83/313 (26%), Gaps = 5/313 (1%)

		

		Query: 14  LSTLQSTATLISSTQERLSTGKKVNSALDNPNSYFTAASLNNRASDLSNLQDDMGQSVST 73

		            + L  + + +SS  ERLS+G ++NSA D+      A    +    L+    +    +S 

		Sbjct: 14  QNNLNKSQSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGLTQASRNANDGISI 73

		

		Query: 74  LTAADKGIKAISKLIDAAKGKANQALQ-TEDVSQRNKYAKEFNDLRTQIQDLAKDSGYKG 132

		               +  +  I+  +   +  + QA   T   S       E      +I  ++  + + G

		Sbjct: 74  AQTTEGALNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLEEIDRVSNQTQFNG 133

		

		Query: 133 KNLLGGDGN-DLTVKFNEDGTSKLEIQSVDFTDLGKEDGDLKLGSLEIAKNGDFSATLEG 191

		             +L  D    + V  N+  T  +++Q +D   LG +  ++         +   S     

		Sbjct: 134 VKVLSQDNQMKIQVGANDGETITIDLQKIDVKSLGLDGFNVNGPKEATVGDLKSSFKNVT 193

		

		Query: 192 TITDGDTKLASLDKLAAGDSIKLTFGEGDDAKTAELEITADSTLNDLTAKMKEVSGSDFK 251

		                              ++              +         D       V      

		Sbjct: 194 GYDTYAVGANKYRVDVNSGAVVTDTTAPTVPDKVYVNAANGQLTTDDAENNTAVDLFKTT 253

		

		Query: 252 LDATAKTITGSVGAKLAISYTDNDSGDSADGSDLTAATTIGVKAGAWDTDSGIDSSLTEI 311

		                   T    A         +              T     G     + I+     +

		Sbjct: 254 KSTAG---TAEAKAIAGAIKGGKEGDTFDYKGVTFTIDTKTGNDGNGKVSTTINGEKVTL 310

		

		Query: 312 KAAQDALRAQAST 324

		             A     A    

		Sbjct: 311 TVADITAGAANVD 323

		

		

		

		 Score = 45.4 bits (107), Expect = 2e-07

		 Identities = 48/334 (14%), Positives = 93/334 (27%), Gaps = 9/334 (2%)

		

		Query: 68  GQSVSTLTAADKGIKAISKLIDAAKGKANQALQTEDVSQRNKYAKEFNDLRTQIQDLAKD 127

		           G   +T+       K ++     A G     +     S           +  ++   A +

		Sbjct: 176 GPKEATVGDLKSSFKNVTGYDTYAVGANKYRVDVN--SGAVVTDTTAPTVPDKVYVNAAN 233

		

		Query: 128 SGYKGKNLLGGDGNDLTVKFNEDGTSKLEIQSVDFTDLGKEDGDLKLGSLEIAKNGDFSA 187

		                 +       DL         +            GKE        +    +     

		Sbjct: 234 GQLTTDDAENNTAVDLFKTTKSTAGTAEAKAIAGAIKGGKEGDTFDYKGVTFTIDTKTGN 293

		

		Query: 188 TLEGTITDGDTKLASLDKLAAGDSIKLTFGEGDDAKTAELEITADSTLNDLTAKMKEVSG 247

		              G ++           +A   +            +  +  +  +       K K  S 

		Sbjct: 294 DGNGKVSTTINGEKVTLTVADITAGAANVDAATLQSSKNVYTSVVNGQFTFDDKTKNESA 353

		

		Query: 248 SDFKLDATAK-------TITGSVGAKLAISYTDNDSGDSADGSDLTAATTIGVKAGAWDT 300

		               L+A          T+ G+     A       +G +       +  +  +   A   

		Sbjct: 354 KLSDLEANNAVKGESKITVNGAEYTANAAGDKVTLAGKTMFIDKTASGVSTLINEDAAAA 413

		

		Query: 301 DSGIDSSLTEIKAAQDALRAQASTFGTNLSVVKNRKNFTADMINTLEVGAGKLTLADTNR 360

		                + L  I +A   + A  S+ G   +   +      + +  L     ++  AD   

		Sbjct: 414 KKSTANPLASIDSALSKVDAVRSSLGAIQNRFDSAITNLGNTVTNLNSARSRIEDADYAT 473

		

		Query: 361 EGANLAALQTQQQLATSTLALAARANQSVLQLIR 394

		           E +N++  Q  QQ  TS LA A +  Q+VL L+R

		Sbjct: 474 EVSNMSKAQILQQAGTSVLAQANQVPQNVLSLLR 507

		

		

		>FLAGELLIN#Flagellin signature.

		          Length = 507

		

		 Score = 61.6 bits (149), Expect = 2e-12

		 Identities = 50/371 (13%), Positives = 104/371 (28%), Gaps = 2/371 (0%)

		

		Query: 12  NNLSTLQSTASMISSTQERLSTGMKVNSALDNPNSYFTAASLNNRASDLSNLQDDMGQSV 71

		              + L  + S +SS  ERLS+G+++NSA D+      A    +    L+    +    +

		Sbjct: 12  LTQNNLNKSQSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGLTQASRNANDGI 71

		

		Query: 72  STLTAADKGIKAISKLVDAAKGKANQALQ-SEDKEQRAKYSKEFNDLRTQIQDLAKDSGY 130

		           S     +  +  I+  +   +  + QA   +           E      +I  ++  + +

		Sbjct: 72  SIAQTTEGALNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLEEIDRVSNQTQF 131

		

		Query: 131 KGKNLLGGDGN-DLKVKFNEDGTSKLDIKSVDFTDLSAADSDLKLGAVQQLEKGDFTSGA 189

		            G  +L  D    ++V  N+  T  +D++ +D   L     ++       +     +   

		Sbjct: 132 NGVKVLSQDNQMKIQVGANDGETITIDLQKIDVKSLGLDGFNVNGPKEATVGDLKSSFKN 191

		

		Query: 190 MTLGSGTFEAATKLDTLDNYAAGGKITIKYGSGDDAKTKELEITADNTVGDLAAAIKEVT 249

		           +T        A K     N  A    T      D                +   A+    

		Sbjct: 192 VTGYDTYAVGANKYRVDVNSGAVVTDTTAPTVPDKVYVNAANGQLTTDDAENNTAVDLFK 251

		

		Query: 250 GEDFTIDGTAKTLSGKVADDLTFSYEASSGGETGGELSTGDTTTGLVKNGWSEDAGIEAS 309

		               T                         G T    +          +       +  +

		Sbjct: 252 TTKSTAGTAEAKAIAGAIKGGKEGDTFDYKGVTFTIDTKTGNDGNGKVSTTINGEKVTLT 311

		

		Query: 310 LETLKTAQDSLRAQASTFGTNLSVVQNRKNFTADMINTLEVGAGKLTLADTNKEGANLAA 369

		           +  +     ++ A       N+        FT D     E        A+   +G +   

		Sbjct: 312 VADITAGAANVDAATLQSSKNVYTSVVNGQFTFDDKTKNESAKLSDLEANNAVKGESKIT 371

		

		Query: 370 LQTQQQLATST 380

		           +   +  A + 

		Sbjct: 372 VNGAEYTANAA 382

		

		

		

		 Score = 45.8 bits (108), Expect = 2e-07

		 Identities = 44/336 (13%), Positives = 93/336 (27%), Gaps = 11/336 (3%)

		

		Query: 68  GQSVSTLTAADKGIKAISKLVDAAKGKANQ-ALQSEDKEQRAKYSKEFNDLRTQIQDLAK 126

		           G   +T+       K ++     A G        +         +    D         +

		Sbjct: 176 GPKEATVGDLKSSFKNVTGYDTYAVGANKYRVDVNSGAVVTDTTAPTVPDKVYVNAANGQ 235

		

		Query: 127 DSGYKGKNLLGGDGNDLKVKFNEDGTSKLDIKSVDFTDLSAADSDLKLGAVQQLEKGDFT 186

		            +    +N    D             +K    ++             +      + G+  

		Sbjct: 236 LTTDDAENNTAVDLFKTTKSTAGTAEAKAIAGAIKGGKEGDTFDYKGVTFTIDTKTGNDG 295

		

		Query: 187 SGAMTLGSGTFEAATKLDTLDNYAAGGKITIKYGSGDDAKTKELEITADNTVGDLAAAIK 246

		           +G ++          K+         G   +   +   +K     +       D     +

		Sbjct: 296 NGKVSTTIN----GEKVTLTVADITAGAANVDAATLQSSKNVYTSVVNGQFTFDDKTKNE 351

		

		Query: 247 EVTGEDFTIDGTAKTLSGKVADDLTFSYEASSGGETGGELSTGDTTTGLVKNGWSED--- 303

		                D   +   K  S    +   ++  A+    T    +     T    +    +   

		Sbjct: 352 SAKLSDLEANNAVKGESKITVNGAEYTANAAGDKVTLAGKTMFIDKTASGVSTLINEDAA 411

		

		Query: 304 ---AGIEASLETLKTAQDSLRAQASTFGTNLSVVQNRKNFTADMINTLEVGAGKLTLADT 360

		                    L ++ +A   + A  S+ G   +   +      + +  L     ++  AD 

		Sbjct: 412 AAKKSTANPLASIDSALSKVDAVRSSLGAIQNRFDSAITNLGNTVTNLNSARSRIEDADY 471

		

		Query: 361 NKEGANLAALQTQQQLATSTLALAARANQSVLQLIR 396

		             E +N++  Q  QQ  TS LA A +  Q+VL L+R

		Sbjct: 472 ATEVSNMSKAQILQQAGTSVLAQANQVPQNVLSLLR 507

		

		

		>FbpA_PF05833#Fibronectin-binding protein

		          Length = 577

		

		 Score = 33.7 bits (77), Expect = 0.002

		 Identities = 14/70 (20%), Positives = 29/70 (41%), Gaps = 14/70 (20%)

		

		Query: 161 ALYRAYSSAKRELSQLEKRIDEARREADYLRSSVDELSGLDPQAGEEQELALKRQDMMQV 220

		           + Y+ Y+  K+      +++ +   E +YL S +  ++  D                 ++

		Sbjct: 385 SYYKKYNKLKKSEEAANEQLLQNEEELNYLYSVLTNINNADNYD--------------EI 430

		

		Query: 221 EKIASELIEA 230

		           E+I  ELIE 

		Sbjct: 431 EEIKKELIET 440

		

		

		>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein

		           signature.

		          Length = 347

		

		 Score = 54.4 bits (131), Expect = 3e-10

		 Identities = 43/186 (23%), Positives = 74/186 (39%), Gaps = 14/186 (7%)

		

		Query: 208 RLVATPYASGLATLMADETELGVACVDFGGGTTTLSIFVDGKMVHLDAMAVGGNHITMDI 267

		            L+  P A+ +   +      G   VD GGGTT +++     +V+  ++ +GG+     I

		Sbjct: 139 FLIEEPMAAAIGAGLPVSEATGSMVVDIGGGTTEVAVISLNGVVYSSSVRIGGDRFDEAI 198

		

		Query: 268 ARWF--TTNM----HEAERLKTLYGSALPSVADEHDYIEVAPLDAEGDLPQSAPKS--EL 319

		             +             AER+K   GSA P   DE   IEV   +    +P+    +  E+

		Sbjct: 199 INYVRRNYGSLIGEATAERIKHEIGSAYP--GDEVREIEVRGRNLAEGVPRGFTLNSNEI 256

		

		Query: 320 TKVIGPRVEETLELVRDKLNSSG---FAGRVGKRIVLTGGGSQLTGMGEMARRILGHNVR 376

		            + +   +   +  V   L        +    + +VLTGGG+ L  +  +     G  V 

		Sbjct: 257 LEALQEPLTGIVSAVMVALEQCPPELASDISERGMVLTGGGALLRNLDRLLMEETGIPVV 316

		

		Query: 377 LG-RPL 381

		           +   PL

		Sbjct: 317 VAEDPL 322

		

		

		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D

		           signature.

		          Length = 478

		

		 Score = 30.6 bits (69), Expect = 0.005

		 Identities = 17/118 (14%), Positives = 37/118 (31%), Gaps = 5/118 (4%)

		

		Query: 11  ARARREEEQRQARVRAGTSQINSVFDGQFTDDFFKTRAQSYLDYAN-PQLEDQYNNATKE 69

		            + R E     AR+    +      +    DDF     +  +      + E++Y  A  E

		Sbjct: 210 DKKRAERLTVLARINRYENLSRV--EKSRLDDFSSLLHKQAIAKHAVLEQENKYVEAVNE 267

		

		Query: 70  LSFALARSGTLDSSVRGGKLSELQKLYDIEKQNVAD--QAQAQSKQLRGEVERSRGDL 125

		           L    ++   ++S +   K          + + +    Q       L  E+ ++    

		Sbjct: 268 LRVYKSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDNIGLLTLELAKNEERQ 325

		

		

		>SACTRNSFRASE#Streptothricin acetyltransferase signature.

		          Length = 173

		

		 Score = 30.3 bits (68), Expect = 0.002

		 Identities = 13/71 (18%), Positives = 26/71 (36%), Gaps = 5/71 (7%)

		

		Query: 42  QYLQSANPTIFVAEDERCLVGFLVASMHGYMWAGGHYTTQDVLFVRPENRGSRAAVHLMN 101

		            Y++      F+   E   +G +    +   W G  Y   + + V  + R       L++

		Sbjct: 58  SYVEEEGKAAFLYYLENNCIGRIKIRSN---WNG--YALIEDIAVAKDYRKKGVGTALLH 112

		

		Query: 102 NLIRWSKQIGA 112

		             I W+K+   

		Sbjct: 113 KAIEWAKENHF 123

		

		

		>FIMBRILLIN#Porphyromonas gingivalis: fimbrillin protein signature.

		          Length = 348

		

		 Score = 30.8 bits (69), Expect = 0.008

		 Identities = 17/72 (23%), Positives = 29/72 (40%), Gaps = 7/72 (9%)

		

		Query: 36  LKAFDKRAKSFVGGKEKVTAGVRAGAGQLSLAGYSHDDQVSYGNPVKNKRAGYKWREHHI 95

		           L A ++ A   +   E V   + AG       G    +Q+S   P++ KR        H 

		Sbjct: 82  LTAENQEAAGLIMTAEPVEVTLVAGNNYYGYDGSQGGNQISQDTPLEIKRV-------HA 134

		

		Query: 96  GMGITHTELKMA 107

		            M  T  +++M+

		Sbjct: 135 RMAFTEIKVQMS 146

		

		

		>PF07132#Harpin protein (HrpN)

		          Length = 356

		

		 Score = 33.5 bits (76), Expect = 0.002

		 Identities = 29/85 (34%), Positives = 39/85 (45%), Gaps = 2/85 (2%)

		

		Query: 534 GGGGVAGAGYTPHGGGGSFGSNGGPSNNILE--NRVFYPKTFHSGTGAGGNGSGGRGQLA 591

		           G GG+  +  + +GG  S  + GG  +NI E  + +     F      GG G G  G  +

		Sbjct: 19  GNGGLFPSQSSQNGGSPSQSAFGGQRSNIAEQLSDIMTTMMFMGSMMGGGLGGGLGGLGS 78

		

		Query: 592 AGGGSVGSGGLGGGGGGLGGLGGPG 616

		           + GG  G    GG GGGLG   G G

		Sbjct: 79  SLGGLGGGLLGGGLGGGLGSSLGSG 103

		

		

		>CARBMTKINASE#Bacterial carbamate kinase signature.

		          Length = 314

		

		 Score = 29.0 bits (65), Expect = 0.022

		 Identities = 10/44 (22%), Positives = 22/44 (50%), Gaps = 4/44 (9%)

		

		Query: 73  KRKVLVALGGATLASD----TWANCAQNVEEVAQCLADFVKQNN 112

		            ++V++ALGG  L       ++     NV + A+ +A+ + +  

		Sbjct: 2   GKRVVIALGGNALQQRGQKGSYEEMMDNVRKTARQIAEIIARGY 45

		

		

		>CHANLCOLICIN#Channel forming colicin signature.

		          Length = 522

		

		 Score = 33.9 bits (77), Expect = 0.002

		 Identities = 32/97 (32%), Positives = 45/97 (46%), Gaps = 5/97 (5%)

		

		Query: 313 KTQAEVSLSAQRMLDSLAKPFSLKNDLNIRISACVGIALIPEVGKHPDAI-LAKAGLALK 371

		           KTQAE +  A+   ++ AK  + ++ L  R+   V  AL     + P A  LA A  A  

		Sbjct: 64  KTQAEQAARAKAAAEAQAKAKANRDALTQRLKDIVNEALRHNASRTPSATELAHANNAAM 123

		

		Query: 372 RAELSGKGKLAFFEPSMEASLKERRTIELDLQEALQQ 408

		           +AE     +LA  E   E + KE    E   QEA Q+

		Sbjct: 124 QAEDERL-RLAKAE---EKARKEAEAAEKAFQEAEQR 156

		

		

		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature.

		          Length = 478

		

		 Score = 42.9 bits (101), Expect = 7e-06

		 Identities = 28/204 (13%), Positives = 64/204 (31%), Gaps = 16/204 (7%)

		

		Query: 816  ARLTGLQGEALMRGLSALLRFVGETRKSWNECKDELERCEVQLGAMAAEIASLQARLEEN 875

		             +LT L  EA      + L      +  +      +E  ++    +  E        EE 

		Sbjct: 125  LKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELKLPDEPYFQNVSEEEV 184

		

		Query: 876  EGQLLPQQQQLDALQQQLGELQ----RTRAELLGGEGTQAHRARHQDALKQAQAEAAQLL 931

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

		Sbjct: 185  LRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLA-RINRYENLSRVEKSRLDDFSSL 243

		

		Query: 932  GQLGQV--------NEQLAAAHGQSTQKKARLEELRTAITQGEAGFATALQREGLSPEQF 983

		                 +          +   A  +    K++LE++ + I   +           L   + 

		Sbjct: 244  LHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAK---EEYQLVTQLFKNEI 300

		

		Query: 984  TLLRPTADEQLAQLQEELERLTQE 1007

		                    + +  L  EL +  + 

		Sbjct: 301  LDKLRQTTDNIGLLTLELAKNEER 324

		

		

		

		 Score = 39.0 bits (91), Expect = 1e-04

		 Identities = 31/225 (13%), Positives = 68/225 (30%), Gaps = 25/225 (11%)

		

		Query: 722 LTGLQEASKSRLGELEGQLAALEAQRVALAEAQQARDELHQSLTRASAQASAVKADLVGL 781

		           LT L   + +   +     A LE  R  +       ++L +           V  + V  

		Sbjct: 127 LTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELKLPDEPYFQNVSEEEV-- 184

		

		Query: 782 LVQRQEREAQLKEGKSELARLLAAIDDVAGAPQSARLTGLQGEALMRGLSALLRFVGETR 841

		           L      + Q    +++  +    +                 +        +L  +    

		Sbjct: 185 LRLTSLIKEQFSTWQNQKYQKELNL-----------------DKKRAERLTVLARINRYE 227

		

		Query: 842 KSWNECKDELERCEVQLGAMAAEIASLQARLEENEGQLLPQQQQLDALQQQLGELQR--T 899

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

		Sbjct: 228 NLSRVEKSRLDD----FSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEIL 283

		

		Query: 900 RAELLGGEGTQAHRARHQDALKQAQAEAAQLLGQLGQVNEQLAAA 944

		            A+      TQ  +    D L+Q       L  +L +  E+  A+

		Sbjct: 284 SAKEEYQLVTQLFKNEILDKLRQTTDNIGLLTLELAKNEERQQAS 328

		

		

		

		 Score = 35.6 bits (82), Expect = 0.001

		 Identities = 29/174 (16%), Positives = 55/174 (31%), Gaps = 19/174 (10%)

		

		Query: 340 DAQRQGEQEALRKAQQLSAQLQDQVRQFEPQWRLAEQKDLQLSHSQAECDKLSRRVGDLA 399

		             Q   E+E LR    +  Q      Q         QK+L L   +AE   +  R+    

		Sbjct: 175 YFQNVSEEEVLRLTSLIKEQFSTWQNQ-------KYQKELNLDKKRAERLTVLARINRYE 227

		

		Query: 400 VRTADTREKLVNAQSRQQDLAAVKAKVKAQLERLQPLRPIVDAEQSLRGDLHRAGDTAEQ 459

		             +   + +L         L   +A  K  +   +     V+A   LR    +      +

		Sbjct: 228 NLSRVEKSRL----DDFSSLLHKQAIAKHAVLEQE--NKYVEAVNELRVYKSQLEQIESE 281

		

		Query: 460 LQKQEAQLSQLKQAEHEKAQLQQELESKLQDMGAQVAQAEAQLAAEQQAIAAID 513

		           +   + +   + Q        + E+  KL+     +     +LA  ++   A  

		Sbjct: 282 ILSAKEEYQLVTQ------LFKNEILDKLRQTTDNIGLLTLELAKNEERQQASV 329

		

		

		

		 Score = 35.6 bits (82), Expect = 0.001

		 Identities = 30/253 (11%), Positives = 75/253 (29%), Gaps = 44/253 (17%)

		

		Query: 251 EAAQLKGLQEDLQKNKALDAAQQQLVSTREAMGQAQQRLGNAADKQQLLATLKRIKIVEP 310

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

		Sbjct: 119 RKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELKLPDEPYFQN 178

		

		Query: 311 LAQQVEMRKGEEVSE-LDAF----TQLQTQMQALDAQRQGEQEALRKAQQLSAQLQDQVR 365

		           ++++  +R    + E    +     Q +  +    A+R      + + + LS   + ++ 

		Sbjct: 179 VSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYENLSRVEKSRLD 238

		

		Query: 366 QFEPQWRLAEQKDLQLSHSQAECDKLSRRVGDLAVRTADTREKLVNAQSRQQDLAAVKAK 425

		            F     L  ++ +                          +  ++  +++  +       

		Sbjct: 239 DFSS---LLHKQAIA-------------------------KHAVLEQENKYVEAVNELRV 270

		

		Query: 426 VKAQLERLQPLRPIVDAEQSLRGDLHRAGDTAEQLQKQEAQLSQLKQAEHEKAQLQQELE 485

		            K+QLE+++    I+ A++  +               +   L +L+Q       L  EL 

		Sbjct: 271 YKSQLEQIE--SEILSAKEEYQL---------VTQLFKNEILDKLRQTTDNIGLLTLELA 319

		

		Query: 486 SKLQDMGAQVAQA 498

		              +   A V +A

		Sbjct: 320 KNEERQQASVIRA 332

		

		

		

		 Score = 32.5 bits (74), Expect = 0.012

		 Identities = 27/208 (12%), Positives = 67/208 (32%), Gaps = 34/208 (16%)

		

		Query: 396 GDLAVRTADTREKLVNAQSRQQDLAAVKAKVKAQLERLQPLRPIVDAEQSLRGDLH---R 452

		           GD+ ++      +    +++   L A     + +  R Q L   ++  +     L     

		Sbjct: 121 GDVLLKLTALGAEADTLKTQSSLLQA-----RLEQTRYQILSRSIELNKLPELKLPDEPY 175

		

		Query: 453 AGDTAEQLQKQEAQL--SQLKQAEHEKAQLQQELESK---LQDMGAQVAQAEAQLAAEQQ 507

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

		Sbjct: 176 FQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYENLSRVEKS 235

		

		Query: 508 AIA---------AIDGARLHEQQKLMLRLEQQVSS------------LQMSAQKARHKEQ 546

		            +          AI    + EQ+   +    ++              L    +     + 

		Sbjct: 236 RLDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQL 295

		

		Query: 547 DKEQISTEVTVLEAALTGLAHEVDGARQ 574

		            K +I  ++      +  L  E+    +

		Sbjct: 296 FKNEILDKLRQTTDNIGLLTLELAKNEE 323

		

		

		

		 Score = 31.7 bits (72), Expect = 0.018

		 Identities = 36/252 (14%), Positives = 72/252 (28%), Gaps = 57/252 (22%)

		

		Query: 632 QLFAGVQKARTEAQVRAKQARAALERVLAKQSGDAARLQALLAQKTRAEKEIIALREEAG 691

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

		Sbjct: 122 DVLLKLTALGAEADTLKTQSSLLQARL------EQTRYQILSRSIELNK----------- 164

		

		Query: 692 RAWHGLPLMLEQSDLPAPPPLEDVLLGRGSLTGLQEASKSRLGELEGQLAALEAQRVALA 751

		                    L +  LP  P  +   +    +  L    K +    + Q    E     L 

		Sbjct: 165 ---------LPELKLPDEPYFQ--NVSEEEVLRLTSLIKEQFSTWQNQKYQKEL---NLD 210

		

		Query: 752 EAQQARDELHQSLTRASAQASAVKADLVGL-------LVQRQ---EREAQLKEGKSELAR 801

		           + +  R  +   + R    +   K+ L           + +    E+E +  E  +EL  

		Sbjct: 211 KKRAERLTVLARINRYENLSRVEKSRLDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRV 270

		

		Query: 802 LLAAIDDVAGAPQSARLTGLQGEALMRGLSALLRFVGETRKSWNECKDELERCEVQLGAM 861

		             + ++ +     SA+        L +                NE  D+L +    +G +

		Sbjct: 271 YKSQLEQIESEILSAKEEYQLVTQLFK----------------NEILDKLRQTTDNIGLL 314

		

		Query: 862 AAEIASLQARLE 873

		             E+A  + R +

		Sbjct: 315 TLELAKNEERQQ 326

		

		

		>HTHTETR#TetR bacterial regulatory protein HTH signature.

		          Length = 215

		

		 Score = 65.8 bits (160), Expect = 2e-15

		 Identities = 27/116 (23%), Positives = 51/116 (43%), Gaps = 7/116 (6%)

		

		Query: 1   MARASDAKTQTRIQREKKQIILEAALEVFSAHGYKGATLEQIANQSNLSKPNLLYYFDSK 60

		           MAR    KT+   Q  ++ I L+ AL +FS  G    +L +IA  + +++  + ++F  K

		Sbjct: 1   MAR----KTKQEAQETRQHI-LDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDK 55

		

		Query: 61  EGIFQRLIEELLVSWLDPLRKFSA--TGNPVEEICAYVQRKLEMARDYPRESRLFA 114

		             +F  + E    +  +   ++ A   G+P+  +   +   LE      R   L  

		Sbjct: 56  SDLFSEIWELSESNIGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLME 111

		

		

		>OMPADOMAIN#OMPA domain signature.

		          Length = 346

		

		 Score =  103 bits (257), Expect = 2e-28

		 Identities = 40/125 (32%), Positives = 61/125 (48%), Gaps = 11/125 (8%)

		

		Query: 107 KLNMPNDVTFATNQTALSPRAMQVLTSVAVVAKEY--TQTRLNVYGHTDNVGSAQYNMQL 164

		              + +DV F  N+  L P     L  +             + V G+TD +GS  YN  L

		Sbjct: 214 HFTLKSDVLFNFNKATLKPEGQAALDQLYSQLSNLDPKDGSVVVLGYTDRIGSDAYNQGL 273

		

		Query: 165 SQQRAQIVGSYLINQGIPAQRIAAFGYGLSQPIASNASEAGR---------AQNRRVEVV 215

		           S++RAQ V  YLI++GIPA +I+A G G S P+  N  +  +         A +RRVE+ 

		Sbjct: 274 SERRAQSVVDYLISKGIPADKISARGMGESNPVTGNTCDNVKQRAALIDCLAPDRRVEIE 333

		

		Query: 216 LSPLQ 220

		           +  ++

		Sbjct: 334 VKGIK 338

		

		

		>HELNAPAPROT#Helicobacter neutrophil-activating protein A family

		           signature.

		          Length = 153

		

		 Score = 35.2 bits (81), Expect = 3e-05

		 Identities = 23/109 (21%), Positives = 44/109 (40%), Gaps = 17/109 (15%)

		

		Query: 43  KELEEAVEE-QEHADQLAERVLFLGGVPDMR-PEF-----------VPSMKDSVKAILEA 89

		           ++ EE  +   E  D +AER+L +GG P     E+             S  + V+A++  

		Sbjct: 48  EKFEELYDHAAETVDTIAERLLAIGGQPVATVKEYTEHASITDGGNETSASEMVQALVND 107

		

		Query: 90  DLAGEKDAREAYRVSREICDAEGDYVSMQLFDQLLADEEGHIDFLETQL 138

		                 +++    ++ E      D  +  LF  L+ + E  +  L + L

		Sbjct: 108 YKQISSESKFVIGLAEE----NQDNATADLFVGLIEEVEKQVWMLSSYL 152

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 34.0 bits (78), Expect = 0.001

		 Identities = 51/233 (21%), Positives = 76/233 (32%), Gaps = 58/233 (24%)

		

		Query: 17  RPLADRLRPDELAAVVGQGHLLDEDGVLARMLASGTLGSLIFWGPPGTGKTTVARLLADH 76

		           RP        +   +VG+   + E   +   L    L  +I  G  GTGK  VAR L D+

		Sbjct: 125 RPSKLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTDLTLMIT-GESGTGKELVARALHDY 183

		

		Query: 77  T----------------------ELQFEQVSAIFSG-VADLKKVFERARMTRLTGRGTLL 113

		                                  EL F      F+G        FE+A        GT L

		Sbjct: 184 GKRRNGPFVAINMAAIPRDLIESEL-FGHEKGAFTGAQTRSTGRFEQA------EGGT-L 235

		

		Query: 114 FVDEIHRFNRAQLDSFLPVMEDGTITLVG-------------ATTENPSFELN-----AA 155

		           F+DEI           L V++ G  T VG             AT ++    +N       

		Sbjct: 236 FLDEIGDMPMDAQTRLLRVLQQGEYTTVGGRTPIRSDVRIVAATNKDLKQSINQGLFRED 295

		

		Query: 156 LLSRAHVLVF------ERLDEAAL--DALLCRAEEETGAALPLDGDARRALIQ 200

		           L  R +V+        +R ++        + +AE+E       D +A   +  

		Sbjct: 296 LYYRLNVVPLRLPPLRDRAEDIPDLVRHFVQQAEKEGLDVKRFDQEALELMKA 348

		

		

		>V8PROTEASE#V8 serine protease family signature.

		          Length = 336

		

		 Score = 72.3 bits (177), Expect = 4e-16

		 Identities = 33/191 (17%), Positives = 58/191 (30%), Gaps = 41/191 (21%)

		

		Query: 90  SPFGAPRTRERVKSSLGSGVIVSKDGTIITNHHVIEGAQDVRVVLSDKRE---------- 139

		                          + SGV+V KD T++TN HV++        L               

		Sbjct: 95  VEAPTGTF-------IASGVVVGKD-TLLTNKHVVDATHGDPHALKAFPSAINQDNYPNG 146

		

		Query: 140 --FEAKVLLKDERTDLAILKI----DGE--GADLPMVEFADSDGLEVGDLVLAIGNPFGV 191

		                ++       DLAI+K       +  G  +     +++   +V   +   G P   

		Sbjct: 147 GFTAEQITKYSGEGDLAIVKFSPNEQNKHIGEVVKPATMSNNAETQVNQNITVTGYPGD- 205

		

		Query: 192 GQTVTQGIVSAVARTQVGVSDYQFFIQTDAAINPGNSGGALVDVDGKLVGINTAIFSRSG 251

		               T            G       +Q D +   GNSG  + +   +++GI+        

		Sbjct: 206 KPVATMWESKGKITYLKGE-----AMQYDLSTTGGNSGSPVFNEKNEVIGIHWG------ 254

		

		Query: 252 GSNGIGFAIPG 262

		              G+     G

		Sbjct: 255 ---GVPNEFNG 262

		

		

		>CHANLCOLICIN#Channel forming colicin signature.

		          Length = 522

		

		 Score = 32.0 bits (72), Expect = 0.009

		 Identities = 37/227 (16%), Positives = 80/227 (35%), Gaps = 12/227 (5%)

		

		Query: 424 LQDERELRKERAREQEERNQRAELMEELNAEFDQKVRGILQEVTEAGDTLNTTAKSMARM 483

		            Q+  + RKE  RE+ E  ++ +L E         +    + V  A   L+     + +M

		Sbjct: 150 FQEAEQRRKEIEREKAETERQLKLAEAEEKRLA-ALSEEAKAVEIAQKKLSAAQSEVVKM 208

		

		Query: 484 SEQTNSEAQTVSSASEQSLMNLQAVAGATEELSATSG---EIDREIRQSADI------SR 534

		             +  +    +SS+       ++ +AG   EL+  S    E+D  +++ +        +R

		Sbjct: 209 DGEIKTLNSRLSSSIHARDAEMKTLAGKRNELAQASAKYKELDELVKKLSPRANDPLQNR 268

		

		Query: 535 EAAETASSASTTIHGLQQAAVRIGEVVSLINDIAEQTNLL--ALNATIEAARAGEAGRGF 592

		              E            ++   ++    + IN I      +  A++       AG A    

		Sbjct: 269 PFFEATRRRVGAGKIREEKQKQVTASETRINRINADITQIQKAISQVSNNRNAGIARVHE 328

		

		Query: 593 AVVASEVKELANQTGSATGEISAQIQAVQNETQQAVAAIDEIAKVIA 639

		           A    +  +           + A +   Q  T++      ++A+ +A

		Sbjct: 329 AEENLKKAQNNLLNSQIKDAVDATVSFYQTLTEKYGEKYSKMAQELA 375

		

		

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

		           signature.

		          Length = 639

		

		 Score = 86.1 bits (213), Expect = 2e-20

		 Identities = 52/150 (34%), Positives = 78/150 (52%), Gaps = 10/150 (6%)

		

		Query: 13  VNIGTIGHVDHGKTTLTAAI------TKSFGDFKAYDEI-DGAPEERARGITISTAHVEY 65

		           +NIG + HVD GKTTLT ++          G         D    ER RGITI T    +

		Sbjct: 4   INIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSF 63

		

		Query: 66  ETEARHYAHVDCPGHADYVKNMITGAAQMDGAILVVNAADGPMPQTREHILLARQVGVPA 125

		           + E      +D PGH D++  +    + +DGAIL+++A DG   QTR      R++G+P 

		Sbjct: 64  QWENTKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALRKMGIPT 123

		

		Query: 126 LVVFMNKVDQVDDEELLELVEMEVRELLSS 155

		            + F+NK+DQ   +  L  V  +++E LS+

		Sbjct: 124 -IFFINKIDQNGID--LSTVYQDIKEKLSA 150

		

		

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

		           signature.

		          Length = 639

		

		 Score =  604 bits (1559), Expect = 0.0

		 Identities = 173/669 (25%), Positives = 298/669 (44%), Gaps = 66/669 (9%)

		

		Query: 11  RNFGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTA 70

		            N G++AH+DAGKTT TE +LY +G   ++G V  G    D    E++RGITI +  T+ 

		Sbjct: 4   INIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSF 63

		

		Query: 71  FWNDKRLNIIDTPGHVDFTIEVERSLRVLDGAVALLDANAGVEPQTETVWRQADKYNVPR 130

		            W + ++NIIDTPGH+DF  EV RSL VLDGA+ L+ A  GV+ QT  ++    K  +P 

		Sbjct: 64  QWENTKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALRKMGIPT 123

		

		Query: 131 MIFVNKMDKLGADFYRCVEMIEKRLGANPLCLQLPIGAESEFQGVVDLLKMKALVWKSEN 190

		           + F+NK+D+ G D     + I+++L A  +  Q            V+L            

		Sbjct: 124 IFFINKIDQNGIDLSTVYQDIKEKLSAEIVIKQ-----------KVELYP---------- 162

		

		Query: 191 LGASWDELDIPADLADQAAEYRDKLIETAVEVDEEAMEAYLEGEEPSFEKLQALIRKGTI 250

		                +        ++Q         +T +E +++ +E Y+ G+     +L+        

		Sbjct: 163 -----NMCVTNFTESEQ--------WDTVIEGNDDLLEKYMSGKSLEALELEQEESIRFH 209

		

		Query: 251 AGDFVPVMCGTAFKNKGVQPLLDAVVDYLPSPVEVPAIKGIDAKTEEETERKSSDEEPLG 310

		                PV  G+A  N G+  L++ + +   S                        +  L 

		Sbjct: 210 NCSLFPVYHGSAKNNIGIDNLIEVITNKFYSSTH-------------------RGQSELC 250

		

		Query: 311 MLAFKIMNDPFVGSLTFARIYSGVLTKGSSVMNTVKGKRERVGRMMQMHSNSREDIDEAY 370

		              FKI        L + R+YSGVL    SV  + K K  ++  M    +     ID+AY

		Sbjct: 251 GKVFKIEYSEKRQRLAYIRLYSGVLHLRDSVRISEKEK-IKITEMYTSINGELCKIDKAY 309

		

		Query: 371 AGDIVAIAG----LKDTTTGDTLCDPLKPVILERMEFPDPVIEIAVEPKTKGDQEKMGLA 426

		           +G+IV +      L     GDT   P +    ER+E P P+++  VEP     +E +  A

		Sbjct: 310 SGEIVILQNEFLKLNSVL-GDTKLLPQR----ERIENPLPLLQTTVEPSKPQQREMLLDA 364

		

		Query: 427 LNRLAAEDPSFRVKTDEESGQTIIAGMGELHLDILVDRMKREFKVEANIGAPQVAYRETI 486

		           L  ++  DP  R   D  + + I++ +G++ +++    ++ ++ VE  I  P V Y E  

		Sbjct: 365 LLEISDSDPLLRYYVDSATHEIILSFLGKVQMEVTCALLQEKYHVEIEIKEPTVIYMERP 424

		

		Query: 487 TAPADIDYTHKKQSGGTGQFARIKLSIEPNEIGAGFEFKDTIVGGNVPKEYIPGVSKGIE 546

		              A+  YT   +      +A I LS+ P  +G+G +++ ++  G + + +   V +GI 

		Sbjct: 425 LKKAE--YTIHIEVPPNPFWASIGLSVSPLPLGSGMQYESSVSLGYLNQSFQNAVMEGIR 482

		

		Query: 547 SVMSSGPLAGFPMVDIKATLTDGAYHDVDSSVLAFEIAGRAGFREAIAQAKPKLLEPIMK 606

		                G L G+ + D K     G Y+   S+   F +       + + +A  +LLEP + 

		Sbjct: 483 YGCEQG-LYGWNVTDCKICFKYGLYYSPVSTPADFRMLAPIVLEQVLKKAGTELLEPYLS 541

		

		Query: 607 VEVVTPEDYMGDVIGDLNSRRGQISGTENRGVVTVITAMVPLANMFGYVNNLRSMSQGRA 666

		            ++  P++Y+     D       I  T+ +    +++  +P   +  Y ++L   + GR+

		Sbjct: 542 FKIYAPQEYLSRAYTDAPKYCANIVDTQLKNNEVILSGEIPARCIQEYRSDLTFFTNGRS 601

		

		Query: 667 QYSMVFDHY 675

		                   Y

		Sbjct: 602 VCLTELKGY 610

		

		

		>CHLAMIDIAOM6#Chlamydia cysteine-rich outer membrane protein 6

		           signature.

		          Length = 547

		

		 Score = 27.0 bits (59), Expect = 0.025

		 Identities = 9/26 (34%), Positives = 14/26 (53%)

		

		Query: 16  PKRNKVPAMEACPQKRGVCTRVYTTT 41

		           P  ++   +E CP KRG  T + T +

		Sbjct: 272 PGEHRTITVEFCPLKRGRATNIATVS 297

		

		

		>PF05272#Virulence-associated E family protein

		          Length = 892

		

		 Score = 32.7 bits (74), Expect = 0.013

		 Identities = 24/133 (18%), Positives = 40/133 (30%), Gaps = 19/133 (14%)

		

		Query: 298 EDLFTQYLAEDMVNLQTGEIYYEAGDEISEKMVDELVDRGFGEIPVLDIDHVNTGAYIRN 357

		           +    Q  AE +     GE Y+ + ++       E   R                  +  

		Sbjct: 723 QKFRGQLFAEALHLYLAGERYFPSPEDEEIYFRPEQELRLVETG---------VQGRLWA 773

		

		Query: 358 TLAADKNETREGALFDIYRVMRPGEPPTIETAEAMFQSLFFDTERYDLSAVGRVKMNMRL 417

		            L  +     EGA    Y V       T  T   + Q+L  D  +      G+V+  +  

		Sbjct: 774 LLTREGAPAAEGAAQKGYSVNT-----TFVTIADLVQALGADPGKSSPMLEGQVRDWLN- 827

		

		Query: 418 DLDCEDTVRVLRK 430

		               E+    LR+

		Sbjct: 828 ----ENGWEYLRE 836

		

		

		>MALTOSEBP#Maltose binding protein signature.

		          Length = 396

		

		 Score = 34.3 bits (78), Expect = 7e-04

		 Identities = 76/337 (22%), Positives = 125/337 (37%), Gaps = 58/337 (17%)

		

		Query: 7   LGTAVLAGLSTAALAEDTRIHMINCGDNNGDGIKLQDQLIADWEKANPGFKVDVEFVPWG 66

		           L T + +  + A + E   +  IN GD   +G+    ++   +EK + G KV VE     

		Sbjct: 15  LTTMMFSASALAKIEEGKLVIWIN-GDKGYNGLA---EVGKKFEK-DTGIKVTVEHP--D 67

		

		Query: 67  QCQEKSTTLASAGSPPAVAYMGSRTLKQLAANDLIIPVSMSDAEKATYAAPILATVTANG 126

		           + +EK   +A+ G  P + +         A + L+  ++   A +          V  NG

		Sbjct: 68  KLEEKFPQVAATGDGPDIIFWAHDRFGGYAQSGLLAEITPDKAFQDKLYPFTWDAVRYNG 127

		

		Query: 127 EQWGLPRAFSTKAYYWSKDLFKAAGLDPETPPKTWDEMYEAAKAIKEKTDADGVGLVAAS 186

		           +    P A    +  ++KDL          PPKTW+E+    K +K K      G  A  

		Sbjct: 128 KLIAYPIAVEALSLIYNKDLLP-------NPPKTWEEIPALDKELKAK------GKSALM 174

		

		Query: 187 FDNTMHQFMNYVYTNGGEVINADGEIVFNSPNNVEAMAFYGKLATVSQPG---------- 236

		           F N    +  +       +I ADG   F   N    +   G     ++ G          

		Sbjct: 175 F-NLQEPYFTW------PLIAADGGYAFKYENGKYDIKDVGVDNAGAKAGLTFLVDLIKN 227

		

		Query: 237 ---PIAYDRGKLYPLFNEGKIGMFISGPWERKKLTG---DWGVAPIPVGPKGTPGTLLIT 290

		                  D       FN+G+  M I+GPW    +     ++GV  +P   KG P    + 

		Sbjct: 228 KHMNADTDYSIAEAAFNKGETAMTINGPWAWSNIDTSKVNYGVTVLPTF-KGQPSKPFV- 285

		

		Query: 291 DSLAVFKGSGVEAQALDLAKLLTNPENQMAFELAEGY 327

		                    GV +  ++ A    +P  ++A E  E Y

		Sbjct: 286 ---------GVLSAGINAA----SPNKELAKEFLENY 309

		

		

		>PF05272#Virulence-associated E family protein

		          Length = 892

		

		 Score = 35.0 bits (80), Expect = 5e-04

		 Identities = 12/31 (38%), Positives = 17/31 (54%)

		

		Query: 32  IVFVGPSGCGKSTLLRMIAGLEEITKGDIDI 62

		           +V  G  G GKSTL+  + GL+  +    DI

		Sbjct: 599 VVLEGTGGIGKSTLINTLVGLDFFSDTHFDI 629

		

		

		>ALARACEMASE#Alanine racemase signature.

		          Length = 356

		

		 Score = 37.8 bits (88), Expect = 5e-05

		 Identities = 30/170 (17%), Positives = 59/170 (34%), Gaps = 28/170 (16%)

		

		Query: 14  AVIDAEVMENNITRVQSYMDRIGRRFRPHIKT----------HKIPAVAAKQIAAGAVGI 63

		           A +D + ++ N+         I R+   H +           H I  + +   A     +

		Sbjct: 7   ASLDLQALKQNL--------SIVRQAATHARVWSVVKANAYGHGIERIWSAIGATDGFAL 58

		

		Query: 64  NCQKVSEAQVFADAGF-DDILLTYNVLGAEALADLVRLNAQISGLSVTCDNAVVLAGLQQ 122

		               + EA    + G+   IL+      A+ L    +        S     A+  A    

		Sbjct: 59  LN--LEEAITLRERGWKGPILMLEGFFHAQDLEIYDQHRLTTCVHSNWQLKALQNA---- 112

		

		Query: 123 TFEQEASLCVLVECDTGGARAGVQSPQEARELVQQIQNAPGLRFGGLMTY 172

		               +A L + ++ ++G  R G Q P     + QQ++    +    LM++

		Sbjct: 113 --RLKAPLDIYLKVNSGMNRLGFQ-PDRVLTVWQQLRAMANVGEMTLMSH 159

		

		

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

		           signature.

		          Length = 261

		

		 Score = 97.4 bits (242), Expect = 2e-26

		 Identities = 71/251 (28%), Positives = 115/251 (45%), Gaps = 12/251 (4%)

		

		Query: 9   IAIITGAAGDIGRAIAAALTSD-YHLALVDIDADALEGAGKTLATQGAKLSLHRCDLTCP 67

		           IA ITGAA  IG A+A  L S   H+A VD + + LE    +L  +         D+   

		Sbjct: 10  IAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAFPADVRDS 69

		

		Query: 68  ADLTALKEQL-APLGRVSLLVNNAGAAAALSLQELTAEQLRQDLALNLEAATNIFKTFED 126

		           A +  +  ++   +G + +LVN AG      +  L+ E+     ++N     N  ++   

		Sbjct: 70  AAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGVFNASRSVSK 129

		

		Query: 127 DLK--QGGNLINIAS-VNGMAVFGHPAYSMAKAGLIHFTRLVATEYGKYGLRANTVAPGT 183

		            +   + G+++ + S   G+      AY+ +KA  + FT+ +  E  +Y +R N V+PG+

		Sbjct: 130 YMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCNIVSPGS 189

		

		Query: 184 VRT----QAWNARAAANPKVFEEAAYW---YPLGRVAEPEDVANAVAFLASPAANAITGV 236

		             T      W     A   +      +    PL ++A+P D+A+AV FL S  A  IT  

		Sbjct: 190 TETDMQWSLWADENGAEQVIKGSLETFKTGIPLKKLAKPSDIADAVLFLVSGQAGHITMH 249

		

		Query: 237 CLPVDCGLTSG 247

		            L VD G T G

		Sbjct: 250 NLCVDGGATLG 260

		

		

		>PF06057#Type IV secretory pathway VirJ component

		          Length = 243

		

		 Score = 31.3 bits (71), Expect = 0.004

		 Identities = 19/76 (25%), Positives = 33/76 (43%), Gaps = 10/76 (13%)

		

		Query: 146 RTPVCVIAAGAKALLDLPKTM-EVLETRGVPVISYGVDELPAFWSRTSGIKAPTRLDSAA 204

		           + P+ +  +G      L K +  +L+ +G PV+  G   L  +W +    K P   D   

		Sbjct: 50  KPPLVIFLSGDGGWATLDKAVGGILQQQGWPVV--GWSSLKYYWKQ----KDPK--DVTQ 101

		

		Query: 205 DIAKLL-KARGEFGGH 219

		           D   ++ K + EFG  

		Sbjct: 102 DTLAIIDKYQAEFGTQ 117

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 91.4 bits (227), Expect = 2e-21

		 Identities = 41/125 (32%), Positives = 65/125 (52%), Gaps = 12/125 (9%)

		

		Query: 726 ARILLVEDEEAVRAFAARALSSRGYEVFEAGSGTEALEVMEEEGGAMDLVVSDVVMPEMD 785

		           A IL+ +D+ A+R    +ALS  GY+V    +       +    G  DLVV+DVVMP+ +

		Sbjct: 4   ATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDG--DLVVTDVVMPDEN 61

		

		Query: 786 GPSLLVELRKMQPDLKIIFVSGYAE-----EAFEKNLPAEETFNFLPKPFTLKQLATTVK 840

		              LL  ++K +PDL ++ +S         +A E     +  +++LPKPF L +L   + 

		Sbjct: 62  AFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASE-----KGAYDYLPKPFDLTELIGIIG 116

		

		Query: 841 EVLAE 845

		             LAE

		Sbjct: 117 RALAE 121

		

		

		>TYPE3IMSPROT#Type III secretion system inner membrane S protein

		           family signature.

		          Length = 354

		

		 Score =  318 bits (816), Expect = e-109

		 Identities = 103/346 (29%), Positives = 184/346 (53%), Gaps = 5/346 (1%)

		

		Query: 8   SEKTEEPTQKRLDDAHEKGDVPKSQEVSTWFAVLGTAMAMTFLADRTAGSLSGLLENFFD 67

		            EKTE+PT K++ DA +KG V KS+EV +   ++  +  +  L+D      S L+    +

		Sbjct: 3   GEKTEQPTPKKIRDARKKGQVAKSKEVVSTALIVALSAMLMGLSDYYFEHFSKLMLIPAE 62

		

		Query: 68  KAGQMRLDGPALVLLWRDLGPALLAIIAAP-MAVMLLFAMAGNLIQHKPIWSSERLKPKL 126

		              Q  L     +    D        +  P + V  L A+A +++Q+  + S E +KP +

		Sbjct: 63  ---QSYLPFSQALSYVVDNVLLEFFYLCFPLLTVAALMAIASHVVQYGFLISGEAIKPDI 119

		

		Query: 127 EKVSPLKGLKRLFSQESLANFLKGLVKILVVAGLMGLVLWPQRRVLDTLVFRDLRLLLEE 186

		           +K++P++G KR+FS +SL  FLK ++K+++++ L+ +++      L  L    +  +   

		Sbjct: 120 KKINPIEGAKRIFSIKSLVEFLKSILKVVLLSILIWIIIKGNLVTLLQLPTCGIECITPL 179

		

		Query: 187 TKELSLQLIGAILAVMTVIAGVDYLWQRQKWFKKQRMTRREIKEEYKQAEGDPQIKAKIR 246

		             ++  QL+        VI+  DY ++  ++ K+ +M++ EIK EYK+ EG P+IK+K R

		Sbjct: 180 LGQILRQLMVICTVGFVVISIADYAFEYYQYIKELKMSKDEIKREYKEMEGSPEIKSKRR 239

		

		Query: 247 ELRVMRSRHRMMSAVPEATVVIANPTHYAVALHYEEG-MGAPKCVAKGVDALALRIRRVA 305

		           +         M   V  ++VV+ANPTH A+ + Y+ G    P    K  DA    +R++A

		Sbjct: 240 QFHQEIQSRNMRENVKRSSVVVANPTHIAIGILYKRGETPLPLVTFKYTDAQVQTVRKIA 299

		

		Query: 306 EDAQVPVVENPPLARTLHAAMDLDELVPEEHFEAVAKVIGYVMQLK 351

		           E+  VP+++  PLAR L+    +D  +P E  EA A+V+ ++ +  

		Sbjct: 300 EEEGVPILQRIPLARALYWDALVDHYIPAEQIEATAEVLRWLERQN 345

		

		

		>TYPE3IMRPROT#Type III secretion system inner membrane R protein

		           family signature.

		          Length = 261

		

		 Score =  103 bits (259), Expect = 9e-29

		 Identities = 60/242 (24%), Positives = 112/242 (46%), Gaps = 6/242 (2%)

		

		Query: 14  VFFLVFARVGTMIMLVPVFGERAIPVRIRLIVALMLCYVLYPLV-QPLYPLGELQQLPVL 72

		           ++F    RV  +I   P+  ER++P R++L +A+M+ + + P +     P+     L + 

		Sbjct: 15  LYFWPLLRVLALISTAPILSERSVPKRVKLGLAMMITFAIAPSLPANDVPVFSFFALWLA 74

		

		Query: 73  LRYLFLELVLGFFVGLGMRLIAYALQTAGAIIANQSGLAFAMGGDMTNFGEQGAMVGSFL 132

		           ++    ++++G  +G  M+    A++TAG II  Q GL+FA   D  +      ++   +

		Sbjct: 75  VQ----QILIGIALGFTMQFAFAAVRTAGEIIGLQMGLSFATFVDPAS-HLNMPVLARIM 129

		

		Query: 133 AMLGTTLVLATNLHYVIIAGIHDSFTLFPPGRILPVGDMAHMAVDTVSHVFVIAAHIGAP 192

		            ML   L L  N H  +I+ + D+F   P G      +         S +F+    +  P

		Sbjct: 130 DMLALLLFLTFNGHLWLISLLVDTFHTLPIGGEPLNSNAFLALTKAGSLIFLNGLMLALP 189

		

		Query: 193 FILFGLVFYFGLGLLNKLMPQLQIFFVAMPVAILAGFTLLMLLLSTLMGWYLQQYEAVLS 252

		            I   L     LGLLN++ PQL IF +  P+ +  G +L+  L+  +  +    +  + +

		Sbjct: 190 LITLLLTLNLALGLLNRMAPQLSIFVIGFPLTLTVGISLMAALMPLIAPFCEHLFSEIFN 249

		

		Query: 253 PF 254

		             

		Sbjct: 250 LL 251

		

		

		>TYPE3IMQPROT#Type III secretion system inner membrane Q protein

		          family signature.

		          Length = 86

		

		 Score = 58.2 bits (141), Expect = 4e-15

		 Identities = 25/82 (30%), Positives = 49/82 (59%)

		

		Query: 5  EVLDIASSGIWTLIKLSVPVLLVGLVVGVIVALFQALTQIQEQTLVFVPKIISIFLALLV 64

		          +++   +  ++ ++ LS    +V  ++G++V LFQ +TQ+QEQTL F  K++ + L L +

		Sbjct: 3  DLVFAGNKALYLVLILSGWPTIVATIIGLLVGLFQTVTQLQEQTLPFGIKLLGVCLCLFL 62

		

		Query: 65 AFPFMGSVLGSFTEQISQLIVS 86

		             + G VL S+  Q+  L ++

		Sbjct: 63 LSGWYGEVLLSYGRQVIFLALA 84

		

		

		>FLGHOOKFLIE#Flagellar hook-basal body complex protein FliE

		           signature.

		          Length = 103

		

		 Score = 37.3 bits (86), Expect = 1e-06

		 Identities = 19/71 (26%), Positives = 38/71 (53%), Gaps = 2/71 (2%)

		

		Query: 38  FDNLVKSAIAEVREGGQATEAQALNLVEGRA--NVVDVVTAVAETEVAMETVVSVRDKVI 95

		           F   + +A+  + +   A   QA     G     + DV+T + +  V+M+  + VR+K++

		Sbjct: 33  FAGQLHAALDRISDTQTAARTQAEKFTLGEPGVALNDVMTDMQKASVSMQMGIQVRNKLV 92

		

		Query: 96  SAYEEIMRMPI 106

		           +AY+E+M M +

		Sbjct: 93  AAYQEVMSMQV 103

		

		

		>FLGHOOKAP1#Flagellar hook-associated protein signature.

		          Length = 546

		

		 Score = 28.8 bits (64), Expect = 0.007

		 Identities = 8/40 (20%), Positives = 22/40 (55%)

		

		Query: 94  LPNVSTMIELADMREAQRSYEANLNVVRSSRSMVQRTLDI 133

		           +  V+   E  +++  Q+ Y AN  V++++ ++    ++I

		Sbjct: 506 ISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALINI 545

		

		

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

		          Length = 1541

		

		 Score = 66.2 bits (161), Expect = 1e-13

		 Identities = 62/332 (18%), Positives = 101/332 (30%), Gaps = 33/332 (9%)

		

		Query: 91   LVVEQNILRAMPQGQTQRNQTLQQGQQATQAAAITQPQAVAQSNQAVAQPQAAPTTQAAP 150

		            L               +RNQT+      T         +V  +N+ +A+   AP    AP

		Sbjct: 971  LRNVNGRYDLYNPEVEKRNQTVDTTNITTPNNIQADVPSVPSNNEEIARVDEAPVPPPAP 1030

		

		Query: 151  MQQEHALHASAPQPTATQPQQQIAQPAAQPSTPS-ATRQQRASADYQRHLAASRERLRKA 209

		                 A  +   +  A   +Q+           +  T Q              RE  ++A

		Sbjct: 1031 -----ATPSETTETVAENSKQESKTVEKNEQDATETTAQN-------------REVAKEA 1072

		

		Query: 210  EATVKANGTNSSVANGGVHVTEAQRQAQQVAAARALAASRASVSPPSAGPAARIVAAQQE 269

		            ++ VKAN   + VA  G    E Q    +  A       +A V         ++ +    

		Sbjct: 1073 KSNVKANTQTNEVAQSGSETKETQTTETKETATVE-KEEKAKVETEKTQEVPKVTSQVSP 1131

		

		Query: 270  KQRQDEA----AQSEVVADTAALAKDQTKPVEETVPTLKLASSLEEALSPEVTTSTQSPE 325

		            KQ Q E     A+     D     K+       T  T + A      +   VT ST    

		Sbjct: 1132 KQEQSETVQPQAEPARENDPTVNIKEPQSQTNTTADTEQPAKETSSNVEQPVTESTTVNT 1191

		

		Query: 326  AKEPDATP---TNADKKPENAENVHQLDLEAAIQETVAKASNSDENPTQEDKVEAPAAAD 382

		                   P   T A  +P           +   + +V    ++ E  T      +  A  

		Sbjct: 1192 GNSVVENPENTTPATTQPTVNSESSNKP-KNRHRRSVRSVPHNVEPATTSSNDRSTVALC 1250

		

		Query: 383  DATAESKGEKSKNPIPAEALDKEMADLLSELK 414

		            D T+      + N + ++A  K     L+  K

		Sbjct: 1251 DLTS-----TNTNAVLSDARAKAQFVALNVGK 1277

		

		

		

		 Score = 38.1 bits (88), Expect = 6e-05

		 Identities = 35/267 (13%), Positives = 81/267 (30%), Gaps = 23/267 (8%)

		

		Query: 105  QTQRNQTLQ-QGQQATQAAAITQPQAVAQSNQAVAQPQAAPTTQAAPMQQEHALHASAPQ 163

		              Q ++T++   Q AT+  A  +  A    +   A  Q     Q+    +E         

		Sbjct: 1044 SKQESKTVEKNEQDATETTAQNREVAKEAKSNVKANTQTNEVAQSGSETKE--------- 1094

		

		Query: 164  PTATQPQQQIAQPAAQPSTPSATRQQRASADYQRHLAASRERLRKAEATVKANGTNSSVA 223

		             T T   ++ A    +      T + +        ++  +E+    +   +    N    

		Sbjct: 1095 -TQTTETKETATVEKEEKAKVETEKTQEVPKVTSQVSPKQEQSETVQPQAEPARENDPTV 1153

		

		Query: 224  NGGVHVTEAQRQAQQVAAARALAASRASVSPPSAGPAARIVAAQQEKQRQDEAAQSEVVA 283

		            N     ++    A     A+         +  +                  E  ++   A

		Sbjct: 1154 NIKEPQSQTNTTADTEQPAK--------ETSSNVEQPVTESTTVNTGNSVVENPENTTPA 1205

		

		Query: 284  DTAALAKDQTKPVEETVPTLKLASSLEEALSPEVTTSTQSPEAKEPDATPTNADKKPENA 343

		             T      ++    +      + S          +++ +S  A   D T TN +    +A

		Sbjct: 1206 TTQPTVNSESSNKPKNRHRRSVRSVPHNVEPATTSSNDRSTVA-LCDLTSTNTNAVLSDA 1264

		

		Query: 344  ENVHQ---LDLEAAIQETVAKASNSDE 367

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

		Sbjct: 1265 RAKAQFVALNVGKAVSQHISQLEMNNE 1291

		

		

		

		 Score = 35.4 bits (81), Expect = 5e-04

		 Identities = 43/258 (16%), Positives = 78/258 (30%), Gaps = 30/258 (11%)

		

		Query: 176  PAAQPSTPSATRQQRASADYQRHLAASRERLRKAEATVKANGTNSSVANGGVHVTEAQRQ 235

		                 +TP+  +    S            R+ +A     A  T S        V E  +Q

		Sbjct: 993  DTTNITTPNNIQADVPSVPSNN---EEIARVDEAPVPPPAPATPSETTE---TVAENSKQ 1046

		

		Query: 236  AQQVAAARALAASRASVSPPSAGPAARIVAAQQEKQRQDEAAQSEVVADTAALAKDQTKP 295

		              +        A+  +          R VA + +   +     +EV    +   + QT  

		Sbjct: 1047 ESKTVEKNEQDATETT-------AQNREVAKEAKSNVKANTQTNEVAQSGSETKETQTTE 1099

		

		Query: 296  VEETVPTLKLASSLEEA--------LSPEVTTSTQSPEAKEPDATPTNADKKPENAENVH 347

		             +ET    K   +  E         ++ +V+   +  E  +P A P   +    N +   

		Sbjct: 1100 TKETATVEKEEKAKVETEKTQEVPKVTSQVSPKQEQSETVQPQAEPARENDPTVNIKEPQ 1159

		

		Query: 348  QLDLEAAIQETVAKASNSDENP---------TQEDKVEAPAAADDATAESKGEKSKNPIP 398

		                  A  E  AK ++S+            T    VE P     AT +       +  P

		Sbjct: 1160 SQTNTTADTEQPAKETSSNVEQPVTESTTVNTGNSVVENPENTTPATTQPTVNSESSNKP 1219

		

		Query: 399  AEALDKEMADLLSELKPA 416

		                 + +  +   ++PA

		Sbjct: 1220 KNRHRRSVRSVPHNVEPA 1237

		

		

		>FLGBIOSNFLIP#Escherichia coli: Flagellar biosynthetic protein FliP

		           signature.

		          Length = 245

		

		 Score =  272 bits (696), Expect = 3e-94

		 Identities = 109/237 (45%), Positives = 156/237 (65%)

		

		Query: 36  IALLLCAFAALWAAPALAQSISINFGEGDTVTERALQIVALLTVLSLAPSILIMVTSFTR 95

		           +A +L       A   L    S     G       +Q +  +T L+  P+IL+M+TSFTR

		Sbjct: 7   VAPVLLWLITPLAFAQLPGITSQPLPGGGQSWSLPVQTLVFITSLTFIPAILLMMTSFTR 66

		

		Query: 96  IVVVLSLLRTAIGLQTAPPNAVMIALALFLTAFVMEPTFTKAYDEAVRPLMDGTIEVEQA 155

		           I++V  LLR A+G  +APPN V++ LALFLT F+M P   K Y +A +P  +  I +++A

		Sbjct: 67  IIIVFGLLRNALGTPSAPPNQVLLGLALFLTFFIMSPVIDKIYVDAYQPFSEEKISMQEA 126

		

		Query: 156 AERGVEPFHEFMRSQARVEDVTMFQSLSRKEPPATPEELSLRVLVPAFMISELRRAFEIG 215

		            E+G +P  EFM  Q R  D+ +F  L+   P   PE + +R+L+PA++ SEL+ AF+IG

		Sbjct: 127 LEKGAQPLREFMLRQTREADLGLFARLANTGPLQGPEAVPMRILLPAYVTSELKTAFQIG 186

		

		Query: 216 FLLYLPFLIIDLVVASVLMSMGMMMLPPVVISLPFKLIFFVLVDGWQMIAGSLVRSF 272

		           F +++PFLIIDLV+ASVLM++GMMM+PP  I+LPFKL+ FVLVDGWQ++ GSL +SF

		Sbjct: 187 FTIFIPFLIIDLVIASVLMALGMMMVPPATIALPFKLMLFVLVDGWQLLVGSLAQSF 243

		

		

		>TONBPROTEIN#Gram-negative bacterial tonB protein signature.

		          Length = 239

		

		 Score = 33.0 bits (75), Expect = 0.006

		 Identities = 30/150 (20%), Positives = 51/150 (34%), Gaps = 14/150 (9%)

		

		Query: 387 APVHAIGGLPVQARPVKKTAVPAAL----QVAKAPPMSLLPEEVSSQRTPASSSPEPVLV 442

		             VH +  LP  A+P+  T V  A     Q  + PP  ++  E   +  P      PV++

		Sbjct: 30  TSVHQVIELPAPAQPISVTMVTPADLEPPQAVQPPPEPVVEPEPEPEPIPEPPKEAPVVI 89

		

		Query: 443 SQKAAEPRPSVRPTLSRQQGPAPEPNNTTRILREPQLQIQAGRATANDSVLAPNERRSGP 502

		            +   +P+P  +P    Q+ P  +          P       R T++ +  A        

		Sbjct: 90  EKPKPKPKPKPKPVKKVQEQPKRDVKPVESRPASPFENTAPARLTSSTATAAT------- 142

		

		Query: 503 DEAGAGDVPALPSERIVKRDQSRLPTDEQM 532

		                         R + R+Q + P   Q 

		Sbjct: 143 ---SKPVTSVASGPRALSRNQPQYPARAQA 169

		

		

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

		          Length = 1541

		

		 Score = 28.9 bits (64), Expect = 0.011

		 Identities = 25/128 (19%), Positives = 42/128 (32%), Gaps = 15/128 (11%)

		

		Query: 33   RADEASLRATIAELVTATEIAERAILGLKSTAGNADRTLG--ARLGEAEEVSRKLSNQLQ 90

		               + +     A   T  E+A+       S       T        E EE ++  + + Q

		Sbjct: 1067 EVAKEAKSNVKANTQTN-EVAQ-----SGSETKETQTTETKETATVEKEEKAKVETEKTQ 1120

		

		Query: 91   GGEDVLERIGSVAASAQAVAPQAGVSQPAPTQAPEPAAVQPVDEMPARKKVTGDLCRAAN 150

		                    +  V +       Q+   QP    A E      + E  ++   T D  + A 

		Sbjct: 1121 -------EVPKVTSQVSPKQEQSETVQPQAEPARENDPTVNIKEPQSQTNTTADTEQPAK 1173

		

		Query: 151  ETASRLEQ 158

		            ET+S +EQ

		Sbjct: 1174 ETSSNVEQ 1181

		

		

		>FLGMOTORFLIM#Flagellar motor switch protein FliM signature.

		          Length = 344

		

		 Score =  279 bits (716), Expect = 6e-94

		 Identities = 89/324 (27%), Positives = 155/324 (47%), Gaps = 15/324 (4%)

		

		Query: 78  VLNQEEIDNLLGFNLE-DSLDGDDSGIRALINSAMVSY--------ERLPMLEIVFDRLV 128

		           VL+Q+EID LL      D+   D   I       +  +        E++  L ++ +   

		Sbjct: 4   VLSQDEIDQLLTAISSGDASIEDARPISDTRKITLYDFRRPDKFSKEQMRTLSLMHETFA 63

		

		Query: 129 RLTTTSLRNFTSDNVEVSLDSINSVRFGDYLNSIPLPAILGVFKAHEWDGFGLVTVESSL 188

		           RLTTTSL       V V + S++ + + +++ SIP P+ L V       G  ++ V+ S+

		Sbjct: 64  RLTTTSLSAQLRSMVHVHVASVDQLTYEEFIRSIPTPSTLAVITMDPLKGNAVLEVDPSI 123

		

		Query: 189 IYSIIDVLLGGGRGSSAVRVEGRPYTTIETTLVRRMIDIILADAEQAFAPLSPVRLPLER 248

		            +SIID L GG   ++ V+   R  T IE +++  +I  ILA+  +++  +  +R  L +

		Sbjct: 124 TFSIIDRLFGGTGQAAKVQ---RDLTDIENSVMEGVIVRILANVRESWTQVIDLRPRLGQ 180

		

		Query: 249 LETNPRFAAISRPANAAILVELRIDMDDRGGKVEILLPYATLEPIRELLLQMFMGEKLGR 308

		           +ETNP+FA I  P+   +LV L   + +  G +   +PY T+EPI   L   F    + R

		Sbjct: 181 IETNPQFAQIVPPSEMVVLVTLETKVGEEEGMMNFCIPYITIEPIISKLSSQFWFSSVRR 240

		

		Query: 309 DAK--WEEHLATEVYGSEVQVDAVLYENEISLRRVLGFEVGQTLVF-DTEPKDPVQIKCG 365

		            +   +   L  ++   ++ V A +    +S+R +LG  VG  +   DT   DP  +  G

		Sbjct: 241 SSTTQYMGVLRDKLSTVDMDVVAEVGSLRLSVRDILGLRVGDIIRLHDTHVGDPFVLSIG 300

		

		Query: 366 GVPLTEGVMGRLGNNISIEISKQL 389

		                    G +G  I+ +I +++

		Sbjct: 301 NRKKFLCQPGVVGKKIAAQILERI 324

		

		

		>FLGHOOKAP1#Flagellar hook-associated protein signature.

		          Length = 546

		

		 Score = 33.8 bits (77), Expect = 6e-04

		 Identities = 8/23 (34%), Positives = 14/23 (60%)

		

		Query: 16 RRQLDNVANNIANINTTGFKRQR 38

		          +  L+  +NNI++ N  G+ RQ 

		Sbjct: 15 QAALNTASNNISSYNVAGYTRQT 37

		

		

		>FLGHOOKAP1#Flagellar hook-associated protein signature.

		          Length = 546

		

		 Score = 39.9 bits (93), Expect = 6e-06

		 Identities = 10/43 (23%), Positives = 22/43 (51%)

		

		Query: 218 LEASNVDAVTELSDLIAAQRAYEMNSKIVKAADEMYATSNNMR 260

		              S V+   E  +L   Q+ Y  N+++++ A+ ++    N+R

		Sbjct: 504 QSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALINIR 546

		

		

		

		 Score = 35.7 bits (82), Expect = 2e-04

		 Identities = 10/34 (29%), Positives = 18/34 (52%)

		

		Query: 4  LYIAATGMKAQELNVEVISNNVANMRTTGYKRQR 37

		          +  A +G+ A +  +   SNN+++    GY RQ 

		Sbjct: 4  INNAMSGLNAAQAALNTASNNISSYNVAGYTRQT 37

		

		

		>FLGLRINGFLGH#Flagellar L-ring protein signature.

		          Length = 232

		

		 Score =  163 bits (414), Expect = 2e-52

		 Identities = 56/213 (26%), Positives = 97/213 (45%), Gaps = 7/213 (3%)

		

		Query: 33  PLTAIKDPTTTPGYRPVQMPMPPKETQQSKANSLWRSGNRGFFKDQRAKRVGDIVTVTVT 92

		           P T +    T+   +PV  P P       ++      G +  F+D+R + +GD +T+ + 

		Sbjct: 26  PSTPLVQGATSA--QPVPGPTPVANGSIFQSAQPINYGYQPLFEDRRPRNIGDTLTIVLQ 83

		

		Query: 93  IADKAAFNNTSKQSRADASNVGASGALGAAINTVALPASSNAGALAGIDSTKTYTGTGSI 152

		               A+ ++++  SR   +N G    +   +  +   A ++  A        T+ G G  

		Sbjct: 84  ENVSASKSSSANASRDGKTNFGF-DTVPRYLQGLFGNARADVEA----SGGNTFNGKGGA 138

		

		Query: 153 DRKETLETTVAAVVTQVLPNGNLVIEGRQEVRVNYEVRELIVAGVVRPQDISAKNTVDSK 212

		           +   T   T+   V QVL NGNL + G +++ +N     +  +GVV P+ IS  NTV S 

		Sbjct: 139 NASNTFSGTLTVTVDQVLVNGNLHVVGEKQIAINQGTEFIRFSGVVNPRTISGSNTVPST 198

		

		Query: 213 KIAEARIGYGGRGQITAVQQPRYGSQVLDIVLP 245

		           ++A+ARI Y G G I   Q   +  +    + P

		Sbjct: 199 QVADARIEYVGNGYINEAQNMGWLQRFFLNLSP 231

		

		

		>FLGPRINGFLGI#Flagellar P-ring protein signature.

		          Length = 373

		

		 Score =  383 bits (986), Expect = e-135

		 Identities = 187/369 (50%), Positives = 252/369 (68%), Gaps = 9/369 (2%)

		

		Query: 10  RTFKALLLLLLLPYLIHPANSA--SRIKDIADFEGIRENQLIGYGLVVGLNGSGDGLNNA 67

		           R   A L+   LP+L  P   A  SRIKDIA  +  R+NQLIGYGLVVGL G+GD L ++

		Sbjct: 5   RIIAAALVFSALPFLSTPPAQADTSRIKDIASLQAGRDNQLIGYGLVVGLQGTGDSLRSS 64

		

		Query: 68  PFTRQSLQAMLERLGVNTNELDLNTKNAAAVMVTANLPPFSTQGSRIDVAVSALGDASSL 127

		           PFT QS++AML+ LG+ T     N KN AAVMVTANLPPF++ GSR+DV VS+LGDA+SL

		Sbjct: 65  PFTEQSMRAMLQNLGITTQGGQSNAKNIAAVMVTANLPPFASPGSRVDVTVSSLGDATSL 124

		

		Query: 128 QGGTLLVTPLIGANGETYAIAQGPVTVAGFEASGDAASITRGVPTSGRVANGGLVEKEVD 187

		           +GG L++T L GA+G+ YA+AQG + V GF A GDAA++T+GV TS RV NG ++E+E+ 

		Sbjct: 125 RGGNLIMTSLSGADGQIYAVAQGALIVNGFSAQGDAATLTQGVTTSARVPNGAIIERELP 184

		

		Query: 188 FKLASLDTLRIALRNPDLTTTRRVALAINEL----IGLPTAEPLDSATVRISLPRLYDGN 243

		            K      L + LRNPD +T  RVA  +N       G P AEP DS  + +  PR+ D  

		Sbjct: 185 SKFKDSVNLVLQLRNPDFSTAVRVADVVNAFARARYGDPIAEPRDSQEIAVQKPRVAD-- 242

		

		Query: 244 IVDLLTDIEQLVIEPDMPARIVIDESSGIIVMGKEVKVSTVAVAQGNLTVTIAEAPQVSQ 303

		           +  L+ +IE L +E D PA++VI+E +G IV+G +V++S VAV+ G LTV + E+PQV Q

		Sbjct: 243 LTRLMAEIENLTVETDTPAKVVINERTGTIVIGADVRISRVAVSYGTLTVQVTESPQVIQ 302

		

		Query: 304 PDPFSLGETTQVPRTNVSVDEDNSHLAIVSEAVTLQQLVDGLNALGISPRDLIAILQAIK 363

		           P PFS G+T   P+T++   ++ S +AI  E   L+ LV GLN++G+    +IAILQ IK

		Sbjct: 303 PAPFSRGQTAVQPQTDIMAMQEGSKVAI-VEGPDLRTLVAGLNSIGLKADGIIAILQGIK 361

		

		Query: 364 AAGALQAEI 372

		           +AGALQAE+

		Sbjct: 362 SAGALQAEL 370

		

		

		>FLGFLGJ#Flagellar protein FlgJ signature.

		          Length = 313

		

		 Score = 40.9 bits (95), Expect = 2e-07

		 Identities = 21/79 (26%), Positives = 39/79 (49%), Gaps = 1/79 (1%)

		

		Query: 22  PTNNLDKKAKEFEAVYLNQLMQSMFSGLQEGGTYGSGPGSDAWRSMLLGEYANQLAQSGG 81

		           P  N+   A++ E +++  +++SM   L + G + S   +  + SM   + A Q+    G

		Sbjct: 29  PAANIRPVARQVEGMFVQMMLKSMRDALPKDGLFSS-EHTRLYTSMYDQQIAQQMTAGKG 87

		

		Query: 82  IGLAETIKAQMLEIQEANQ 100

		           +GLAE +  QM   Q   +

		Sbjct: 88  LGLAEMMVKQMTPEQPLPE 106

		

		

		>FLAGELLIN#Flagellin signature.

		          Length = 507

		

		 Score = 56.2 bits (135), Expect = 9e-11

		 Identities = 42/313 (13%), Positives = 83/313 (26%), Gaps = 5/313 (1%)

		

		Query: 14  LSTLQSTATLISSTQERLSTGKKVNSALDNPNSYFTAASLNNRASDLSNLQDDMGQSVST 73

		            + L  + + +SS  ERLS+G ++NSA D+      A    +    L+    +    +S 

		Sbjct: 14  QNNLNKSQSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGLTQASRNANDGISI 73

		

		Query: 74  LTAADKGIKAISKLIDAAKGKANQALQ-TEDVSQRNKYAKEFNDLRTQIQDLAKDSGYKG 132

		               +  +  I+  +   +  + QA   T   S       E      +I  ++  + + G

		Sbjct: 74  AQTTEGALNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLEEIDRVSNQTQFNG 133

		

		Query: 133 KNLLGGDGN-DLTVKFNEDGTSKLEIQSVDFTDLGKEDGDLKLGSLEIAKNGDFSATLEG 191

		             +L  D    + V  N+  T  +++Q +D   LG +  ++         +   S     

		Sbjct: 134 VKVLSQDNQMKIQVGANDGETITIDLQKIDVKSLGLDGFNVNGPKEATVGDLKSSFKNVT 193

		

		Query: 192 TITDGDTKLASLDKLAAGDSIKLTFGEGDDAKTAELEITADSTLNDLTAKMKEVSGSDFK 251

		                              ++              +         D       V      

		Sbjct: 194 GYDTYAVGANKYRVDVNSGAVVTDTTAPTVPDKVYVNAANGQLTTDDAENNTAVDLFKTT 253

		

		Query: 252 LDATAKTITGSVGAKLAISYTDNDSGDSADGSDLTAATTIGVKAGAWDTDSGIDSSLTEI 311

		                   T    A         +              T     G     + I+     +

		Sbjct: 254 KSTAG---TAEAKAIAGAIKGGKEGDTFDYKGVTFTIDTKTGNDGNGKVSTTINGEKVTL 310

		

		Query: 312 KAAQDALRAQAST 324

		             A     A    

		Sbjct: 311 TVADITAGAANVD 323

		

		

		

		 Score = 45.4 bits (107), Expect = 2e-07

		 Identities = 48/334 (14%), Positives = 93/334 (27%), Gaps = 9/334 (2%)

		

		Query: 68  GQSVSTLTAADKGIKAISKLIDAAKGKANQALQTEDVSQRNKYAKEFNDLRTQIQDLAKD 127

		           G   +T+       K ++     A G     +     S           +  ++   A +

		Sbjct: 176 GPKEATVGDLKSSFKNVTGYDTYAVGANKYRVDVN--SGAVVTDTTAPTVPDKVYVNAAN 233

		

		Query: 128 SGYKGKNLLGGDGNDLTVKFNEDGTSKLEIQSVDFTDLGKEDGDLKLGSLEIAKNGDFSA 187

		                 +       DL         +            GKE        +    +     

		Sbjct: 234 GQLTTDDAENNTAVDLFKTTKSTAGTAEAKAIAGAIKGGKEGDTFDYKGVTFTIDTKTGN 293

		

		Query: 188 TLEGTITDGDTKLASLDKLAAGDSIKLTFGEGDDAKTAELEITADSTLNDLTAKMKEVSG 247

		              G ++           +A   +            +  +  +  +       K K  S 

		Sbjct: 294 DGNGKVSTTINGEKVTLTVADITAGAANVDAATLQSSKNVYTSVVNGQFTFDDKTKNESA 353

		

		Query: 248 SDFKLDATAK-------TITGSVGAKLAISYTDNDSGDSADGSDLTAATTIGVKAGAWDT 300

		               L+A          T+ G+     A       +G +       +  +  +   A   

		Sbjct: 354 KLSDLEANNAVKGESKITVNGAEYTANAAGDKVTLAGKTMFIDKTASGVSTLINEDAAAA 413

		

		Query: 301 DSGIDSSLTEIKAAQDALRAQASTFGTNLSVVKNRKNFTADMINTLEVGAGKLTLADTNR 360

		                + L  I +A   + A  S+ G   +   +      + +  L     ++  AD   

		Sbjct: 414 KKSTANPLASIDSALSKVDAVRSSLGAIQNRFDSAITNLGNTVTNLNSARSRIEDADYAT 473

		

		Query: 361 EGANLAALQTQQQLATSTLALAARANQSVLQLIR 394

		           E +N++  Q  QQ  TS LA A +  Q+VL L+R

		Sbjct: 474 EVSNMSKAQILQQAGTSVLAQANQVPQNVLSLLR 507

		

		

		>FLAGELLIN#Flagellin signature.

		          Length = 507

		

		 Score = 61.6 bits (149), Expect = 2e-12

		 Identities = 50/371 (13%), Positives = 104/371 (28%), Gaps = 2/371 (0%)

		

		Query: 12  NNLSTLQSTASMISSTQERLSTGMKVNSALDNPNSYFTAASLNNRASDLSNLQDDMGQSV 71

		              + L  + S +SS  ERLS+G+++NSA D+      A    +    L+    +    +

		Sbjct: 12  LTQNNLNKSQSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGLTQASRNANDGI 71

		

		Query: 72  STLTAADKGIKAISKLVDAAKGKANQALQ-SEDKEQRAKYSKEFNDLRTQIQDLAKDSGY 130

		           S     +  +  I+  +   +  + QA   +           E      +I  ++  + +

		Sbjct: 72  SIAQTTEGALNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLEEIDRVSNQTQF 131

		

		Query: 131 KGKNLLGGDGN-DLKVKFNEDGTSKLDIKSVDFTDLSAADSDLKLGAVQQLEKGDFTSGA 189

		            G  +L  D    ++V  N+  T  +D++ +D   L     ++       +     +   

		Sbjct: 132 NGVKVLSQDNQMKIQVGANDGETITIDLQKIDVKSLGLDGFNVNGPKEATVGDLKSSFKN 191

		

		Query: 190 MTLGSGTFEAATKLDTLDNYAAGGKITIKYGSGDDAKTKELEITADNTVGDLAAAIKEVT 249

		           +T        A K     N  A    T      D                +   A+    

		Sbjct: 192 VTGYDTYAVGANKYRVDVNSGAVVTDTTAPTVPDKVYVNAANGQLTTDDAENNTAVDLFK 251

		

		Query: 250 GEDFTIDGTAKTLSGKVADDLTFSYEASSGGETGGELSTGDTTTGLVKNGWSEDAGIEAS 309

		               T                         G T    +          +       +  +

		Sbjct: 252 TTKSTAGTAEAKAIAGAIKGGKEGDTFDYKGVTFTIDTKTGNDGNGKVSTTINGEKVTLT 311

		

		Query: 310 LETLKTAQDSLRAQASTFGTNLSVVQNRKNFTADMINTLEVGAGKLTLADTNKEGANLAA 369

		           +  +     ++ A       N+        FT D     E        A+   +G +   

		Sbjct: 312 VADITAGAANVDAATLQSSKNVYTSVVNGQFTFDDKTKNESAKLSDLEANNAVKGESKIT 371

		

		Query: 370 LQTQQQLATST 380

		           +   +  A + 

		Sbjct: 372 VNGAEYTANAA 382

		

		

		

		 Score = 45.8 bits (108), Expect = 2e-07

		 Identities = 44/336 (13%), Positives = 93/336 (27%), Gaps = 11/336 (3%)

		

		Query: 68  GQSVSTLTAADKGIKAISKLVDAAKGKANQ-ALQSEDKEQRAKYSKEFNDLRTQIQDLAK 126

		           G   +T+       K ++     A G        +         +    D         +

		Sbjct: 176 GPKEATVGDLKSSFKNVTGYDTYAVGANKYRVDVNSGAVVTDTTAPTVPDKVYVNAANGQ 235

		

		Query: 127 DSGYKGKNLLGGDGNDLKVKFNEDGTSKLDIKSVDFTDLSAADSDLKLGAVQQLEKGDFT 186

		            +    +N    D             +K    ++             +      + G+  

		Sbjct: 236 LTTDDAENNTAVDLFKTTKSTAGTAEAKAIAGAIKGGKEGDTFDYKGVTFTIDTKTGNDG 295

		

		Query: 187 SGAMTLGSGTFEAATKLDTLDNYAAGGKITIKYGSGDDAKTKELEITADNTVGDLAAAIK 246

		           +G ++          K+         G   +   +   +K     +       D     +

		Sbjct: 296 NGKVSTTIN----GEKVTLTVADITAGAANVDAATLQSSKNVYTSVVNGQFTFDDKTKNE 351

		

		Query: 247 EVTGEDFTIDGTAKTLSGKVADDLTFSYEASSGGETGGELSTGDTTTGLVKNGWSED--- 303

		                D   +   K  S    +   ++  A+    T    +     T    +    +   

		Sbjct: 352 SAKLSDLEANNAVKGESKITVNGAEYTANAAGDKVTLAGKTMFIDKTASGVSTLINEDAA 411

		

		Query: 304 ---AGIEASLETLKTAQDSLRAQASTFGTNLSVVQNRKNFTADMINTLEVGAGKLTLADT 360

		                    L ++ +A   + A  S+ G   +   +      + +  L     ++  AD 

		Sbjct: 412 AAKKSTANPLASIDSALSKVDAVRSSLGAIQNRFDSAITNLGNTVTNLNSARSRIEDADY 471

		

		Query: 361 NKEGANLAALQTQQQLATSTLALAARANQSVLQLIR 396

		             E +N++  Q  QQ  TS LA A +  Q+VL L+R

		Sbjct: 472 ATEVSNMSKAQILQQAGTSVLAQANQVPQNVLSLLR 507

		

		

		>FLGHOOKAP1#Flagellar hook-associated protein signature.

		          Length = 546

		

		 Score =  107 bits (269), Expect = 1e-26

		 Identities = 129/620 (20%), Positives = 222/620 (35%), Gaps = 85/620 (13%)

		

		Query: 5   SAITNAFAGLKATQSRLAVTSQNIANAGQAGYTRKSMEVAETLGDSGSSSS----VRTSL 60

		           S I NA +GL A Q+ L   S NI++   AGYTR++  +A+     G+       V  S 

		Sbjct: 2   SLINNAMSGLNAAQAALNTASNNISSYNVAGYTRQTTIMAQANSTLGAGGWVGNGVYVSG 61

		

		Query: 61  VQRNVDQMLRDTYWQKSSEANFAEKRAVYAGRLDSYFGQLNDKNGLPSLVNNLNGSLIKL 120

		           VQR  D  + +      ++++    R     ++D+        + L + + +   SL  L

		Sbjct: 62  VQREYDAFITNQLRAAQTQSSGLTARYEQMSKIDNMLST--STSSLATQMQDFFTSLQTL 119

		

		Query: 121 VSDPASPSAQANVVSHARTLASELNAGAEYVQALRRETETGITEDVDRVNNLLREVSSLE 180

		           VS+   P+A+  ++  +  L ++     +Y++   ++    I   VD++NN  ++++SL 

		Sbjct: 120 VSNAEDPAARQALIGKSEGLVNQFKTTDQYLRDQDKQVNIAIGASVDQINNYAKQIASLN 179

		

		Query: 181 KDIVSERAKGISVAALD--DQMDMKLEELSKYLDINVHRDNDGELRISTVSGMTLYDVKP 238

		             I      G   +  +  DQ D  + EL++ + + V   + G   I+  +G +L     

		Sbjct: 180 DQISRLTGVGAGASPNNLLDQRDQLVSELNQIVGVEVSVQDGGTYNITMANGYSLVQGST 239

		

		Query: 239 A-QLSFVNSPTLGAGVEGNPVEIVTPSGQRSTLQPADFRGGTIGASLKVRDSDLPEAQTR 297

		           A QL+ V S    A      V  V  +     +       G++G  L  R  DL + +  

		Sbjct: 240 ARQLAAVPSS---ADPSRTTVAYVDGTAGNIEIPEKLLNTGSLGGILTFRSQDLDQTRNT 296

		

		Query: 298 LDELASQMALALSREEAKGAAADDGLTPPEKTGLAVNLSGIKSSGDKLELSFVD-ASGAK 356

		           L +LA   A A + +   G  A+                        +    V   +  K

		Sbjct: 297 LGQLALAFAEAFNTQHKAGFDAN---------------GDAGEDFFAIGKPAVLQNTKNK 341

		

		Query: 357 RELSFIAVKDPALLPLAGEATAKGGDLVYGLDLSDSAPDLATQIGTALGASFEVSDAGGG 416

		            +++  A    A       +     D     D                   ++V+     

		Sbjct: 342 GDVAIGATVTDA-------SAVLATDYKISFD----------------NNQWQVTRLASN 378

		

		Query: 417 AVKILADPTKTSVKLDNAVATNTRTITTQDGLALPMFVDSEHGGIPFTGALEEGGQKTGF 476

		               +       V  D    T T T    D   L    D     I     L     K   

		Sbjct: 379 TTFTVTPDANGKVAFDGLELTFTGTPAVNDSFTLKPVSD----AIVNMDVLITDEAKIAM 434

		

		Query: 477 AHRITVNDQLVRNPALLSGMDKDGSGFDSARALFLKDSLSTARFHYSSGTGIGSREAPYS 536

		           A      D   RN    + +D   +      +  +  + S    + S  + IG++ A   

		Sbjct: 435 ASEEDAGDSDNRN--GQALLDLQSN------SKTVGGAKSFNDAYASLVSDIGNKTAT-L 485

		

		Query: 537 GTISDFANQVIARQGQLTSQVNAQKTASESGMNVAKKAYEMSYKVDVDTELVNLMELQNA 596

		            T S     V+    QL++Q       S SG+N             +D E  NL   Q  

		Sbjct: 486 KTSSATQGNVVT---QLSNQQ-----QSISGVN-------------LDEEYGNLQRFQQY 524

		

		Query: 597 FAANARVLDVSNKLFDQLMQ 616

		           + ANA+VL  +N +FD L+ 

		Sbjct: 525 YLANAQVLQTANAIFDALIN 544

		

		

		>FLGHOOKAP1#Flagellar hook-associated protein signature.

		          Length = 546

		

		 Score = 42.3 bits (99), Expect = 4e-06

		 Identities = 66/355 (18%), Positives = 112/355 (31%), Gaps = 70/355 (19%)

		

		Query: 255 EYIEFLNQFNGVSADIAIDGEVNIASSVNFDL-SGSGLTPIDIDEETNDPALSS---VSR 310

		           + +  LNQ  GV   +   G  NI  +  + L  GS    +     + DP+ ++   V  

		Sbjct: 203 QLVSELNQIVGVEVSVQDGGTYNITMANGYSLVQGSTARQLAAVPSSADPSRTTVAYVDG 262

		

		Query: 311 DAVLAENNTKFLNSTITGGAVTVYDKNGTPVNVELRWALNREDQWSLYYNSAPKAEGTNT 370

		            A   E   K LN+   GG +T   +       +L    N   Q +L +     AE  NT

		Sbjct: 263 TAGNIEIPEKLLNTGSLGGILTFRSQ-------DLDQTRNTLGQLALAF-----AEAFNT 310

		

		Query: 371 SW-------KKIGDVSFD-AAGRMVTPADG----AMSISGLEVNGVKAADHTLSFGSDK- 417

		                       G+  F      ++         A+  +  + + V A D+ +SF +++ 

		Sbjct: 311 QHKAGFDANGDAGEDFFAIGKPAVLQNTKNKGDVAIGATVTDASAVLATDYKISFDNNQW 370

		

		Query: 418 -------------LTQYEDKIGFATSIDIAQNGYPAGNLRSISITADGFV---------- 454

		                              K+ F              +  ++   +D  V          

		Sbjct: 371 QVTRLASNTTFTVTPDANGKVAFDGLELTFTGTPAVNDSFTLKPVSDAIVNMDVLITDEA 430

		

		Query: 455 ---------TGNYANGKSQQLYKVPIATFAAEQELQRIDGAAFART----PTSGEPDFRN 501

		                     G+  N   Q L  +   +          D  A   +     T+       

		Sbjct: 431 KIAMASEEDAGDSDNRNGQALLDLQSNSKTVGGAKSFNDAYASLVSDIGNKTATLKTSSA 490

		

		Query: 502 GGSIRAKAYEASNADIAG-----EFSKLIITQQAYSANSKVLSTANQMLDSVLNI 551

		                          I+G     E+  L   QQ Y AN++VL TAN + D+++NI

		Sbjct: 491 TQGNVVTQLSNQQQSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALINI 545

		

		

		

		 Score = 32.6 bits (74), Expect = 0.005

		 Identities = 14/36 (38%), Positives = 19/36 (52%)

		

		Query: 7  INAATTGLDAQSTALENISGNVANSGTTGYKRLDTT 42

		          IN A +GL+A   AL   S N+++    GY R  T 

		Sbjct: 4  INNAMSGLNAAQAALNTASNNISSYNVAGYTRQTTI 39

		

		

		>ACRIFLAVINRP#Acriflavin resistance protein family signature.

		          Length = 1034

		

		 Score = 30.2 bits (68), Expect = 0.011

		 Identities = 18/89 (20%), Positives = 30/89 (33%), Gaps = 10/89 (11%)

		

		Query: 5   GTDTYVATEDLQVAVNAAITLGRPLLVKGEPGTGKTALAQEIAASQGAPLIEWHIKSTTK 64

		           GTD  +A   +Q  +  A     PLL +     G +     +  S  + L+     S   

		Sbjct: 97  GTDPDIAQVQVQNKLQLA----TPLLPQEVQQQGIS-----VEKSSSSYLMVAGFVSDNP 147

		

		Query: 65  AQQGLYEYD-AVSRLRDSQLGDPKVADIS 92

		                   D   S ++D+      V D+ 

		Sbjct: 148 GTTQDDISDYVASNVKDTLSRLNGVGDVQ 176

		

		

		>FLAGELLIN#Flagellin signature.

		          Length = 507

		

		 Score = 32.3 bits (73), Expect = 0.029

		 Identities = 57/432 (13%), Positives = 131/432 (30%), Gaps = 27/432 (6%)

		

		Query: 738  EDMQTKVSDTLSTKLDSFTADVDSANTRLSGTLRSTTNEVTEKITQVNDELGFAIAA--G 795

		            +   +   + LS+ L   +A  D+A   ++    S    +T+     ND +  A      

		Sbjct: 21   QSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGLTQASRNANDGISIAQTTEGA 80

		

		Query: 796  VNQITQTFSTTQDELNLTLTATGNTVGDRIAAANDDISRTLSQGVSSLNSTVSGASEQLQ 855

		            +N+I       + EL++  T   N+  D   +  D+I + L +     N T     + L 

		Sbjct: 81   LNEINNNLQRVR-ELSVQATNGTNSDSDL-KSIQDEIQQRLEEIDRVSNQTQFNGVKVLS 138

		

		Query: 856  ETLNVT---AADVTTRISTANDELSGKLTTGMSALNRTITEAGDKLETQLGETSSRVSGE 912

		            +   +     A+    I+    ++  K + G+   N    +     + +    +      

		Sbjct: 139  QDNQMKIQVGANDGETITIDLQKIDVK-SLGLDGFNVNGPKEATVGDLKSSFKNVTGYDT 197

		

		Query: 913  LTQTTQKVTEELAGASSQLTTTAASSLGEISDKIAEANIVFGTKVETGVTGITEAVSLAT 972

		                  K   ++   +    TTA +   ++    A   +            + +      

		Sbjct: 198  YAVGANKYRVDVNSGAVVTDTTAPTVPDKVYVNAANGQLTTDDAENNTAVDLFKTTKSTA 257

		

		Query: 973  EQLEEALSSNSRRVTGELNSASTTLVDTVSGSLDQISEKIDEANTGFSEKLATGVNGISD 1032

		               E         + G +            G    I  K      G   K++T +NG   

		Sbjct: 258  GTAEAKA------IAGAIKGGKEGDTFDYKGVTFTIDTKTGNDGNG---KVSTTINGEKV 308

		

		Query: 1033 ALSLATSELEETLTNNSMRVTGELNTASTNLVDTVSLALADVSQQVDSANTRLTTTMQGG 1092

		             L++A         + +   + +    S            D ++   +  + L       

		Sbjct: 309  TLTVADITAGAANVDAATLQSSKNVYTSVVNGQF---TFDDKTKNESAKLSDLEAN-NAV 364

		

		Query: 1093 LETLSTSLTEAEQSLSGKVEATNRNIESALQNSQEAIAAATSTATQTLGNSLETSVTGIS 1152

		                  ++  AE + +   +      ++        I    S  +  +      +    +

		Sbjct: 365  KGESKITVNGAEYTANAAGDKVTLAGKTM------FIDKTASGVSTLINEDAAAAKKSTA 418

		

		Query: 1153 EAISSADTALAQ 1164

		              ++S D+AL++

		Sbjct: 419  NPLASIDSALSK 430

		

		

		>OMS28PORIN#OMS28 porin signature.

		          Length = 257

		

		 Score = 29.0 bits (64), Expect = 0.046

		 Identities = 44/192 (22%), Positives = 81/192 (42%), Gaps = 23/192 (11%)

		

		Query: 235 AGIVSNSEEFTAKLVDKAEELDGVFADVQEAAGQVQQFTEGL-NSSLQQVDAVIAAVDPN 293

		           + ++ +S++   K +D+ ++++     + +    V    EG+  SSL+ V++  A V   

		Sbjct: 36  SNVLEHSDQKDNKKLDQKDQVNQALDTINKVTEDVSSKLEGVRESSLELVESNDAGVVKK 95

		

		Query: 294 AVEQAVQGAADLGALVSDNKADVAKTLVNASQISTDLAAVSQELADNKQLVSELGTRAKE 353

		            V     G+  L        +DVAK  V ASQ +T +A  S  +A+    V E+  +A +

		Sbjct: 96  FV-----GSMSL-------MSDVAKGTVVASQEATIVAKCSGMVAEGANKVVEMSKKAVQ 143

		

		Query: 354 VMERLSVAAGDAQAVIAAV----------EPEKVRAIVANVEDVSAAVAGKSTQIAKTVD 403

		             ++    AG+A  +I             E E  +   A VE V   +      + +TV 

		Sbjct: 144 ETQKAVSVAGEATFLIEKQIMLNKSPNNKELELTKEEFAKVEQVKETLMASERALDETVQ 203

		

		Query: 404 DVSAAAANVRGI 415

		           +       V G+

		Sbjct: 204 EAQKVLNMVNGL 215

		

		

		>TCRTETA#Tetracycline resistance protein signature.

		          Length = 399

		

		 Score = 50.6 bits (121), Expect = 5e-09

		 Identities = 81/392 (20%), Positives = 146/392 (37%), Gaps = 49/392 (12%)

		

		Query: 17  ISALFSTFI--FGIGLFLPYFPVYLEGLQFTPVQIA---VLASLPNLVKVVSTPLLTSLS 71

		           I  L +  +   GIGL +P  P  L  L  +    A   +L +L  L++    P+L +LS

		Sbjct: 8   IVILSTVALDAVGIGLIMPVLPGLLRDLVHSNDVTAHYGILLALYALMQFACAPVLGALS 67

		

		Query: 72  DKSGRRRRSIALYALFCV-LSLVALSQTDTYAVVFGIVLVFSFFLAPLQPLSDAYAFEAV 130

		           D+ GRR   +   A   V  +++A +           VL     +A +   + A A   +

		Sbjct: 68  DRFGRRPVLLVSLAGAAVDYAIMATAPFLW-------VLYIGRIVAGITGATGAVAGAYI 120

		

		Query: 131 NNCGIDYGKPRAVG------SGFFIIATMFGGWYIGFGPSVHLLYFIAAAF--CLLIWMA 182

		            +      + R  G          +   + GG   GF P  H  +F AAA      +   

		Sbjct: 121 ADITDGDERARHFGFMSACFGFGMVAGPVLGGLMGGFSP--HAPFFAAAALNGLNFLTGC 178

		

		Query: 183 LALPPMPSEHRREMQQGTVDGNELKTASLHIMLLATGLVLGSLGALFS-FGSIFWLANG- 240

		             LP      RR +++  ++       +  + ++A  + +  +  L     +  W+  G 

		Sbjct: 179 FLLPESHKGERRPLRREALNPLASFRWARGMTVVAALMAVFFIMQLVGQVPAALWVIFGE 238

		

		Query: 241 ----LSDSQVGLLWSA-GVVAEICVFLVGQRLIKRFGVFQLIIIGSLGALVRWVLFPIAD 295

		                  + +G+  +A G++  +   ++   +  R G  + +++G +     ++L   A 

		Sbjct: 239 DRFHWDATTIGISLAAFGILHSLAQAMITGPVAARLGERRALMLGMIADGTGYILLAFAT 298

		

		Query: 296 GFWSALALQLLHAFNFGMVFIALMNYLSKSISAARLGTAQGLSQTYIGLFTGLTGV---- 351

		             W A  + +L A   G+   AL   LS+ +   R G  QG         T LT +    

		Sbjct: 299 RGWMAFPIMVLLAS-GGIGMPALQAMLSRQVDEERQGQLQGSLAA----LTSLTSIVGPL 353

		

		Query: 352 LSGWLYEMSPAY----------AFYSMALIVL 373

		           L   +Y  S             A Y + L  L

		Sbjct: 354 LFTAIYAASITTWNGWAWIAGAALYLLCLPAL 385

		

		

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

		          Length = 1541

		

		 Score = 35.8 bits (82), Expect = 4e-04

		 Identities = 24/142 (16%), Positives = 43/142 (30%), Gaps = 15/142 (10%)

		

		Query: 261  EPAKVAPAEAEEALTEPQAQEPEAKPAVPDTIKT-----------EASAEETASEPEVGI 309

		            +  +    +A E   + +    EAK  V    +T           E    ET     V  

		Sbjct: 1049 KTVEKNEQDATETTAQNREVAKEAKSNVKANTQTNEVAQSGSETKETQTTETKETATVEK 1108

		

		Query: 310  ADTGSEEA--VLDAPRSTSKQPAQLGA--ISQPDPAPQPEPDEQADASAEEDEEEERPSS 365

		             +    E     + P+ TS+   +       QP   P  E D   +    + +      +

		Sbjct: 1109 EEKAKVETEKTQEVPKVTSQVSPKQEQSETVQPQAEPARENDPTVNIKEPQSQTNTTADT 1168

		

		Query: 366  GRTFKQIAKNSDPLEELSTGER 387

		             +  K+ + N +     ST   

		Sbjct: 1169 EQPAKETSSNVEQPVTESTTVN 1190

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score =  432 bits (1113), Expect = e-151

		 Identities = 165/471 (35%), Positives = 245/471 (52%), Gaps = 37/471 (7%)

		

		Query: 2   RLLIVGTLDGQLTTATKIAMDRGASVTHAGELTSALRVLRGGGGADLLMVDV---GVDIA 58

		            +L+        T   +     G  V       +  R +  G G DL++ DV     +  

		Sbjct: 5   TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDG-DLVVTDVVMPDENAF 63

		

		Query: 59  DLVGQMEQERIHVPIVACGIGADAKSAVSAIKAGAKEYIPLPPDPELIAAV--------- 109

		           DL+ ++++ R  +P++         +A+ A + GA +Y+P P D   +  +         

		Sbjct: 64  DLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPK 123

		

		Query: 110 -----LAAVSQDQSSMVFRDEAMAALVSLARQIAPSDASVLITGESGSGKEVIARFVHEN 164

		                L   SQD   +V R  AM  +  +  ++  +D +++ITGESG+GKE++AR +H+ 

		Sbjct: 124 RRPSKLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVARALHDY 183

		

		Query: 165 SSRKDKPFISINCAAIPEHLLESELFGHEKGAFTGAVARRIGKFEEASGGTLLLDEISEM 224

		             R++ PF++IN AAIP  L+ESELFGHEKGAFTGA  R  G+FE+A GGTL LDEI +M

		Sbjct: 184 GKRRNGPFVAINMAAIPRDLIESELFGHEKGAFTGAQTRSTGRFEQAEGGTLFLDEIGDM 243

		

		Query: 225 DVRLQAKLLRALQERVIDRVGGSKPVAVNIRVLATSNRDLTQAVQDGSFREDLLYRLNVV 284

		            +  Q +LLR LQ+     VGG  P+  ++R++A +N+DL Q++  G FREDL YRLNVV

		Sbjct: 244 PMDAQTRLLRVLQQGEYTTVGGRTPIRSDVRIVAATNKDLKQSINQGLFREDLYYRLNVV 303

		

		Query: 285 NLKLPPLRERPGDILALSEHFIRIYAKANGMKPMPISAEAQSALAANEWRGNVRELENTM 344

		            L+LPPLR+R  DI  L  HF++   K  G+       EA   + A+ W GNVRELEN +

		Sbjct: 304 PLRLPPLRDRAEDIPDLVRHFVQQAEK-EGLDVKRFDQEALELMKAHPWPGNVRELENLV 362

		

		Query: 345 HRALLLAQGGEIGLEAI--RMPDGTPIATSPAQQAASRAASAAEALSRTM---------- 392

		            R   L     I  E I   +    P +      A S + S ++A+   M          

		Sbjct: 363 RRLTALYPQDVITREIIENELRSEIPDSPIEKAAARSGSLSISQAVEENMRQYFASFGDA 422

		

		Query: 393 ------VGRTVADVERDLILDTLDHCLGNRTHAAKILGISIRTLRNKLNQY 437

		                   R +A++E  LIL  L    GN+  AA +LG++  TLR K+ + 

		Sbjct: 423 LPPSGLYDRVLAEMEYPLILAALTATRGNQIKAADLLGLNRNTLRKKIREL 473

		

		

		>FLGMOTORFLIN#Flagellar motor switch protein FliN signature.

		          Length = 137

		

		 Score = 88.4 bits (219), Expect = 5e-26

		 Identities = 36/81 (44%), Positives = 55/81 (67%)

		

		Query: 32  VSKSAADLEAVFDVPVQISAVLGHSRMKISEMLHLDTGVVMELDRKVGEAIDIYVNDRLV 91

		           VS +  D++ + D+PV+++  LG +RM I E+L L  G V+ LD   GE +DI +N  L+

		Sbjct: 47  VSGAMQDIDLIMDIPVKLTVELGRTRMTIKELLRLTQGSVVALDGLAGEPLDILINGYLI 106

		

		Query: 92  ARGEVVLVEEKLGVTMTEIIK 112

		           A+GEVV+V +K GV +T+II 

		Sbjct: 107 AQGEVVVVADKYGVRITDIIT 127

		

		

		>FLGMOTORFLIG#Flagellar motor switch protein FliG signature.

		          Length = 344

		

		 Score =  281 bits (720), Expect = 3e-95

		 Identities = 104/331 (31%), Positives = 184/331 (55%), Gaps = 2/331 (0%)

		

		Query: 22  KLSGPERAAVLLLALGEEYGRPIWEGLDDIEVRQVSSAMASLGPITPAMLEELFVDFLKR 81

		            L+G ++AA+LL+++G E    +++ L   E+  ++  +A L  IT  + + + ++F + 

		Sbjct: 14  ALTGKQKAAILLVSIGSEISSKVFKYLSQEEIESLTFEIAKLETITSELKDNVLLEFKEL 73

		

		Query: 82  LSTNGAL-TGNVDVTERLLNSFLPGERVELIMEEIRGPAGRNMWEKLSNVPESVLANYLK 140

		           +     +  G +D    LL   L  ++   I+  +        +E +     + + N+++

		Sbjct: 74  MMAQEFIQKGGIDYARELLEKSLGTQKAVDIINNLGSALQSRPFEFVRRADPANILNFIQ 133

		

		Query: 141 NEYPQTIAVVLSKIQPEHSARVLALLNDELALEVVHRMLKMESIQKDILRKVEQTLRIEF 200

		            E+PQTIA++LS + P+ ++ +L+ L  E+   V  R+  M+    +++R+VE+ L  + 

		Sbjct: 134 QEHPQTIALILSYLDPQKASFILSSLPTEVQTNVARRIALMDRTSPEVVREVERVLEKKL 193

		

		Query: 201 MSNLS-QTSRRDSHEIMAEIFNNFDRQTEVRFLSSLEEDNRESAERIRNLMFTFEDLLKL 259

		            S  S   +     + + EI N  DR+TE   + SLEE++ E AE I+  MF FED++ L

		Sbjct: 194 ASLSSEDYTSAGGVDNVVEIINMADRKTEKFIIESLEEEDPELAEEIKKKMFVFEDIVLL 253

		

		Query: 260 DAASCQTLLRNVEKDKLALALKGANEIAMEFFTSNMSQRAAKMLQEDMEALGPVRLREVD 319

		           D  S Q +LR ++  +LA ALK  +    E    NMS+RAA ML+EDME LGP R ++V+

		Sbjct: 254 DDRSIQRVLREIDGQELAKALKSVDIPVQEKIFKNMSKRAASMLKEDMEFLGPTRRKDVE 313

		

		Query: 320 EAQSAMVAKAKELATSGDIEINKKKGEDDLV 350

		           E+Q  +V+  ++L   G+I I++   ED LV

		Sbjct: 314 ESQQKIVSLIRKLEEQGEIVISRGGEEDVLV 344

		

		

		>FLGMRINGFLIF#Flagellar M-ring protein signature.

		          Length = 559

		

		 Score =  316 bits (811), Expect = e-103

		 Identities = 165/579 (28%), Positives = 267/579 (46%), Gaps = 68/579 (11%)

		

		Query: 6   DFLKRLGPARLGAMGAMAAILVGVFAFIIMRATAPQLVPLYTDLSLEDSSAIVSQLQSSG 65

		           ++L RL       +    +  V +   +++ A  P    L+++LS +D  AIV+QL    

		Sbjct: 14  EWLNRLRANPRIPLIVAGSAAVAIVVAMVLWAKTPDYRTLFSNLSDQDGGAIVAQLTQMN 73

		

		Query: 66  TVYEIRENGAALYVPQESVHQLRLTMAGVGLPSGGGVGYEIFDKSDTLGATSFVQNINRL 125

		             Y       A+ VP + VH+LRL +A  GLP GG VG+E+ D+    G + F + +N  

		Sbjct: 74  IPYRFANGSGAIEVPADKVHELRLRLAQQGLPKGGAVGFELLDQEK-FGISQFSEQVNYQ 132

		

		Query: 126 RALEGELARTIRSISRVVSARVHLVIPEKQLFQRDREPPTASIAVKVRG--SLDSGQIRS 183

		           RALEGELARTI ++  V SARVHL +P+  LF R+++ P+AS+ V +    +LD GQI +

		Sbjct: 133 RALEGELARTIETLGPVKSARVHLAMPKPSLFVREQKSPSASVTVTLEPGRALDEGQISA 192

		

		Query: 184 IQHLVASAVEGLEPSYVSIVDERGALLAAGTGADDGAFGSANLDERRISIENRMRAQVED 243

		           + HLV+SAV GL P  V++VD+ G LL        G   +    +    +E+R++ ++E 

		Sbjct: 193 VVHLVSSAVAGLPPGNVTLVDQSGHLLTQSN--TSGRDLNDAQLKFANDVESRIQRRIEA 250

		

		Query: 244 ILNNVVGSGRARVRVAAELNLNRKTETEEVFDPNGQVVRSSQSREENQRSSSLNQSV--- 300

		           IL+ +VG+G    +V A+L+   K +TEE + PNG   +++    +   S  +       

		Sbjct: 251 ILSPIVGNGNVHAQVTAQLDFANKEQTEEHYSPNGDASKATLRSRQLNISEQVGAGYPGG 310

		

		Query: 301 ---TVSNQLP---DAGANDTGGGQEDNSNVT------------------EETVNYEISRS 336

		               +SNQ     +A        Q++  N                     ET NYE+ R+

		Sbjct: 311 VPGALSNQPAPPNEAPIATPPTNQQNAQNTPQTSTSTNSNSAGPRSTQRNETSNYEVDRT 370

		

		Query: 337 TTTEVIEAGGLERLSIAVLVDGTYVNDESGAQVYQPRSQEELDSIAALVRSAVGFDERRG 396

		                +  G +ERLS+AV+V+   + D        P + +++  I  L R A+GF ++RG

		Sbjct: 371 IRHTKMNVGDIERLSVAVVVNYKTLADGK----PLPLTADQMKQIEDLTREAMGFSDKRG 426

		

		Query: 397 DKIEVVNLRF--IDTPVEEMPEDGQGWMEFTRADIMRLAELGVLLVISVLMLVFAVNPLM 454

		           D + VVN  F  +D    E+P   Q         ++      ++LV++ ++   AV P +

		Sbjct: 427 DTLNVVNSPFSAVDNTGGELPFWQQQSF---IDQLLAAGRWLLVLVVAWILWRKAVRPQL 483

		

		Query: 455 RRILASEDTAEPSEVIGAGAAVTGTAPAAGAAVGAEAEAAELGPSASLQEAEAQAMQKNG 514

		            R                       A AA        +  E      L + E    Q   

		Sbjct: 484 TRR-------------------VEEAKAAQEQAQVR-QETEEAVEVRLSKDE----QLQQ 519

		

		Query: 515 WIADAKTQAALHSSSIKELGNMIDEMPTEAVNIVRSWIN 553

		             A+ +  A + S  I+E   M D  P     ++R W++

		Sbjct: 520 RRANQRLGAEVMSQRIRE---MSDNDPRVVALVIRQWMS 555

		

		

		>HTHTETR#TetR bacterial regulatory protein HTH signature.

		          Length = 215

		

		 Score = 61.2 bits (148), Expect = 1e-13

		 Identities = 26/130 (20%), Positives = 50/130 (38%), Gaps = 14/130 (10%)

		

		Query: 1   MPIDTQTQSTELSSSQKTRLALINAALRLFGSKGYAATSTREIAEAASTNISSIAYHFGG 60

		           M   T+ ++ E      TR  +++ ALRLF  +G ++TS  EIA+AA     +I +HF  

		Sbjct: 1   MARKTKQEAQE------TRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKD 54

		

		Query: 61  KQGLHTACAEYFVSLAKTHVNDTSPATSAAWQSLSQENAEEALISFVGRMIDFLLGSKEA 120

		           K  L +   E   S       +               +    L   +  +++  +  +  

		Sbjct: 55  KSDLFSEIWELSESNIGELELEYQAKFPG--------DPLSVLREILIHVLESTVTEERR 106

		

		Query: 121 PSFVSFVLRE 130

		              +  +  +

		Sbjct: 107 RLLMEIIFHK 116

		

		

		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D

		           signature.

		          Length = 478

		

		 Score = 61.0 bits (148), Expect = 1e-12

		 Identities = 43/274 (15%), Positives = 99/274 (36%), Gaps = 72/274 (26%)

		

		Query: 28  VEGEYARLAPVEAAEIAQVYVRRGDSVKAGDIMARLQTEDVEIDLVEAEAAVNEA----- 82

		             G    + P+E + + ++ V+ G+SV+ GD++ +L     E D ++ ++++ +A     

		Sbjct: 92  HSGRSKEIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQT 151

		

		Query: 83  --QAHLDNLKLGKRPE----------------------------------------EINV 100

		             Q    +++L K PE                                         ++ 

		Sbjct: 152 RYQILSRSIELNKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDK 211

		

		Query: 101 LEASIASAAALLTEKE---RVLARQVG----LYKREVMSK-------ATLDKAQTDHDVA 146

		             A   +  A +   E   RV   ++     L  ++ ++K           +A  +  V 

		Sbjct: 212 KRAERLTVLARINRYENLSRVEKSRLDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVY 271

		

		Query: 147 SSRLAELKAQLEVAKLPARK----------DQIKAAQSALQRAKARLERTKWRLAERTIH 196

		            S+L ++++++  AK   +           D+++     +      L + + R     I 

		Sbjct: 272 KSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDNIGLLTLELAKNEERQQASVIR 331

		

		Query: 197 APADGKVFDV-IHHRGEIASPTAPVVSVLPEGAV 229

		           AP   KV  + +H  G + +    ++ ++PE   

		Sbjct: 332 APVSVKVQQLKVHTEGGVVTTAETLMVIVPEDDT 365

		

		

		>ABC2TRNSPORT#ABC-2 type transport system membrane protein

		           signature.

		          Length = 262

		

		 Score = 41.1 bits (96), Expect = 4e-06

		 Identities = 43/170 (25%), Positives = 67/170 (39%), Gaps = 3/170 (1%)

		

		Query: 205 SLTRERERGTMENLLAMPANSAEIMLGKVTPYLCLGAVQMTIILGAGQLLFDVPFVGSLW 264

		           +  R   + T E +L       +I+LG++       A+    I      L    ++ SL 

		Sbjct: 90  AFGRMEGQRTWEAMLYTQLRLGDIVLGEMAWAATKAALAGAGIGVVAAALGYTQWL-SLL 148

		

		Query: 265 LILFSTLIYVFSLVLLGYFFSTIAKSQMQAMQLMVLSLLPSILLSGFMFPFRGMPHWAQY 324

		             L    +   +   LG   + +A S    +    L + P + LSG +FP   +P   Q 

		Sbjct: 149 YALPVIALTGLAFASLGMVVTALAPSYDYFIFYQTLVITPILFLSGAVFPVDQLPIVFQT 208

		

		Query: 325 IGECLPITHFIRIIRGVML--KGADLSQVGNELAILFVFVFVFSLMALSR 372

		               LP++H I +IR +ML     D+ Q    L I  V  F  S   L R

		Sbjct: 209 AARFLPLSHSIDLIRPIMLGHPVVDVCQHVGALCIYIVIPFFLSTALLRR 258

		

		

		>HTHTETR#TetR bacterial regulatory protein HTH signature.

		          Length = 215

		

		 Score = 63.5 bits (154), Expect = 2e-14

		 Identities = 29/174 (16%), Positives = 68/174 (39%), Gaps = 6/174 (3%)

		

		Query: 27  SRQEEKSRRMRREIVNAAISVLHEQGYHRASIKKIAERSAFSQGALQHHFPTKNDLMQHV 86

		            + +++++  R+ I++ A+ +  +QG    S+ +IA+ +  ++GA+  HF  K+DL   +

		Sbjct: 3   RKTKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEI 62

		

		Query: 87  LERLLRKSVTLTQDWIAEQGGANI-QLGALTQSWWRLQIRSPEFLAMVEILV----ASRT 141

		            E        L  ++ A+  G  +  L  +        +       ++EI+         

		Sbjct: 63  WELSESNIGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFVGE 122

		

		Query: 142 EETLRGRLRHAFEDYMQQISALLARHTNSDEADAA-DAAMLARVTRCMLFGFIT 194

		              ++   R+   +   +I   L     +    A       A + R  + G + 

		Sbjct: 123 MAVVQQAQRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYISGLME 176