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

		           signature.

		          Length = 261

		

		 Score =  116 bits (292), Expect = 9e-34

		 Identities = 81/250 (32%), Positives = 115/250 (46%), Gaps = 14/250 (5%)

		

		Query: 6   ENRTLVLTGANGGIGRAIAELFHASGANLVLTDLDREGLDAFAASLGSPERIA-TIKADA 64

		           E +   +TGA  GIG A+A    + GA++   D + E L+   +SL +  R A    AD 

		Sbjct: 7   EGKIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAFPADV 66

		

		Query: 65  SSADDAEKTVALAMERFGGIDFLVPSAGIYQAKPFAEMSDADWHRTISINLDGVFYLCKR 124

		             +   ++  A      G ID LV  AG+ +      +SD +W  T S+N  GVF   + 

		Sbjct: 67  RDSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGVFNASRS 126

		

		Query: 125 ALPALK--EDSSIVTLASLAAYRGAYVNAHYGATKGAMVSMTRALSRELAP-KTRVNGVA 181

		               +      SIVT+ S  A       A Y ++K A V  T+ L  ELA    R N V+

		Sbjct: 127 VSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCNIVS 186

		

		Query: 182 PGIIETPMTSEL----------LKTRMDETMTQTPLKRLGKPSEIASVIAFLCSPAASFV 231

		           PG  ET M   L          +K  ++   T  PLK+L KPS+IA  + FL S  A  +

		Sbjct: 187 PGSTETDMQWSLWADENGAEQVIKGSLETFKTGIPLKKLAKPSDIADAVLFLVSGQAGHI 246

		

		Query: 232 TGETIQVNGG 241

		           T   + V+GG

		Sbjct: 247 TMHNLCVDGG 256

		

		

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

		           signature.

		          Length = 261

		

		 Score =  117 bits (294), Expect = 5e-34

		 Identities = 76/250 (30%), Positives = 119/250 (47%), Gaps = 12/250 (4%)

		

		Query: 7   KLVLVTGAGRGLGAAISSGAAEQGARVILVDIDGTAAKAQADALTAKGFVAEGHALDVTD 66

		           K+  +TGA +G+G A++   A QGA +  VD +    +    +L A+   AE    DV D

		Sbjct: 9   KIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAFPADVRD 68

		

		Query: 67  RDAVAALADDILSRFGGLDVLVNNAGVAGRAAFDQPEAVEVWDRVIGVNLEGAFNVSHAL 126

		             A+  +   I    G +D+LVN AGV          + E W+    VN  G FN S ++

		Sbjct: 69  SAAIDEITARIEREMGPIDILVNVAGVLRPGLIHS-LSDEEWEATFSVNSTGVFNASRSV 127

		

		Query: 127 VPALKAAK-GNVVHLCSVAGFVSGGSTAGYVVSKGAIRSLTQVMARDLAPHGIRVNAVAP 185

		              +   + G++V + S    V   S A Y  SK A    T+ +  +LA + IR N V+P

		Sbjct: 128 SKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCNIVSP 187

		

		Query: 186 GIMMSEM---------AVAQLNRPGGTDWFMNRVMMKRIGETSEVVDPVVFLASPMASYI 236

		           G   ++M            Q+ + G  + F   + +K++ + S++ D V+FL S  A +I

		Sbjct: 188 GSTETDMQWSLWADENGAEQVIK-GSLETFKTGIPLKKLAKPSDIADAVLFLVSGQAGHI 246

		

		Query: 237 TGTILPVDGG 246

		           T   L VDGG

		Sbjct: 247 TMHNLCVDGG 256

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score =  107 bits (269), Expect = 2e-29

		 Identities = 28/123 (22%), Positives = 55/123 (44%)

		

		Query: 11  VFIVDDDHSVRLGLVDLFASIGLKALCFASVNEFLKHAREEVPACLILDVRMPGESGTEF 70

		           + + DDD ++R  L    +  G      ++     +         ++ DV MP E+  + 

		Sbjct: 6   ILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFDL 65

		

		Query: 71  HARMKGLDIRLPVIFITGHGDIAMGVKAIKDGAIDFLAKPFRNQDLLDAVQQAIRTDRKR 130

		             R+K     LPV+ ++        +KA + GA D+L KPF   +L+  + +A+   ++R

		Sbjct: 66  LPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKRR 125

		

		Query: 131 LRE 133

		             +

		Sbjct: 126 PSK 128

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 91.8 bits (228), Expect = 5e-25

		 Identities = 34/115 (29%), Positives = 57/115 (49%)

		

		Query: 3   RILLAEDDNDMRRFLVKALEKAGYHVTHFDNGASAYERLQEEPFSLLLTDIVMPEMDGIE 62

		            IL+A+DD  +R  L +AL +AGY V    N A+ +  +      L++TD+VMP+ +  +

		Sbjct: 5   TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64

		

		Query: 63  LARRATEIDPDLKIMFITGFAAVALNPDSDAPRDAKVLSKPFHLRDLVNEIEKML 117

		           L  R  +  PDL ++ ++          +        L KPF L +L+  I + L

		Sbjct: 65  LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRAL 119

		

		

		>OMPADOMAIN#OMPA domain signature.

		          Length = 346

		

		 Score = 51.5 bits (123), Expect = 2e-10

		 Identities = 32/144 (22%), Positives = 56/144 (38%), Gaps = 21/144 (14%)

		

		Query: 47  FPQEPTAQATMWPARPPKQTVS--------VYFPQDVTVFRPTSAQ-INQLHTLLWPV-P 96

		           F Q   A        P  +  +        V F  +    +P     ++QL++ L  + P

		Sbjct: 191 FGQGEAAPVVAPAPAPAPEVQTKHFTLKSDVLFNFNKATLKPEGQAALDQLYSQLSNLDP 250

		

		Query: 97  KH--INVRGLTDNNCPPPGDTQVARVRALAIYNWLINQGVPASRI-TISYAPVKDYASN- 152

		           K   + V G TD       +  ++  RA ++ ++LI++G+PA +I             N 

		Sbjct: 251 KDGSVVVLGYTDRIGSDAYNQGLSERRAQSVVDYLISKGIPADKISARGMGESNPVTGNT 310

		

		Query: 153 -------APLSPGRVLNRRVDIEI 169

		                  A L      +RRV+IE+

		Sbjct: 311 CDNVKQRAALIDCLAPDRRVEIEV 334

		

		

		>PF03544#Gram-negative bacterial tonB protein

		          Length = 243

		

		 Score = 39.2 bits (91), Expect = 1e-05

		 Identities = 26/122 (21%), Positives = 33/122 (27%), Gaps = 1/122 (0%)

		

		Query: 33  VLLFLFVVGFIVVLLLLLVFHMRGN-AENNHHSDKTMVQTSTVPMRTFKLPPPPPPAPPE 91

		            LL + + G +V  LL    H              TMV  + +       PPP P   PE

		Sbjct: 18  TLLSVCIHGAVVAGLLYTSVHQVIELPAPAQPISVTMVAPADLEPPQAVQPPPEPVVEPE 77

		

		Query: 92  PPAPPPAPAMPIAEPAAAALSLPPLPDDTPAKDDVLDKSASALMVVTKSSGDTNAQTTNA 151

		           P   P       A          P P   P K     K     +    +S   N      

		Sbjct: 78  PEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKVEQPKRDVKPVESRPASPFENTAPARP 137

		

		Query: 152 RI 153

		             

		Sbjct: 138 TS 139

		

		

		>TYPE4SSCAGX#Type IV secretion system CagX conjugation protein

		           signature.

		          Length = 522

		

		 Score = 50.9 bits (121), Expect = 2e-09

		 Identities = 47/197 (23%), Positives = 72/197 (36%), Gaps = 58/197 (29%)

		

		Query: 93  SHSNQSIDMAPEPGKWDTNLMVTTDQRMYDFDLRLMPGRNNQRVAYRVQFRYPAAAAAAA 152

		           S  + SI+++P    W TNL+V T++ +Y F LR+    N       V+  YP     ++

		Sbjct: 262 SPEDNSIELSPSDSAWRTNLVVRTNKALYQFILRIAQKDNFASAYLTVKLEYPQRHEVSS 321

		

		Query: 153 V----------AAAQKRVV-QARMNA---------------------------------- 167

		           V          A  Q+ ++ Q  +N                                   

		Sbjct: 322 VIEEELKKREEAKRQRELIKQENLNTTAYINRVMMASNEQIINKEKIREEKQKIILDQAK 381

		

		Query: 168 -----------RPSPVNWNYTMQVG--TNSASIAPTLAYDDGRFTYLRFPNNRDFPAAFL 214

		                      + +PV  NY         S  I P+  +DDG FTY  F N    PA F+

		Sbjct: 382 ALETQYVHNALKRNPVPRNYNYYQAPEKRSKHIMPSEIFDDGTFTYFGFKNITLQPAIFV 441

		

		Query: 215 VAEDKSESIVNSHIDPS 231

		           V  D   S+ ++ IDP+

		Sbjct: 442 VQPDGKLSMTDAAIDPN 458

		

		

		>PF04335#VirB8 type IV secretion protein

		          Length = 227

		

		 Score =  215 bits (550), Expect = 6e-73

		 Identities = 58/217 (26%), Positives = 104/217 (47%), Gaps = 7/217 (3%)

		

		Query: 23  YDEALNWEAAHVRLIEKSERRAWKIAGAFGTITVLLGIGIAGMLPLKQHVPYLVRVNAQT 82

		           ++EA +WE   +   E+S++ AW +AG  G +     + +A + PLK   PY++ V+  T

		Sbjct: 14  FEEAASWERDKLAAAERSKKLAWVVAGVAGALATAGVVAVAALTPLKTVEPYVITVDRNT 73

		

		Query: 83  GAPDILTSLD-EKSVSYDTVMDKYWLSQYVIARETYDWYTLQKDYETVGMLSSPSEGQSY 141

		           G   I   L  + +++YD  + KY+L+ YV  RE +     ++ ++ V ++S+  E   +

		Sbjct: 74  GEASIAAKLHGDATITYDEAVRKYFLATYVRYREGWIAAAREEYFDAVMVMSARPEQDRW 133

		

		Query: 142 ASQFQGD--KALDKQYGSNVRTSVTIVSIVPNGKGIGTVRFAKTTKRTNETGDGETTHWI 199

		           +  ++ D  ++      +     V I  +   G  +  V F K +   + +     T  +

		Sbjct: 134 SRFYKTDNPQSPQNILANRTDVFVEIKRVSFLGGNVAQVYFTKESVTGSNS---TKTDAV 190

		

		Query: 200 ATIGYQYVNPSLMSESARLTNPLGFNVTSYRVDPEMG 236

		           ATI Y+        E  R  NPLG+ V SYR D E+ 

		Sbjct: 191 ATIKYKVDGTP-SKEVDRFKNPLGYQVESYRADVEVP 226

		

		

		>CHANLCOLICIN#Channel forming colicin signature.

		          Length = 522

		

		 Score = 32.0 bits (72), Expect = 0.004

		 Identities = 16/31 (51%), Positives = 19/31 (61%), Gaps = 2/31 (6%)

		

		Query: 305 SGSSGGGGSGSAKAGGESSYSAGGNAMWSPA 335

		           SGS GGGG G +K+  ESS +    A WS A

		Sbjct: 32  SGSGGGGGKGGSKS--ESSAAIHATAKWSTA 60

		

		

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

		          Length = 1541

		

		 Score = 36.2 bits (83), Expect = 4e-04

		 Identities = 41/288 (14%), Positives = 80/288 (27%), Gaps = 32/288 (11%)

		

		Query: 269  ADEEEDNGDTAAPATARPARATAPTRQTPAAVPAAPVEQPRETMVAALPARDAP-VPMQA 327

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

		Sbjct: 985  VEKRNQTVDTTNITTPNNIQADVPSVPSNNEEIARVDEAPVPPPAPATPSETTETVAENS 1044

		

		Query: 328  PRPETGLDAQAAAAETPVAAFNVPVPAHKPQMAPQDAVALAAAEDPAAAARAAVDANTAQ 387

		             +    ++     A    A           ++A +    + A       A++  +    Q

		Sbjct: 1045 KQESKTVEKNEQDATETTA--------QNREVAKEAKSNVKANTQTNEVAQSGSETKETQ 1096

		

		Query: 388  VADAGMSAALTNGFVPVPSARPHLETDNVQLAAAVIPTARP-------ERPGEHPARGQD 440

		              +   +A +          +  +ET+  Q    V     P        +P   PAR  D

		Sbjct: 1097 TTETKETATVEK------EEKAKVETEKTQEVPKVTSQVSPKQEQSETVQPQAEPAREND 1150

		

		Query: 441  AIAALVNSQSDEPAQMAGEMADATGNAVAPQPGKTAAFPLPTQAPRADTKLAMVSRRDEI 500

		                +   QS        E      ++   QP   +          +  +    +     

		Sbjct: 1151 PTVNIKEPQSQTNTTADTEQPAKETSSNVEQPVTEST---TVNTGNSVVENPENTTPAT- 1206

		

		Query: 501  GELIAPPEDDYDYDAKPVA--AAAPKQAPAPVQMASAAPTKPAAVASA 546

		                  P  + +   KP      + +  P  V+ A+ +    + VA  

		Sbjct: 1207 ----TQPTVNSESSNKPKNRHRRSVRSVPHNVEPATTSSNDRSTVALC 1250

		

		

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

		          Length = 1541

		

		 Score = 32.0 bits (72), Expect = 0.013

		 Identities = 39/149 (26%), Positives = 49/149 (32%), Gaps = 13/149 (8%)

		

		Query: 433 SGVNTYTGGTTLTAGTLAAASDNNLGG------ASGGLTFNGGTLQVMGTSWTSTNWAVS 486

		              +T TGG       LA   D    G       SG LT N    Q  G  +   ++ V 

		Sbjct: 355 GKTSTITGGEKSLNVDLADGKDKPNHGKSVTFEGSGTLTLNNNIDQGAGGLFFEGDYEVK 414

		

		Query: 487 LQAGGGTFDIE--DAANNFAVTQGVAGAGG--LTKSGSGTLTLSGANSYTGATTVSAGTL 542

		             +   T+       A    VT  V       L K G GTL + G     G+  V  GT+

		Sbjct: 415 GTSDNTTWKGAGVSVAEGKTVTWKVHNPQYDRLAKIGKGTLIVEGTGDNKGSLKVGDGTV 474

		

		Query: 543 ---TQGAAGGFSTASSRYDVDTDGTLDLG 568

		               Q    G    +S   V    TL L 

		Sbjct: 475 ILKQQTNGSGQHAFASVGIVSGRSTLVLN 503

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 31.7 bits (72), Expect = 0.003

		 Identities = 26/97 (26%), Positives = 39/97 (40%), Gaps = 13/97 (13%)

		

		Query: 25  CALFEMAWQRKLPLLLKGPTGCGKT---RFVSHMAARMGLPLSTVSCH---DDLAAADLT 78

		             +     Q  L L++ G +G GK    R +     R   P   ++      DL  ++L 

		Sbjct: 150 YRVLARLMQTDLTLMITGESGTGKELVARALHDYGKRRNGPFVAINMAAIPRDLIESELF 209

		

		Query: 79  GRYLLKG---GDTIWMDGRLTRAVRDGGICYLDEIVE 112

		           G    KG   G      GR  +A  +GG  +LDEI +

		Sbjct: 210 GHE--KGAFTGAQTRSTGRFEQA--EGGTLFLDEIGD 242

		

		

		>NUCEPIMERASE#Nucleotide sugar epimerase signature.

		          Length = 334

		

		 Score =  202 bits (515), Expect = 8e-65

		 Identities = 83/337 (24%), Positives = 138/337 (40%), Gaps = 41/337 (12%)

		

		Query: 20  VLVAGGAGFLGSHLCERLLNEGHSVICVDNFSTGRIENIRH----LLNFDGFSFIRHDIV 75

		            LV G AGF+G H+ +RLL  GH V+ +DN +     +++     LL   GF F + D+ 

		Sbjct: 3   YLVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLKQARLELLAQPGFQFHKIDLA 62

		

		Query: 76  NTLDLR-------VDEIYNLACPASPPHYQADPVHTMKTNVIGSLNLLELAAHYK-ARIF 127

		           +   +         + ++      +  +   +P     +N+ G LN+LE   H K   + 

		Sbjct: 63  DREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFLNILEGCRHNKIQHLL 122

		

		Query: 128 QASTSEVYGDPHVHPQPENYWGNVNSFGPRSCYDEGKRSAETLFHDFHQQYGVDIRIVRI 187

		            AS+S VYG     P   +   +V+   P S Y   K++ E + H +   YG+    +R 

		Sbjct: 123 YASSSSVYGLNRKMPFSTD--DSVDH--PVSLYAATKKANELMAHTYSHLYGLPATGLRF 178

		

		Query: 188 FNTYGPRMRPDDGRVVSNFIVQALKGEDITVYGDGSQTRSFCYVDDLIEGFHRLM----- 242

		           F  YGP  RPD    +  F    L+G+ I VY  G   R F Y+DD+ E   RL      

		Sbjct: 179 FTVYGPWGRPD--MALFKFTKAMLEGKSIDVYNYGKMKRDFTYIDDIAEAIIRLQDVIPH 236

		

		Query: 243 ---------------YSPHAIRVPVNIGNPGEFTVGALAEQIIAMTGSRSRIVYYPLPVD 287

		                           +P+ +    NIGN     +    + +    G  ++    PL   

		Sbjct: 237 ADTQWTVETGTPAASIAPYRV---YNIGNSSPVELMDYIQALEDALGIEAKKNMLPLQPG 293

		

		Query: 288 DPRQRRPDITVAKRELGWEPTVALAQGLEPTIAYFEH 324

		           D  +   D       +G+ P   +  G++  + ++  

		Sbjct: 294 DVLETSADTKALYEVIGFTPETTVKDGVKNFVNWYRD 330

		

		

		>NUCEPIMERASE#Nucleotide sugar epimerase signature.

		          Length = 334

		

		 Score =  150 bits (381), Expect = 5e-45

		 Identities = 76/326 (23%), Positives = 131/326 (40%), Gaps = 42/326 (12%)

		

		Query: 5   NVLVVGGAGFIGSHTAKLLAGQGYAPVVYDNLSTGHQSAVRWG----------DFVEGDI 54

		             LV G AGFIG H +K L   G+  V  DNL+  +  +++             F + D+

		Sbjct: 2   KYLVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLKQARLELLAQPGFQFHKIDL 61

		

		Query: 55  LDQARLVETMEKYVPVAVIHFAASAYVGESVEDPAKYYRNNVGGTQSLLDACRLTRTQNV 114

		            D+  + +         V        V  S+E+P  Y  +N+ G  ++L+ CR  + Q++

		Sbjct: 62  ADREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFLNILEGCRHNKIQHL 121

		

		Query: 115 IFSSSCATYGVPSRLPIGE-GEAQNPINPYGRTKLIAEHMLADYAVAYGLRYVALRYFNA 173

		           +++SS + YG+  ++P        +P++ Y  TK   E M   Y+  YGL    LR+F  

		Sbjct: 122 LYASSSSVYGLNRKMPFSTDDSVDHPVSLYAATKKANELMAHTYSHLYGLPATGLRFFT- 180

		

		Query: 174 SGADIDGELGEKHDPETHLIPRAMMAAAGRLDVLEVYGDDYETPDGTCIRDYIHVTDLAR 233

		               + G  G + D       +AM+        ++VY        G   RD+ ++ D+A 

		Sbjct: 181 ----VYGPWG-RPDMALFKFTKAMLEG----KSIDVYN------YGKMKRDFTYIDDIAE 225

		

		Query: 234 AHVLAVEHLKEAGGNLAV---------------NLGTGRGTSIREIVQSIGRLTGRSVPV 278

		           A +   + +  A     V               N+G      + + +Q++    G     

		Sbjct: 226 AIIRLQDVIPHADTQWTVETGTPAASIAPYRVYNIGNSSPVELMDYIQALEDALGIEAKK 285

		

		Query: 279 AMRARRAGDPPALYADPALAAEKLGF 304

		            M   + GD     AD     E +GF

		Sbjct: 286 NMLPLQPGDVLETSADTKALYEVIGF 311

		

		

		>SALSPVBPROT#Salmonella virulence plasmid 65kDa B protein signature.

		          Length = 591

		

		 Score = 28.9 bits (64), Expect = 0.026

		 Identities = 20/58 (34%), Positives = 22/58 (37%), Gaps = 1/58 (1%)

		

		Query: 226 LEVGRDTTFVERTKPGYDRVARFNKPIAIAELGYEGDDDYVRAWVAEANKPHAEFPAM 283

		            E+G   T V R    YD      +  A   L YEG D Y RA V     P    P M

		Sbjct: 319 DELGEADTLVSRLLLEYDENPILTQLCAARTLAYEG-DGYRRAPVNNMMPPPPPPPMM 375

		

		

		>SECA#SecA protein signature.

		          Length = 901

		

		 Score = 34.5 bits (79), Expect = 2e-04

		 Identities = 14/43 (32%), Positives = 19/43 (44%), Gaps = 4/43 (9%)

		

		Query: 3   PHPSLSAPKIRPDLIRPVETMGPYDSCWCRSGKKYKWCHFRRE 45

		              + +A   +    +     G  D C C SGKKYK CH R +

		Sbjct: 863 DSAAAAALAAQTGERKV----GRNDPCPCGSGKKYKQCHGRLQ 901

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 64.1 bits (156), Expect = 3e-15

		 Identities = 20/119 (16%), Positives = 50/119 (42%), Gaps = 5/119 (4%)

		

		Query: 12  MTK-SVMIVEDNELNMKLFRDLIEASGYETIRTRSGLEALDLAREHHPDLILMDIQLPEV 70

		           MT  ++++ +D+     +    +  +GY+   T +             DL++ D+ +P+ 

		Sbjct: 1   MTGATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDE 60

		

		Query: 71  SGLEVTKWLKDDEELRHIPVIAVTAFAMKGDE-ERIRQGGCEAYISKPISVPRFIETIK 128

		           +  ++   +K  +    +PV+ ++A        +   +G  + Y+ KP  +   I  I 

		Sbjct: 61  NAFDLLPRIK--KARPDLPVLVMSAQNTFMTAIKASEKGAYD-YLPKPFDLTELIGIIG 116

		

		

		>FLGMOTORFLIM#Flagellar motor switch protein FliM signature.

		          Length = 344

		

		 Score = 30.2 bits (68), Expect = 0.017

		 Identities = 11/43 (25%), Positives = 19/43 (44%)

		

		Query: 6  LATTRIIEVNMAKLTRTELENHLWKSADILRGSIDSSDYKIYI 48

		          + T  ++    A+LT T L   L     +   S+D   Y+ +I

		Sbjct: 52 MRTLSLMHETFARLTTTSLSAQLRSMVHVHVASVDQLTYEEFI 94

		

		

		>FLGHOOKFLIK#Flagellar hook-length control protein signature.

		          Length = 375

		

		 Score = 34.4 bits (78), Expect = 7e-04

		 Identities = 28/129 (21%), Positives = 52/129 (40%), Gaps = 15/129 (11%)

		

		Query: 257 KTLQIRLDPVELGTVTARIRVAGDSVEAHLVADKSHAAEMLAADRSMIEKALKVAGVGDD 316

		           ++ ++RL P +LG V   ++V  +  +  +V+   H    L A   ++   L  +G+   

		Sbjct: 257 QSAELRLHPQDLGEVQISLKVDDNQAQIQMVSPHQHVRAALEAALPVLRTQLAESGI--- 313

		

		Query: 317 TKISVTVADRNAQGAAQHVAAAQNAGQQQASAQQQGHQLAFNMQQQGSQGRGGEAQAQFM 376

		                       Q    +++    +GQQQA++QQQ  Q   N +    +          +

		Sbjct: 314 ------------QLGQSNISGESFSGQQQAASQQQQSQRTANHEPLAGEDDDTLPVPVSL 361

		

		Query: 377 SGRSGGEGG 385

		            GR  G  G

		Sbjct: 362 QGRVTGNSG 370

		

		

		>FLGMRINGFLIF#Flagellar M-ring protein signature.

		          Length = 559

		

		 Score =  538 bits (1386), Expect = 0.0

		 Identities = 159/576 (27%), Positives = 252/576 (43%), Gaps = 76/576 (13%)

		

		Query: 9   LGKLGARKLIALGLVGAALMGAILYTSIYLGRPSYETLYVGLSRDDVNRMGLALGEAGIP 68

		           L +L A   I L + G+A +  ++   ++   P Y TL+  LS  D   +   L +  IP

		Sbjct: 16  LNRLRANPRIPLIVAGSAAVAIVVAMVLWAKTPDYRTLFSNLSDQDGGAIVAQLTQMNIP 75

		

		Query: 69  FDVKSDGSSILVPIGKAENARMYLAEKGLPTSNNAGYELFDNMGSLGLTSFMQEITRVRA 128

		           +   +   +I VP  K    R+ LA++GLP     G+EL D     G++ F +++   RA

		Sbjct: 76  YRFANGSGAIEVPADKVHELRLRLAQQGLPKGGAVGFELLDQE-KFGISQFSEQVNYQRA 134

		

		Query: 129 LEGEIARTIQAIRGVKAARVHIVLAEKGSFRRGDQKPSASVVIRAEGGFSAESAQ--SIR 186

		           LEGE+ARTI+ +  VK+ARVH+ + +   F R  + PSASV +  E G + +  Q  ++ 

		Sbjct: 135 LEGELARTIETLGPVKSARVHLAMPKPSLFVREQKSPSASVTVTLEPGRALDEGQISAVV 194

		

		Query: 187 QLVAAAVPSLDASSVTVLDTNGHLLA---SAGEGANGAALMTASLEQQVASHVDDSIRKA 243

		            LV++AV  L   +VT++D +GHLL    ++G   N A L  A+    V S +   I   

		Sbjct: 195 HLVSSAVAGLPPGNVTLVDQSGHLLTQSNTSGRDLNDAQLKFAN---DVESRIQRRIEAI 251

		

		Query: 244 LAPYLGLGHFQTSVQAALDTDRRQTKETTYDPESRVERSVRVVRESGDSRNNRNDNATGV 303

		           L+P +G G+    V A LD   ++  E  Y P     ++    R+   S         GV

		Sbjct: 252 LSPIVGNGNVHAQVTAQLDFANKEQTEEHYSPNGDASKATLRSRQLNISEQVGAGYPGGV 311

		

		Query: 304 -------------------------EQNIPQEQIQNRNGESSTEKTDRREELTNYEVNSK 338

		                                     QN PQ      N  S+  ++ +R E +NYEV+  

		Sbjct: 312 PGALSNQPAPPNEAPIATPPTNQQNAQNTPQTSTST-NSNSAGPRSTQRNETSNYEVDRT 370

		

		Query: 339 TVSTVSDGYSIKRLSIAVVIDQARLLQTAGTTPPPANFVDQQITKIRDLVATAAGLNTNR 398

		              T  +   I+RLS+AVV++   L   A   P P      Q+ +I DL   A G +  R

		Sbjct: 371 IRHTKMNVGDIERLSVAVVVNYKTL---ADGKPLP--LTADQMKQIEDLTREAMGFSDKR 425

		

		Query: 399 GDVINVTAVNF--LDPAGADMEPVSAPW--TDTLLRQSGSYANALAILAAVGLLIWFGLR 454

		           GD +NV    F  +D  G ++     P+    + + Q  +    L +L    +L    +R

		Sbjct: 426 GDTLNVVNSPFSAVDNTGGEL-----PFWQQQSFIDQLLAAGRWLLVLVVAWILWRKAVR 480

		

		Query: 455 PLL--RDQNVKPAGTEVAIREAGEVATPNFIGGAESVGEGVQAVIGGPAAYADQMKTSLS 512

		           P L  R +  K A  +  +R+  E A    +   E                       L 

		Sbjct: 481 PQLTRRVEEAKAAQEQAQVRQETEEAVEVRLSKDE----------------------QLQ 518

		

		Query: 513 DLRQRMRMPAKL---RLEQMIEMDEERVAAVLKQWI 545

		             R   R+ A++   R+ +M + D   VA V++QW+

		Sbjct: 519 QRRANQRLGAEVMSQRIREMSDNDPRVVALVIRQWM 554

		

		

		>FLAGELLIN#Flagellin signature.

		          Length = 507

		

		 Score = 79.7 bits (196), Expect = 5e-19

		 Identities = 45/227 (19%), Positives = 83/227 (36%), Gaps = 7/227 (3%)

		

		Query: 4   ILTNSSALTALQTLASTNKSLESTQNRISTGLRISEASDNASYWSIATSMKSDNKANSAV 63

		           I TNS +L     L  +  SL S   R+S+GLRI+ A D+A+  +IA    S+ K  +  

		Sbjct: 4   INTNSLSLLTQNNLNKSQSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGLTQA 63

		

		Query: 64  QDALGLGAGKVDTAYSAINKIRESVDDIKTKLVSAMGA--STEDKGKIETEIKSIVANIN 121

		                 G     T   A+N+I  ++  ++   V A     S  D   I+ EI+  +  I+

		Sbjct: 64  SRNANDGISIAQTTEGALNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLEEID 123

		

		Query: 122 SALSNANYAGSNLLNGPTTDLNVVASYNRSGNAVTVDKITVKATDTDAKTMVKDIVDAGF 181

		              +   + G  +L+        V +     N      I ++  D  +  +    V+   

		Sbjct: 124 RVSNQTQFNGVKVLSQDNQMKIQVGA-----NDGETITIDLQKIDVKSLGLDGFNVNGPK 178

		

		Query: 182 FTSASDDTAIGTALNTVETALASLATGAATLGAAKSQIDSQKSFLSA 228

		             +  D  +    +   +T           + +     D+    +  

		Sbjct: 179 EATVGDLKSSFKNVTGYDTYAVGANKYRVDVNSGAVVTDTTAPTVPD 225

		

		

		>PERTACTIN#Pertactin signature.

		          Length = 922

		

		 Score = 59.7 bits (144), Expect = 2e-10

		 Identities = 88/384 (22%), Positives = 134/384 (34%), Gaps = 45/384 (11%)

		

		Query: 2979 DTLLTNRLVIDGDTAGTTQVSVTNRGGLGAQTVEGIKIIQVGGASNGMFLLAGDYMFNGE 3038

		            D  L+++LV+  D +G  ++ V N G     +   + ++Q    S   F LA     N +

		Sbjct: 487  DLGLSDKLVVMRDASGQHRLWVRNSGS-EPASGNTMLLVQTPRGSAATFTLA-----NKD 540

		

		Query: 3039 QAVVAGAYGYRLYKGGVSTPADGNWYLRSALL----NPETPTNPTDPETPLYQPGVPLYE 3094

		              V  G Y YRL   G     +G W L  A       P     P     P   P  P   

		Sbjct: 541  GKVDIGTYRYRLAANG-----NGQWSLVGAKAPPAPKPAPQPGPQPGPQPPQPPQPPQPP 595

		

		Query: 3095 SYAGSLQQLNKLGTLQQRVGNRVWAKHPVPAQNDENGAGPS------------------- 3135

		                  Q+  +    Q   G  + A           G   +                   

		Sbjct: 596  QPPQPPQRQPEAPAPQPPAGRELSAAANAAVNTGGVGLASTLWYAESNALSKRLGELRLN 655

		

		Query: 3136 -GNNGIWARIEAAHAEFDPKQSTSRASYDADIWKFQTGIDGMFAETASGKFIGGVYVQYG 3194

		                G W R  A   + D +       +D  +  F+ G D   A       +GG+    G

		Sbjct: 656  PDAGGAWGRGFAQRQQLDNRAGRR---FDQKVAGFELGADHAVAVAGGRWHLGGLA---G 709

		

		Query: 3195 TVSSSVSSPFGNGSIESSGYGAGATLTWYGESDFYIDGVAQINWFDSDLNSATLGRQLVD 3254

		                      G+G   +     G   T+   S FY+D   + +  ++D   A      V 

		Sbjct: 710  YTRGDRGFT-GDGGGHTDSVHVGGYATYIANSGFYLDATLRASRLENDFKVAGSDGYAVK 768

		

		Query: 3255 GN-RAVGYSLSVETGQKIEIGEGWSLTPQAQLAYSAIRFDDFKDAFDTSVSPENDHDLTG 3313

		            G  R  G  +S+E G++    +GW L PQA+LA   +    ++ A    V  E    + G

		Sbjct: 769  GKYRTHGVGVSLEAGRRFAHADGWFLEPQAELAVFRVGGGAYRAANGLRVRDEGGSSVLG 828

		

		Query: 3314 RLGLAINRDAEWLDAQGRRVAMHI 3337

		            RLGL + +  E   A GR+V  +I

		Sbjct: 829  RLGLEVGKRIEL--AGGRQVQPYI 850

		

		

		>LIPPROTEIN48#Mycoplasma P48 major surface lipoprotein signature.

		          Length = 428

		

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

		 Identities = 60/268 (22%), Positives = 99/268 (36%), Gaps = 37/268 (13%)

		

		Query: 36  IMLIVNGTLGDKSFFDSAANGMKMIKDKYGDEVETRILEIGDDPTKWEPVLLDASEQDWD 95

		           +++   G + DKSF  SA   +K I  + G E+    +E   +        L A  + W 

		Sbjct: 65  VLITDEGKIDDKSFNQSAFEALKAINKQTGIEINN--VEPSSNFESAYNSALSAGHKIW- 121

		

		Query: 96  LIIAGTYQMAETVGSVAQQYPDK------KYILYDASVPYEEGGYDNVYSIQYKQNEGSY 149

		            ++ G          +   + ++      K I  D  +  E   Y   YS+Q+   E ++

		Sbjct: 122 -VLNGFKHQQSIKQYI-DAHREELERNQIKIIGIDFDIETE---YKWFYSLQFNIKESAF 176

		

		Query: 150 LGGLLAASLLKEGKLGDGAKNLGFLGGMDIPVINDFLVGYIAGA---QSVIPDAKI---- 202

		             G   AS L E    +  + +   GG   P +  F  G+  G          +KI    

		Sbjct: 177 TTGYAIASWLSEQD--ESKRVVASFGGGAFPGVTTFNEGFAKGILYYNQKHKSSKIYHTS 234

		

		Query: 203 AVSYAGSFMDAAKGKEL-------GLAQYRSGVSLGFVVASQTGLGQLSAAKETGKYVLG 255

		            V     F    K   +         A  +    +   VA       +  A + G+YV+G

		Sbjct: 235 PVKLDSGFTAGEKMNTVINNVLSSTPADVKYNPHVILSVAGPATFETVRLANK-GQYVIG 293

		

		Query: 256 VDSDQEAIFKDSDPAIAKQVVSSVLKNI 283

		           VDSDQ  I          ++++SVLK+I

		Sbjct: 294 VDSDQGMIQD------KDRILTSVLKHI 315

		

		

		>ENTSNTHTASED#Enterobactin synthetase component D signature.

		          Length = 234

		

		 Score = 97.0 bits (241), Expect = 1e-26

		 Identities = 66/207 (31%), Positives = 102/207 (49%), Gaps = 12/207 (5%)

		

		Query: 35  FVMARYSASKPLIDPSIPAPARAAPRRKAEFVAGQACAREALRLAGGPAVMPGRGDDHAP 94

		           F  + +     L  P       A  +RKAE +AG+  A  ALR  G   V PG GD   P

		Sbjct: 20  FDASSFREHDLLWLPHHDRLRSAGRKRKAEHLAGRIAAVHALREVGVRTV-PGMGDKRQP 78

		

		Query: 95  IWPPGMVGSISHSKGCAIAVAARQSRYLGLGIDIERLQTESSARKIAPQILGESELRQLP 154

		           +WP G+ GSISH    A+AV +RQ     +GIDIE++ ++ +A ++AP I+   E + L 

		Sbjct: 79  LWPDGLFGSISHCATTALAVISRQR----IGIDIEKIMSQHTATELAPSIIDSDERQILQ 134

		

		Query: 155 EAGRAFLVS--LAFSAKESLFKALYPAVQQFQSFHAAAFSFDGDRQQACLELAVDWSAQW 212

		            +   F ++  LAFSAKES++KA +        F++A  +       +   L    +   

		Sbjct: 135 ASLLPFPLALTLAFSAKESVYKA-FSDRVTLPGFNSAKVTSLTATHISLHLLPAFAATMA 193

		

		Query: 213 RRGQRFPIRFFCRDGFILTCTAIAAIS 239

		            R       +F RD  ++  T ++AI+

		Sbjct: 194 ER--TVRTEWFQRDNSVI--TLVSAIT 216

		

		

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

		           signature.

		          Length = 261

		

		 Score =  258 bits (660), Expect = 8e-89

		 Identities = 114/254 (44%), Positives = 153/254 (60%), Gaps = 12/254 (4%)

		

		Query: 15  GKRVIVTGAAQGIGRRVAERFLAEGATVIGLD-----------RQAGEADAPFRLIRLDI 63

		           GK   +TGAAQGIG  VA    ++GA +  +D               EA         D+

		Sbjct: 8   GKIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAF-PADV 66

		

		Query: 64  TDAAEVRAVSDGLKAEGKPLDILVNVAGVLKLGNSDRLSAEDWKTCMDVNASGPFHLLSQ 123

		            D+A +  ++  ++ E  P+DILVNVAGVL+ G    LS E+W+    VN++G F+    

		Sbjct: 67  RDSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGVFNASRS 126

		

		Query: 124 WVPVFRDQRHGAIVNVASNAAHVPRLNMAAYCASKAALASFSHCVALELAPYGVRCNVVS 183

		                 D+R G+IV V SN A VPR +MAAY +SKAA   F+ C+ LELA Y +RCN+VS

		Sbjct: 127 VSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCNIVS 186

		

		Query: 184 PGSTRTAMLGAMLNDPSGEAQLVRGLPEQFKLGIPLGKIAMPDDIANVILFLASDQAGHV 243

		           PGST T M  ++  D +G  Q+++G  E FK GIPL K+A P DIA+ +LFL S QAGH+

		Sbjct: 187 PGSTETDMQWSLWADENGAEQVIKGSLETFKTGIPLKKLAKPSDIADAVLFLVSGQAGHI 246

		

		Query: 244 TMQDIVVDGGATLG 257

		           TM ++ VDGGATLG

		Sbjct: 247 TMHNLCVDGGATLG 260

		

		

		>ISCHRISMTASE#Isochorismatase signature.

		          Length = 312

		

		 Score =  336 bits (863), Expect = e-118

		 Identities = 138/302 (45%), Positives = 188/302 (62%), Gaps = 18/302 (5%)

		

		Query: 1   MAIPKIADYPMPQKAGFPANKTNWQPDPARAVLLIHDMQRYFLRFYDANGPLMGDLIGNL 60

		           MAIP I  Y MP  +  P NK +W PDP RAVLLIHDMQ YF+  + A    + +L  N+

		Sbjct: 1   MAIPAIQPYQMPTASDMPQNKVSWVPDPNRAVLLIHDMQNYFVDAFTAGASPVTELSANI 60

		

		Query: 61  VRLRNWAHENGVPVVYTAQPHEQPAGDRALLNDMWGPGLPAAAPEQQLIVDKLTPGATDT 120

		            +L+N   + G+PVVYTAQP  Q   DRALL D WGPGL  + P ++ I+ +L P   D 

		Sbjct: 61  RKLKNQCVQLGIPVVYTAQPGSQNPDDRALLTDFWGPGL-NSGPYEEKIITELAPEDDDL 119

		

		Query: 121 VLAKWRYSAFQRSDLLQRMKDWNRDQLIIGGIYAHIGCMVTAIDAFMNDIQPFMVGDAVA 180

		           VL KWRYSAF+R++LL+ M+   RDQLII GIYAHIGC+VTA +AFM DI+ F VGDAVA

		Sbjct: 120 VLTKWRYSAFKRTNLLEMMRKEGRDQLIITGIYAHIGCLVTACEAFMEDIKAFFVGDAVA 179

		

		Query: 181 DFSEEEHRLALKYVATRCGAVIDTASLIRK----------------PATETTRDWLQKRV 224

		           DFS E+H++AL+Y A RC   + T SL+ +                     T + ++K++

		Sbjct: 180 DFSLEKHQMALEYAAGRCAFTVMTDSLLDQLQNAPADVQKTSANTGKKNVFTCENIRKQI 239

		

		Query: 225 LELI-EDETELDPQENLILYGLDSLQVMKLSAELKERGVAVGFDDLARVPTLAAWWDLIE 283

		            EL+ E   ++  QE+L+  GLDS+++M L  + +  G  V F +LA  PT+  W  L+ 

		Sbjct: 240 AELLQETPEDITDQEDLLDRGLDSVRIMTLVEQWRREGAEVTFVELAERPTIEEWQKLLT 299

		

		Query: 284 TK 285

		           T+

		Sbjct: 300 TR 301

		

		

		>OMPADOMAIN#OMPA domain signature.

		          Length = 346

		

		 Score = 51.5 bits (123), Expect = 2e-10

		 Identities = 32/144 (22%), Positives = 56/144 (38%), Gaps = 21/144 (14%)

		

		Query: 47  FPQEPTAQATMWPARPPKQTVS--------VYFPQDVTVFRPTSAQ-INQLHTLLWPV-P 96

		           F Q   A        P  +  +        V F  +    +P     ++QL++ L  + P

		Sbjct: 191 FGQGEAAPVVAPAPAPAPEVQTKHFTLKSDVLFNFNKATLKPEGQAALDQLYSQLSNLDP 250

		

		Query: 97  KH--INVRGLTDNNCPPPGDTQVARVRALAIYNWLINQGVPASRI-TISYAPVKDYASN- 152

		           K   + V G TD       +  ++  RA ++ ++LI++G+PA +I             N 

		Sbjct: 251 KDGSVVVLGYTDRIGSDAYNQGLSERRAQSVVDYLISKGIPADKISARGMGESNPVTGNT 310

		

		Query: 153 -------APLSPGRVLNRRVDIEI 169

		                  A L      +RRV+IE+

		Sbjct: 311 CDNVKQRAALIDCLAPDRRVEIEV 334

		

		

		>PF03544#Gram-negative bacterial tonB protein

		          Length = 243

		

		 Score = 39.2 bits (91), Expect = 1e-05

		 Identities = 26/122 (21%), Positives = 33/122 (27%), Gaps = 1/122 (0%)

		

		Query: 33  VLLFLFVVGFIVVLLLLLVFHMRGN-AENNHHSDKTMVQTSTVPMRTFKLPPPPPPAPPE 91

		            LL + + G +V  LL    H              TMV  + +       PPP P   PE

		Sbjct: 18  TLLSVCIHGAVVAGLLYTSVHQVIELPAPAQPISVTMVAPADLEPPQAVQPPPEPVVEPE 77

		

		Query: 92  PPAPPPAPAMPIAEPAAAALSLPPLPDDTPAKDDVLDKSASALMVVTKSSGDTNAQTTNA 151

		           P   P       A          P P   P K     K     +    +S   N      

		Sbjct: 78  PEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKVEQPKRDVKPVESRPASPFENTAPARP 137

		

		Query: 152 RI 153

		             

		Sbjct: 138 TS 139

		

		

		>TYPE4SSCAGX#Type IV secretion system CagX conjugation protein

		           signature.

		          Length = 522

		

		 Score = 50.9 bits (121), Expect = 2e-09

		 Identities = 47/197 (23%), Positives = 72/197 (36%), Gaps = 58/197 (29%)

		

		Query: 93  SHSNQSIDMAPEPGKWDTNLMVTTDQRMYDFDLRLMPGRNNQRVAYRVQFRYPAAAAAAA 152

		           S  + SI+++P    W TNL+V T++ +Y F LR+    N       V+  YP     ++

		Sbjct: 262 SPEDNSIELSPSDSAWRTNLVVRTNKALYQFILRIAQKDNFASAYLTVKLEYPQRHEVSS 321

		

		Query: 153 V----------AAAQKRVV-QARMNA---------------------------------- 167

		           V          A  Q+ ++ Q  +N                                   

		Sbjct: 322 VIEEELKKREEAKRQRELIKQENLNTTAYINRVMMASNEQIINKEKIREEKQKIILDQAK 381

		

		Query: 168 -----------RPSPVNWNYTMQVG--TNSASIAPTLAYDDGRFTYLRFPNNRDFPAAFL 214

		                      + +PV  NY         S  I P+  +DDG FTY  F N    PA F+

		Sbjct: 382 ALETQYVHNALKRNPVPRNYNYYQAPEKRSKHIMPSEIFDDGTFTYFGFKNITLQPAIFV 441

		

		Query: 215 VAEDKSESIVNSHIDPS 231

		           V  D   S+ ++ IDP+

		Sbjct: 442 VQPDGKLSMTDAAIDPN 458

		

		

		>PF04335#VirB8 type IV secretion protein

		          Length = 227

		

		 Score =  215 bits (550), Expect = 6e-73

		 Identities = 58/217 (26%), Positives = 104/217 (47%), Gaps = 7/217 (3%)

		

		Query: 23  YDEALNWEAAHVRLIEKSERRAWKIAGAFGTITVLLGIGIAGMLPLKQHVPYLVRVNAQT 82

		           ++EA +WE   +   E+S++ AW +AG  G +     + +A + PLK   PY++ V+  T

		Sbjct: 14  FEEAASWERDKLAAAERSKKLAWVVAGVAGALATAGVVAVAALTPLKTVEPYVITVDRNT 73

		

		Query: 83  GAPDILTSLD-EKSVSYDTVMDKYWLSQYVIARETYDWYTLQKDYETVGMLSSPSEGQSY 141

		           G   I   L  + +++YD  + KY+L+ YV  RE +     ++ ++ V ++S+  E   +

		Sbjct: 74  GEASIAAKLHGDATITYDEAVRKYFLATYVRYREGWIAAAREEYFDAVMVMSARPEQDRW 133

		

		Query: 142 ASQFQGD--KALDKQYGSNVRTSVTIVSIVPNGKGIGTVRFAKTTKRTNETGDGETTHWI 199

		           +  ++ D  ++      +     V I  +   G  +  V F K +   + +     T  +

		Sbjct: 134 SRFYKTDNPQSPQNILANRTDVFVEIKRVSFLGGNVAQVYFTKESVTGSNS---TKTDAV 190

		

		Query: 200 ATIGYQYVNPSLMSESARLTNPLGFNVTSYRVDPEMG 236

		           ATI Y+        E  R  NPLG+ V SYR D E+ 

		Sbjct: 191 ATIKYKVDGTP-SKEVDRFKNPLGYQVESYRADVEVP 226

		

		

		>CHANLCOLICIN#Channel forming colicin signature.

		          Length = 522

		

		 Score = 32.0 bits (72), Expect = 0.004

		 Identities = 16/31 (51%), Positives = 19/31 (61%), Gaps = 2/31 (6%)

		

		Query: 305 SGSSGGGGSGSAKAGGESSYSAGGNAMWSPA 335

		           SGS GGGG G +K+  ESS +    A WS A

		Sbjct: 32  SGSGGGGGKGGSKS--ESSAAIHATAKWSTA 60

		

		

		>PHAGEIV#Gene IV protein signature.

		          Length = 426

		

		 Score = 27.6 bits (61), Expect = 0.049

		 Identities = 7/57 (12%), Positives = 15/57 (26%)

		

		Query: 134 TGGFKTKPGSPSYVQKVVASADVTTKPIAVVPMIRKTPDAAAAVAAPVKKRQPADRN 190

		              F      PS +QK   +       +          ++A +    V +     + 

		Sbjct: 78  ANNFDMVGSIPSIIQKYNPNNQDYIDELPSSDNQEYDDNSAPSGGFFVPQNDNVTQT 134

		

		

		>TCRTETB#Tetracycline resistance protein TetB signature.

		          Length = 458

		

		 Score =  103 bits (259), Expect = 6e-26

		 Identities = 73/402 (18%), Positives = 148/402 (36%), Gaps = 19/402 (4%)

		

		Query: 36  FMAILDIQIVSASLSEIQAGLGASTDEISWVQTSYLIAEVIMIPLSGFLGRLLSTRVLFT 95

		           F ++L+  +++ SL +I           +WV T++++   I   + G L   L  + L  

		Sbjct: 24  FFSVLNEMVLNVSLPDIANDFNKPPASTNWVNTAFMLTFSIGTAVYGKLSDQLGIKRLLL 83

		

		Query: 96  ISAAGFTLASMLCATA-TNIEQMIVYRAIQGFIGGGMIPSVFAAAFTIF-PPSKRSIVSP 153

		                    S++     +    +I+ R IQG  G    P++       + P   R     

		Sbjct: 84  FGIIINCFGSVIGFVGHSFFSLLIMARFIQG-AGAAAFPALVMVVVARYIPKENRGKAFG 142

		

		Query: 154 MIGLVATLAPTIGPTIGGYLSHAFSWHWLFLVNVGPGILVTIAAWNLIDFDEGDLSLLDK 213

		           +IG +  +   +GP IGG ++H   W +L L+   P I + I    L+   + ++ +   

		Sbjct: 143 LIGSIVAMGEGVGPAIGGMIAHYIHWSYLLLI---PMITI-ITVPFLMKLLKKEVRIKGH 198

		

		Query: 214 FDWWGLFGMAAFLGSLEYVLEEGPRNDWLQDHTIFIMSIILTIGAIVFFYRVFTAEQPIV 273

		           FD  G+  M+  +                         I+  +  ++F   +     P V

		Sbjct: 199 FDIKGIILMSVGIVFFMLFTTS---YSIS-------FLIVSVLSFLIFVKHIRKVTDPFV 248

		

		Query: 274 DFRAFRNMNFAFGSLFSFVMGVGLYGLTYLYPLYLSMIRGYDALMIGEA-LFVSGLAMFF 332

		           D    +N+ F  G L   ++   + G   + P  +  +       IG   +F   +++  

		Sbjct: 249 DPGLGKNIPFMIGVLCGGIIFGTVAGFVSMVPYMMKDVHQLSTAEIGSVIIFPGTMSVII 308

		

		Query: 333 TAPVAGFLSNRMDPRLMMMIGFVGFAIGTWLVTGLTADWDFNELLMPQILRGCSLMLCMV 392

		              + G L +R  P  ++ IG    ++  +L      +     + +  +     L     

		Sbjct: 309 FGYIGGILVDRRGPLYVLNIGVTFLSVS-FLTASFLLETTSWFMTIIIVFVLGGLSFTKT 367

		

		Query: 393 PINNLALGTLPPSLMKNASGLFNLTRNLGGAVGLAVINTILT 434

		            I+ +   +L          L N T  L    G+A++  +L+

		Sbjct: 368 VISTIVSSSLKQQEAGAGMSLLNFTSFLSEGTGIAIVGGLLS 409

		

		

		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D

		           signature.

		          Length = 478

		

		 Score =  110 bits (276), Expect = 2e-28

		 Identities = 62/413 (15%), Positives = 127/413 (30%), Gaps = 89/413 (21%)

		

		Query: 69  RVVLPSLVAVAAIGALWYGYNWWTVGRFMVSTDDAYVQGDIASIAPKVTGYIENIPVAAN 128

		           R+V   ++    I  +        V     +       G    I P     ++ I V   

		Sbjct: 58  RLVAYFIMGFLVIAFILSV--LGQVEIVATANGKLTHSGRSKEIKPIENSIVKEIIVKEG 115

		

		Query: 129 QQVKAGDVIFQLDAGDYQIALDEANAKLATQ----------------------------- 159

		           + V+ GDV+ +L A   +    +  + L                                

		Sbjct: 116 ESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELKLPDEPY 175

		

		Query: 160 ----------------KETLIRIQAQTDAAKAALLQANADQQAAKAVLLNAQST------ 197

		                           KE     Q Q    +  L +  A++    A +   ++       

		Sbjct: 176 FQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYENLSRVEKS 235

		

		Query: 198 -MARVQKLHETRFV-------AQSELDNAQSALDQARARLAGADAQIASAKANISVLEAQ 249

		            +     L   + +        +++   A + L   +++L   +++I SAK    ++   

		Sbjct: 236 RLDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQL 295

		

		Query: 250 Y--------NEAASSTKSLELARDKAARDLSFTSLRALFDGVIGNLS-GKKGDLVAPGQK 300

		           +         +   +   L L   K       + +RA     +  L    +G +V   + 

		Sbjct: 296 FKNEILDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAET 355

		

		Query: 301 IAALVPVDQ-LYIDANFKETQLAHIKVGETAHIYVDAIDGTKF---DGKVASIAPASGAV 356

		           +  +VP D  L + A  +   +  I VG+ A I V+A   T++    GKV +I   +   

		Sbjct: 356 LMVIVPEDDTLEVTALVQNKDIGFINVGQNAIIKVEAFPYTRYGYLVGKVKNINLDA--- 412

		

		Query: 357 FSLLPPENATGNFTKVVQRVPVRITIPKEAFESGK---IRAGLSVIVDVDTRT 406

		                 +   G    V+  +              K   + +G++V  ++ T  

		Sbjct: 413 ----IEDQRLGLVFNVIISIEE-----NCLSTGNKNIPLSSGMAVTAEIKTGM 456

		

		

		>HTHTETR#TetR bacterial regulatory protein HTH signature.

		          Length = 215

		

		 Score = 75.8 bits (186), Expect = 7e-19

		 Identities = 34/155 (21%), Positives = 65/155 (41%), Gaps = 9/155 (5%)

		

		Query: 54  RSQILEGAQSVFLRMGFDAASMNDITREAGVSKGTIYVYFNSKEDLFVALCEHYRQTLFS 113

		           R  IL+ A  +F + G  + S+ +I + AGV++G IY +F  K DLF  + E     +  

		Sbjct: 13  RQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWELSESNIGE 72

		

		Query: 114 SFIGQLEKGFSNRQELIDFGVALTTLITSSIAIRAQRIVVGVSERKPELA------ARFY 167

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

		Sbjct: 73  LELEYQAKFPGDPLSV--LREILIHVLESTVTEERRRLLMEIIFHKCEFVGEMAVVQQAQ 130

		

		Query: 168 ERGPKRSHAIMAQSLQAMIDAGVL-EQHDVTRTAY 201

		                 S+  + Q+L+  I+A +L       R A 

		Sbjct: 131 RNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAI 165

		

		

		>TYPE3IMSPROT#Type III secretion system inner membrane S protein

		           family signature.

		          Length = 354

		

		 Score =  288 bits (738), Expect = 8e-98

		 Identities = 95/344 (27%), Positives = 164/344 (47%), Gaps = 9/344 (2%)

		

		Query: 10  KTEEATEQKIRDALDKGNMPFSREAPILAGIASFLVIAVFVAAPAATRLA---VFLRELI 66

		           KTE+ T +KIRDA  KG +  S+E    A I +   + + ++       +   +   E  

		Sbjct: 5   KTEQPTPKKIRDARKKGQVAKSKEVVSTALIVALSAMLMGLSDYYFEHFSKLMLIPAEQS 64

		

		Query: 67  DRPEDWLLNSAEDATRLFSVLALAVGAALVPVFIIIPLAGIAASAFQNAPRFVGERIRPQ 126

		             P    L      + +   + L       P+  +  L  IA+   Q      GE I+P 

		Sbjct: 65  YLPFSQAL------SYVVDNVLLEFFYLCFPLLTVAALMAIASHVVQYGFLISGEAIKPD 118

		

		Query: 127 ASRISPLKGWQRIFGRAGQVEFLKSLAKLLAASVIVFLVFFKGNSLFTDAVATDPGALPE 186

		             +I+P++G +RIF     VEFLKS+ K++  S++++++                  +  

		Sbjct: 119 IKKINPIEGAKRIFSIKSLVEFLKSILKVVLLSILIWIIIKGNLVTLLQLPTCGIECITP 178

		

		Query: 187 FLRKNVVRLLVANVLAIAAIAGFDLAWSRIHWRQELRMTRQEVKDELKQSEGDPLVKSRL 246

		            L + + +L+V   +    I+  D A+    + +EL+M++ E+K E K+ EG P +KS+ 

		Sbjct: 179 LLGQILRQLMVICTVGFVVISIADYAFEYYQYIKELKMSKDEIKREYKEMEGSPEIKSKR 238

		

		Query: 247 RSLGRDRARRRMINAVPTATLIVANPTHFSVALRYKPNEDAAPVVVAKGQDLIALKIREI 306

		           R   ++   R M   V  ++++VANPTH ++ + YK  E   P+V  K  D     +R+I

		Sbjct: 239 RQFHQEIQSRNMRENVKRSSVVVANPTHIAIGILYKRGETPLPLVTFKYTDAQVQTVRKI 298

		

		Query: 307 AASHSIPVFEDVQLARALYKQVNVDQMIAPEFYKAVAELIRIIN 350

		           A    +P+ + + LARALY    VD  I  E  +A AE++R + 

		Sbjct: 299 AEEEGVPILQRIPLARALYWDALVDHYIPAEQIEATAEVLRWLE 342

		

		

		>FLGMOTORFLIG#Flagellar motor switch protein FliG signature.

		          Length = 344

		

		 Score =  190 bits (484), Expect = 6e-60

		 Identities = 80/330 (24%), Positives = 158/330 (47%), Gaps = 13/330 (3%)

		

		Query: 22  VDTLTGPQKAAAILVAIGRPAAARLLKHFNAEDLRKLAGHARTLEPISPLDFEQLVKQFE 81

		           V  LTG QKAA +LV+IG   ++++ K+ + E++  L      LE I+    + ++ +F+

		Sbjct: 12  VSALTGKQKAAILLVSIGSEISSKVFKYLSQEEIESLTFEIAKLETITSELKDNVLLEFK 71

		

		Query: 82  DLF-AEGAPVSEAAQRFEGLLRDTLPQEEVDAVLEDRVQPQLVQESVWIQVARLPMESLQ 140

		           +L  A+             LL  +L  ++   ++ +      +Q   +  V R    ++ 

		Sbjct: 72  ELMMAQEFIQKGGIDYARELLEKSLGTQKAVDIINNLGSA--LQSRPFEFVRRADPANIL 129

		

		Query: 141 AYLGNQHPQIIAYIVSRLPSDLAARLFVALPPQLRNAVVQRSLHIGNVAPAAAELLEDVL 200

		            ++  +HPQ IA I+S L    A+ +  +LP +++  V +R   +   +P     +E VL

		Sbjct: 130 NFIQQEHPQTIALILSYLDPQKASFILSSLPTEVQTNVARRIALMDRTSPEVVREVERVL 189

		

		Query: 201 RRDL-----LGRSDAGPLKAHHGQIANIFNQLDRSEMEELMASLQDLNRDDLNRIKAKLF 255

		            + L        + AG +      +  I N  DR   + ++ SL++ + +    IK K+F

		Sbjct: 190 EKKLASLSSEDYTSAGGVDN----VVEIINMADRKTEKFIIESLEEEDPELAEEIKKKMF 245

		

		Query: 256 TFEDIERLSQRARLLLFDEVQTEQIATALREADPKLQELVLSSLSARGRRMVESELSAEQ 315

		            FEDI  L  R+   +  E+  +++A AL+  D  +QE +  ++S R   M++ ++    

		Sbjct: 246 VFEDIVLLDDRSIQRVLREIDGQELAKALKSVDIPVQEKIFKNMSKRAASMLKEDMEF-L 304

		

		Query: 316 GNITSQNIAEARRIIARIAIDLSERGIITL 345

		           G    +++ E+++ I  +   L E+G I +

		Sbjct: 305 GPTRRKDVEESQQKIVSLIRKLEEQGEIVI 334

		

		

		>FLGMOTORFLIN#Flagellar motor switch protein FliN signature.

		          Length = 137

		

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

		 Identities = 37/84 (44%), Positives = 59/84 (70%), Gaps = 3/84 (3%)

		

		Query: 32  SASKPNLDLIMGIPVDVQVVLGGTTMPVSSLMKLGRGAVITLDKQIGDPVDIVVNGRVIA 91

		           S +  ++DLIM IPV + V LG T M +  L++L +G+V+ LD   G+P+DI++NG +IA

		Sbjct: 48  SGAMQDIDLIMDIPVKLTVELGRTRMTIKELLRLTQGSVVALDGLAGEPLDILINGYLIA 107

		

		Query: 92  RGEVIVLEDDSSRFGVSLTEIIGK 115

		           +GEV+V+ D   ++GV +T+II  

		Sbjct: 108 QGEVVVVAD---KYGVRITDIITP 128

		

		

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

		          Length = 1541

		

		 Score = 28.1 bits (62), Expect = 0.015

		 Identities = 12/66 (18%), Positives = 29/66 (43%), Gaps = 1/66 (1%)

		

		Query: 68   AKLDARLAETQRVRREMDEAIEELNRLRKALSRDMRQARILAETPPPRQEKTPSAAEQPL 127

		            A+  +   ETQ    +    +E+  + +    +     ++ ++   P+QE++ +   Q  

		Sbjct: 1086 AQSGSETKETQTTETKETATVEKEEKAKVETEKTQEVPKVTSQV-SPKQEQSETVQPQAE 1144

		

		Query: 128  PADKNA 133

		            PA +N 

		Sbjct: 1145 PAREND 1150

		

		

		>FLGHOOKAP1#Flagellar hook-associated protein signature.

		          Length = 546

		

		 Score = 31.1 bits (70), Expect = 0.004

		 Identities = 5/33 (15%), Positives = 18/33 (54%)

		

		Query: 3  NNSIYVGLSSLITLERRMDAIAHNVANASTVGF 35

		          ++ I   +S L   +  ++  ++N+++ +  G+

		Sbjct: 1  SSLINNAMSGLNAAQAALNTASNNISSYNVAGY 33

		

		

		>FLGHOOKAP1#Flagellar hook-associated protein signature.

		          Length = 546

		

		 Score = 31.1 bits (70), Expect = 0.001

		 Identities = 10/38 (26%), Positives = 20/38 (52%)

		

		Query: 99  NVNMVVEMADMREANRSYEANLQVVRQARELISMTIDL 136

		            VN+  E  +++   + Y AN QV++ A  +    I++

		Sbjct: 508 GVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALINI 545

		

		

		>FLGHOOKFLIE#Flagellar hook-basal body complex protein FliE

		           signature.

		          Length = 103

		

		 Score = 35.4 bits (81), Expect = 9e-06

		 Identities = 22/81 (27%), Positives = 36/81 (44%), Gaps = 2/81 (2%)

		

		Query: 33  QAVPAAPGASFGEVLSQMTGSVSQKLQAAEATSIQGIKG--DAPVRDVVSSVMEAEQSLQ 90

		           Q     P  SF   L      +S    AA   + +   G     + DV++ + +A  S+Q

		Sbjct: 23  QESLPQPTISFAGQLHAALDRISDTQTAARTQAEKFTLGEPGVALNDVMTDMQKASVSMQ 82

		

		Query: 91  TVIAIRDKIVQAYLEISRMPI 111

		             I +R+K+V AY E+  M +

		Sbjct: 83  MGIQVRNKLVAAYQEVMSMQV 103

		

		

		>FLGHOOKAP1#Flagellar hook-associated protein signature.

		          Length = 546

		

		 Score = 42.6 bits (100), Expect = 9e-07

		 Identities = 10/45 (22%), Positives = 21/45 (46%)

		

		Query: 213 SIKQGYLEASNVDPVKEITDLITAQRAYEMNSKVIQAADEMAATV 257

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

		Sbjct: 498 QLSNQQQSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDAL 542

		

		

		

		 Score = 39.2 bits (91), Expect = 1e-05

		 Identities = 21/85 (24%), Positives = 33/85 (38%), Gaps = 15/85 (17%)

		

		Query: 4  LTIAATGMNAQQLNLEVIANNIANINTTGFKRARAEFTDLLYQSERTAGVPNQANQAIVP 63

		          +  A +G+NA Q  L   +NNI++ N  G+ R            + T      +      

		Sbjct: 4  INNAMSGLNAAQAALNTASNNISSYNVAGYTR------------QTTIMAQANSTLG--- 48

		

		Query: 64 EGALVGLGVQTAAVRNLHIQGSFNQ 88

		           G  VG GV  + V+  +     NQ

		Sbjct: 49 AGGWVGNGVYVSGVQREYDAFITNQ 73

		

		

		>FLGLRINGFLGH#Flagellar L-ring protein signature.

		          Length = 232

		

		 Score =  188 bits (479), Expect = 4e-62

		 Identities = 67/248 (27%), Positives = 102/248 (41%), Gaps = 27/248 (10%)

		

		Query: 2   KNSMNKAILAVAMVLLLAGCA---TKPEEIG-----RAPDLSPVAAHLGMQNNPQFNGYP 53

		           KN+ +   ++  +VL L GCA   + P   G       P  +PVA     Q+  Q   Y 

		Sbjct: 3   KNAAHTYAISSLLVLSLTGCAWIPSTPLVQGATSAQPVPGPTPVANGSIFQS-AQPINYG 61

		

		Query: 54  ARPGKASYSLWDQRSTNFFKDPRAATPGDVLTVIISINDRANLDNKTDRERVSKGIYGGG 113

		            +P               F+D R    GD LT+++  N  A+  +  +  R  K     G

		Sbjct: 62  YQP--------------LFEDRRPRNIGDTLTIVLQENVSASKSSSANASRDGKT--NFG 105

		

		Query: 114 GSFAASSITGAAAGGDMDASVNTHSDSKSKGKGTIERSEDIRLQIAAIVTDTLPNGNLII 173

		                  + G        A V     +   GKG    S      +   V   L NGNL +

		Sbjct: 106 FDTVPRYLQGLFGNAR--ADVEASGGNTFNGKGGANASNTFSGTLTVTVDQVLVNGNLHV 163

		

		Query: 174 RGSQEVRVNNELRVLNVAGVVRPRDISGNNTISYDKIAEARISYGGRGRLSEIQQPPYGQ 233

		            G +++ +N     +  +GVV PR ISG+NT+   ++A+ARI Y G G ++E Q   + Q

		Sbjct: 164 VGEKQIAINQGTEFIRFSGVVNPRTISGSNTVPSTQVADARIEYVGNGYINEAQNMGWLQ 223

		

		Query: 234 QILDQFSP 241

		           +     SP

		Sbjct: 224 RFFLNLSP 231

		

		

		>FLGBIOSNFLIP#Escherichia coli: Flagellar biosynthetic protein FliP

		           signature.

		          Length = 245

		

		 Score =  248 bits (636), Expect = 1e-85

		 Identities = 100/234 (42%), Positives = 149/234 (63%), Gaps = 3/234 (1%)

		

		Query: 13  LALTVSAQAQQALPLDKLLPAGSGAASGQIVQLFGLLTVLSIAPGLLIMVTSFTRFAIAF 72

		           L L       Q   +      G G +    VQ    +T L+  P +L+M+TSFTR  I F

		Sbjct: 12  LWLITPLAFAQLPGITSQPLPGGGQSWSLPVQTLVFITSLTFIPAILLMMTSFTRIIIVF 71

		

		Query: 73  SLLRSGLGLQTAPASMVMISLALFMTFYVMAPAFDRAWNNGVQPLMRNEITQEAAFGEIS 132

		            LLR+ LG  +AP + V++ LALF+TF++M+P  D+ + +  QP    +I+ + A  + +

		Sbjct: 72  GLLRNALGTPSAPPNQVLLGLALFLTFFIMSPVIDKIYVDAYQPFSEEKISMQEALEKGA 131

		

		Query: 133 QPFREFMMAQVRDKDLRLFEDLAD-PSFRTSDDGIVDFRVLVPAFMISELRRGFEIGFLI 191

		           QP REFM+ Q R+ DL LF  LA+    +  +   V  R+L+PA++ SEL+  F+IGF I

		Sbjct: 132 QPLREFMLRQTREADLGLFARLANTGPLQGPEA--VPMRILLPAYVTSELKTAFQIGFTI 189

		

		Query: 192 VLPFLVIDLVVATLTMSMGMMMLPPTVISLPFKILFFVLIDGWNILVGSLIRSF 245

		            +PFL+IDLV+A++ M++GMMM+PP  I+LPFK++ FVL+DGW +LVGSL +SF

		Sbjct: 190 FIPFLIIDLVIASVLMALGMMMVPPATIALPFKLMLFVLVDGWQLLVGSLAQSF 243

		

		

		>CHANLCOLICIN#Channel forming colicin signature.

		          Length = 522

		

		 Score = 35.8 bits (82), Expect = 6e-04

		 Identities = 36/162 (22%), Positives = 61/162 (37%), Gaps = 12/162 (7%)

		

		Query: 234 SGATCDGAEYGDCRRNRRSIHRAGKAANRQALKNNNEAPAMTEILASPAIQNLRNEEARV 293

		           SG+   G + G    +  +IH   K +  Q  K   E  A  +  A    +   N +A  

		Sbjct: 32  SGSGGGGGKGGSKSESSAAIHATAKWSTAQLKKTQAEQAARAKAAAEAQAKAKANRDALT 91

		

		Query: 294 QRHLD----ELKANGALKSAEIPVLMAERESLKQQITA--------QVDEIIKSLSNEIR 341

		           QR  D     L+ N +   +   +  A   +++ +           +  +  ++     +

		Sbjct: 92  QRLKDIVNEALRHNASRTPSATELAHANNAAMQAEDERLRLAKAEEKARKEAEAAEKAFQ 151

		

		Query: 342 IAVQRRTSLEKELKEAETDLAKANQAQVRAAQLDREANASRV 383

		            A QRR  +E+E  E E  L  A   + R A L  EA A  +

		Sbjct: 152 EAEQRRKEIEREKAETERQLKLAEAEEKRLAALSEEAKAVEI 193

		

		

		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D

		           signature.

		          Length = 478

		

		 Score = 74.1 bits (182), Expect = 2e-16

		 Identities = 25/213 (11%), Positives = 73/213 (34%), Gaps = 7/213 (3%)

		

		Query: 151 VTAGMQLI-----SAQQEYADLQMQITAQTIRRARFEAELKGTDFTYAVPEQTAANKDMV 205

		           V  G  L+      A+ +    Q  +    + + R++   +  +       +        

		Sbjct: 118 VRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELKLPDEPYFQ 177

		

		Query: 206 ALTRHMVEGERTLFDVRRNNLAAERRALEAQAASYGDEITTLQQSIKLHDTEIQLLQENV 265

		            ++   V    +L   + +    ++   E        E  T+   I  ++   ++ +  +

		Sbjct: 178 NVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYENLSRVEKSRL 237

		

		Query: 266 NSSKSLVDRGLAAKSSLRDMERDLSSTRRDALELASFLARARQNQLAVEQRIANLDETRR 325

		           +   SL+ +   AK ++ + E        +     S L +     L+ ++    + +  +

		Sbjct: 238 DDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQLFK 297

		

		Query: 326 SEAASSLQEIDLNMA--RMQRRSNSQLEAMAEI 356

		           +E    L++   N+    ++   N + +  + I

		Sbjct: 298 NEILDKLRQTTDNIGLLTLELAKNEERQQASVI 330

		

		

		>NUCEPIMERASE#Nucleotide sugar epimerase signature.

		          Length = 334

		

		 Score = 79.8 bits (197), Expect = 5e-19

		 Identities = 71/352 (20%), Positives = 130/352 (36%), Gaps = 72/352 (20%)

		

		Query: 19  KIFVAGHTGMVGSAILRRLQHED-----CDIITAAHSVL-------------------DL 54

		           K  V G  G +G  + +RL          D +   + V                    DL

		Sbjct: 2   KYLVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLKQARLELLAQPGFQFHKIDL 61

		

		Query: 55  T-RQGPTENFISGHRPDVIIIAAARVGGILANSRFPADFLYDNLAIGMNLIHAAHQIGVE 113

		             R+G T+ F SGH  + + I+  R   +  +   P  +   NL   +N++       ++

		Sbjct: 62  ADREGMTDLFASGH-FERVFISPHR-LAVRYSLENPHAYADSNLTGFLNILEGCRHNKIQ 119

		

		Query: 114 RLLWLGSSCIYPRDAAQPLTEDALLTGPLEPTNEAYAIAKIAGLKYAQSCARQF-----G 168

		            LL+  SS +Y  +   P + D  +  P+      YA  K A    A + +  +     G

		Sbjct: 120 HLLYASSSSVYGLNRKMPFSTDDSVDHPVSL----YAATKKANELMAHTYSHLYGLPATG 175

		

		Query: 169 DRFITAMPTNLYGPNDNFDPTSSHVLPALIRRVHEARMRGAEEVVLWGSGKPLREFLHVD 228

		            RF T     +YGP    D      L    + + E      + + ++  GK  R+F ++D

		Sbjct: 176 LRFFT-----VYGPWGRPD----MALFKFTKAMLE-----GKSIDVYNYGKMKRDFTYID 221

		

		Query: 229 DLADACLHLL------------------RFYNGIEPVNIGSGEEISIKELALTVARIVGY 270

		           D+A+A + L                            NIG+   + + +    +   +G 

		Sbjct: 222 DIAEAIIRLQDVIPHADTQWTVETGTPAASIAPYRVYNIGNSSPVELMDYIQALEDALGI 281

		

		Query: 271 EGRFEHDLSKPDGTPRKLLDTSRI-EALGWQPRIHLEDGLR---DVYRNWLE 318

		           E +      +P        DT  + E +G+ P   ++DG++   + YR++ +

		Sbjct: 282 EAKKNMLPLQPGDVLETSADTKALYEVIGFTPETTVKDGVKNFVNWYRDFYK 333

		

		

		>NUCEPIMERASE#Nucleotide sugar epimerase signature.

		          Length = 334

		

		 Score = 86.0 bits (213), Expect = 5e-21

		 Identities = 68/354 (19%), Positives = 126/354 (35%), Gaps = 50/354 (14%)

		

		Query: 7   LFVGVTGQDGAYLSELLLGKGYRVHGLKRRSSSFNMARIDHLYQDPHEEDIRFRLHFGDL 66

		           L  G  G  G ++S+ LL  G++V G+   +  ++++      +   +   +F  H  DL

		Sbjct: 4   LVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLKQARLELLAQPGFQF--HKIDL 61

		

		Query: 67  TDATNLCRVIQEVQPDEIYNLGAQSHVQVSFETPEYTANADALGTLRLLESMRILGLGKS 126

		            D   +  +      + ++    +  V+ S E P   A+++  G L +LE  R   +   

		Sbjct: 62  ADREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFLNILEGCRHNKIQ-- 119

		

		Query: 127 CRFYQASTSELFGNSSHHAQNEQTPFA-------PRSPYATAKLYAYWTTVNYRDAYGFH 179

		                AS+S ++G       N + PF+       P S YA  K         Y   YG  

		Sbjct: 120 -HLLYASSSSVYGL------NRKMPFSTDDSVDHPVSLYAATKKANELMAHTYSHLYGLP 172

		

		Query: 180 ASNGILFNHESPLRGETFVTRKITRAVA---AIERGLQDRLRLGNLEARRDWGHARDYVE 236

		           A+    F    P         K T+A+    +I+            + +RD+ +  D  E

		Sbjct: 173 ATGLRFFTVYGPWGRPDMALFKFTKAMLEGKSID-------VYNYGKMKRDFTYIDDIAE 225

		

		Query: 237 GMWRILQEDTPDDYVLATGETHTVREFIEHAFKAVDKQIVWHGDG--------VDEVGID 288

		            + R+         V+   +T    E    A      ++   G+         +    ++

		Sbjct: 226 AIIRLQD-------VIPHADTQWTVETGTPAASIAPYRVYNIGNSSPVELMDYIQA--LE 276

		

		Query: 289 RKTGNCLIEIDPRY--FRPNEVDFLMGDASKAKDRLGWQHTTGFENLVAEMVDW 340

		              G   IE        +P +V     D     + +G+   T  ++ V   V+W

		Sbjct: 277 DALG---IEAKKNMLPLQPGDVLETSADTKALYEVIGFTPETTVKDGVKNFVNW 327

		

		

		>OMPADOMAIN#OMPA domain signature.

		          Length = 346

		

		 Score = 49.5 bits (118), Expect = 3e-09

		 Identities = 52/250 (20%), Positives = 87/250 (34%), Gaps = 69/250 (27%)

		

		Query: 1   MK--SVILASIAAMFATSAMAADVVVSEPSAPTAAPVDTFSWTGGYIGINAGYAGGKFKH 58

		           MK  ++ +A   A FAT A              AAP D   +TG  +G  + Y    F +

		Sbjct: 1   MKKTAIAIAVALAGFATVA-------------QAAPKDNTWYTGAKLG-WSQYHDTGFIN 46

		

		Query: 59  PFSSFDKEDGEHVSGSPDVTAGGFVG-------GVQAGYNWQLDNGVVLGAETDFQGLSV 111

		                 +           + AG F G       G + GY+W                +  

		Sbjct: 47  NNGPTHENQ---------LGAGAFGGYQVNPYVGFEMGYDW-------------LGRMPY 84

		

		Query: 112 TGSISAGASSLEGNAETKVEWFGTVRARLGYTATERLMVYGTGGLAYGKVKSAFNLGDDA 171

		            GS+  GA   +G           + A+LGY  T+ L +Y   G    +  +  N+    

		Sbjct: 85  KGSVENGAYKAQG---------VQLTAKLGYPITDDLDIYTRLGGMVWRADTKSNVYGK- 134

		

		Query: 172 PALHTWSDKTKAGWTLGAGAEYAINNNWTLKSEYLYT-DLGKRNLVDVDNSFLESKVNFH 230

		                 +  T        G EYAI      + EY +T ++G  + +         + +  

		Sbjct: 135 ------NHDTGVSPVFAGGVEYAITPEIATRLEYQWTNNIGDAHTIGT-------RPDNG 181

		

		Query: 231 TVRVGLNYKF 240

		            + +G++Y+F

		Sbjct: 182 MLSLGVSYRF 191

		

		

		>HTHTETR#TetR bacterial regulatory protein HTH signature.

		          Length = 215

		

		 Score = 71.6 bits (175), Expect = 2e-17

		 Identities = 29/179 (16%), Positives = 60/179 (33%), Gaps = 13/179 (7%)

		

		Query: 9   PPQASLSSEQTRKALIVAALRLFGAKGYEATSTREIASLAKANIGSIAYHFGGKEGLRLA 68

		             +    +++TR+ ++  ALRLF  +G  +TS  EIA  A    G+I +HF  K  L   

		Sbjct: 2   ARKTKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSE 61

		

		Query: 69  AADYIVETFRLIAAQALGNFQPAGFSREEREDARAQMISALERMVHFIVARPETGEIVQF 128

		             +        +  +    F           D  + +   L  ++   V       +++ 

		Sbjct: 62  IWELSESNIGELELEYQAKF---------PGDPLSVLREILIHVLESTVTEERRRLLMEI 112

		

		Query: 129 LLRELAHPTAA--LDRIYKGVFEPVHKRLCMIWEAA--TGEAAESEATRLVVFTLVGQI 183

		           +  +         + +  + +    + R+    +             TR     + G I

		Sbjct: 113 IFHKCEFVGEMAVVQQAQRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYI 171

		

		

		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D

		           signature.

		          Length = 478

		

		 Score = 58.7 bits (142), Expect = 9e-12

		 Identities = 21/131 (16%), Positives = 47/131 (35%), Gaps = 5/131 (3%)

		

		Query: 27  VEGEFVQLAPLQVAQVRDIAVKRGDRVEAGEPIATVEDTDARIAVAQAEAALAQAQAQLA 86

		             G   ++ P++ + V++I VK G+ V  G+ +  +    A     + +++L QA+ +  

		Sbjct: 92  HSGRSKEIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQT 151

		

		Query: 87  NLQVGKRPEEIAVLEAAVRSARAQADDAQRTLLRTRDLARRGVATQAQLDDAATQLEVAE 146

		             Q+         +E          D+     +   ++ R     + Q      Q    E

		Sbjct: 152 RYQI-----LSRSIELNKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKE 206

		

		Query: 147 AAIGQSTANLA 157

		             + +  A   

		Sbjct: 207 LNLDKKRAERL 217

		

		

		

		 Score = 44.8 bits (106), Expect = 3e-07

		 Identities = 27/257 (10%), Positives = 79/257 (30%), Gaps = 25/257 (9%)

		

		Query: 67  ARIAVAQAEAALAQAQAQLANLQVGKRPEEIAVLEAAVR---SARAQADDAQRTLLR-TR 122

		             +   +AE     A+              +    + +     A+    + +   +    

		Sbjct: 207 LNLDKKRAERLTVLARINRYENLSRVEKSRLDDFSSLLHKQAIAKHAVLEQENKYVEAVN 266

		

		Query: 123 DLARRGVATQAQLDDAATQLEVAEAAIGQSTANLAVGKLPARPEEIKAAENAVKSAEAQL 182

		           +L       ++QL+   +++  A+      T       L    ++++   + +     +L

		Sbjct: 267 ELR----VYKSQLEQIESEILSAKEEYQLVTQLFKNEIL----DKLRQTTDNIGLLTLEL 318

		

		Query: 183 QTAKWQRAQRTIEAPAAGRITDV-VRNPGDIAGPSAPVLTMLPDGAVKL-KVYIPEERFS 240

		              + ++    I AP + ++  + V   G +   +  ++ ++P+         +  +   

		Sbjct: 319 AKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAETLMVIVPEDDTLEVTALVQNKDIG 378

		

		Query: 241 DVAVGSVLSVHCDG----CAPGLQARVSYVSPD---PEFTPPVIYSLETRQKLVYLVEAH 293

		            + VG    +  +         L  +V  ++ D    +    V   +         +   

		Sbjct: 379 FINVGQNAIIKVEAFPYTRYGYLVGKVKNINLDAIEDQRLGLVFNVI--ISIEENCLSTG 436

		

		Query: 294 PVDPASPLQPGQIVDVD 310

		             +   PL  G  V  +

		Sbjct: 437 --NKNIPLSSGMAVTAE 451

		

		

		>ABC2TRNSPORT#ABC-2 type transport system membrane protein

		           signature.

		          Length = 262

		

		 Score = 48.8 bits (116), Expect = 9e-09

		 Identities = 46/173 (26%), Positives = 76/173 (43%), Gaps = 8/173 (4%)

		

		Query: 206 ALTRETERGTMENLLAMPATPAEIMLGKIL---PYLAVGGVQMVLVAAKLIFGVPFVGSL 262

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

		Sbjct: 90  AFGRMEGQRTWEAMLYTQLRLGDIVLGEMAWAATKAALAGAGIGVVAAAL--GYTQWLSL 147

		

		Query: 263 TLLLSSVLIFVLSLALLGYTISTVSRTQMQAMQLTFFFFLPSLMLSGFMFPFRGMPDWAQ 322

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

		Sbjct: 148 LYALPVIALTGLAFASLGMVVTALAPSYDYFIFYQTLVITPILFLSGAVFPVDQLPIVFQ 207

		

		Query: 323 ALGNIFPLTYFLRIVRAVMLKGAGLADIAGEVMALILF--VFLFAGLALLRFR 373

		                 PL++ + ++R +ML      D+   V AL ++  +  F   ALLR R

		Sbjct: 208 TAARFLPLSHSIDLIRPIMLGHPV-VDVCQHVGALCIYIVIPFFLSTALLRRR 259

		

		

		>PF05272#Virulence-associated E family protein

		          Length = 892

		

		 Score = 28.5 bits (63), Expect = 0.035

		 Identities = 11/20 (55%), Positives = 13/20 (65%)

		

		Query: 33  LIGPSGCGKSTLLRFLGGLE 52

		           L G  G GKSTL+  L GL+

		Sbjct: 601 LEGTGGIGKSTLINTLVGLD 620

		

		

		>TCRTETB#Tetracycline resistance protein TetB signature.

		          Length = 458

		

		 Score = 41.4 bits (97), Expect = 7e-06

		 Identities = 37/200 (18%), Positives = 71/200 (35%), Gaps = 12/200 (6%)

		

		Query: 57  IQGSLGATLTETTWLVAAYMAPFASLTILLLKIRTQFGLRRFAEVAIAVFLVASLLHLLV 116

		           I          T W+  A+M  F+  T +  K+  Q G++R     I +    S++  + 

		Sbjct: 40  IANDFNKPPASTNWVNTAFMLTFSIGTAVYGKLSDQLGIKRLLLFGIIINCFGSVIGFVG 99

		

		Query: 117 YDVWS-AIPVRFI--AGAAAVPISSVGVLYMLEAFPPDKKRTWGLSLALTCSGAAGPFAR 173

		           +  +S  I  RFI  AGAAA P   + V   +  + P + R     L  +          

		Sbjct: 100 HSFFSLLIMARFIQGAGAAAFPALVMVV---VARYIPKENRGKAFGLIGSIVAMGEGVGP 156

		

		Query: 174 IISPMLFDIGQWQQLYMLEIGLALACFAVVYVLPLTQIPRAKVLHWLDFVAYTFIAIGFG 233

		            I  M+     W  L ++ +   +    ++ +L        ++    D      +++G  

		Sbjct: 157 AIGGMIAHYIHWSYLLLIPMITIITVPFLMKLLK----KEVRIKGHFDIKGIILMSVGI- 211

		

		Query: 234 ALVVVLVQGKNYWWFEAPWI 253

		            +  +L        F    +

		Sbjct: 212 -VFFMLFTTSYSISFLIVSV 230

		

		

		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D

		           signature.

		          Length = 478

		

		 Score =  104 bits (260), Expect = 8e-27

		 Identities = 63/414 (15%), Positives = 130/414 (31%), Gaps = 85/414 (20%)

		

		Query: 3   VSKKYIRGGFAILIGLLGVFIILWAWQLPPFKHSVETTDNAYVRGQVTVMSPQVSGYITK 62

		           VS++     + I+  L+  F  + +  L   +            G+   + P  +  + +

		Sbjct: 53  VSRRPRLVAYFIMGFLVIAF--ILSV-LGQVEIVATANGKLTHSGRSKEIKPIENSIVKE 109

		

		Query: 63  VNVTDYEQVKKGDLLFEID------------SRSYQQKLDQA------------------ 92

		           + V + E V+KGD+L ++             S   Q +L+Q                   

		Sbjct: 110 IIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELK 169

		

		Query: 93  ----------------------LAALDSKKAALANSEQSQRSAEATIKAREAQISGAKAA 130

		                                      + +      E +     A      A+I+  +  

		Sbjct: 170 LPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYENL 229

		

		Query: 131 LEVAKANTVRVDTLLPRG-------VTTQSSADTAHGNMLQAQAAVDQAEAALAVAKEDL 183

		             V K+      +LL +        +  ++    A   +   ++ ++Q E+ +  AKE+ 

		Sbjct: 230 SRVEKSRLDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEY 289

		

		Query: 184 --------RTIIVAREGLNADLHNAEAAVALARIDLQNTKILAPRDGKLGEVGVR-LGQY 234

		                     I+        ++      +A      Q + I AP   K+ ++ V   G  

		Sbjct: 290 QLVTQLFKNEILDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGV 349

		

		Query: 235 VTAGTQLVSLVP--AVKWIMANFKETQLYGMKVGQPVTLTVDAL---RHAELKGHIEAFS 289

		           VT    L+ +VP      + A  +   +  + VGQ   + V+A    R+  L G ++  +

		Sbjct: 350 VTTAETLMVIVPEDDTLEVTALVQNKDIGFINVGQNAIIKVEAFPYTRYGYLVGKVKNIN 409

		

		Query: 290 PATGSEFSVIKSDNATGNFTKITQRLSVRISIDEGQPDAELLAPGMSVVVRVDT 343

		                       D   G    +   +         +     L+ GM+V   + T

		Sbjct: 410 LDA-------IEDQRLGLVFNVIISIEENCLSTGNKN--IPLSSGMAVTAEIKT 454

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 94.9 bits (236), Expect = 1e-24

		 Identities = 40/138 (28%), Positives = 66/138 (47%), Gaps = 3/138 (2%)

		

		Query: 4   GAHILIVDDDKDIRDLLHEFLKRRGMHVSIACNGDEMLDVLSRTPIDLVILDVMLPGKSG 63

		           GA IL+ DDD  IR +L++ L R G  V I  N   +   ++    DLV+ DV++P ++ 

		Sbjct: 3   GATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENA 62

		

		Query: 64  IEICQDVR-RTSRVPIIMLTAIADAADKILGLEIGADDYIAKPFDPRELLARIRAVLRRF 122

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

		Sbjct: 63  FDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEP 122

		

		Query: 123 EGNRSPQRALTQIYRFAG 140

		           +  R P +          

		Sbjct: 123 K--RRPSKLEDDSQDGMP 138

		

		

		>ACRIFLAVINRP#Acriflavin resistance protein family signature.

		          Length = 1034

		

		 Score =  460 bits (1186), Expect = e-147

		 Identities = 229/1043 (21%), Positives = 432/1043 (41%), Gaps = 61/1043 (5%)

		

		Query: 7    LSDWALNHRSLVWYFMLVFLVAGLVSYLDLGREEDPEFTVKTMVVQANWPGASIDETLNQ 66

		            ++++ +      W   ++ ++AG ++ L L   + P      + V AN+PGA      + 

		Sbjct: 1    MANFFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDT 60

		

		Query: 67   VTDRLEKKLEELDTLDYTRSVTT-AGKSVVFVFLKDTTRAQDVKKSWTEVRHLLTDIQNT 125

		            VT  +E+ +  +D L Y  S +  AG   + +  +  T   D   +  +V++ L      

		Sbjct: 61   VTQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGT---DPDIAQVQVQNKLQLATPL 117

		

		Query: 126  LPQGVYGPY-FNDQFGDVFGNIYAFTADGLSMRQ--LRDYAED-VRTKILTIPNAGKVEL 181

		            LPQ V       ++    +  +  F +D     Q  + DY    V+  +  +   G V+L

		Sbjct: 118  LPQEVQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQL 177

		

		Query: 182  IGAQDEAIYLEFSTRQVAALGLDQQAILKALQDQNAITPSGVVQAGPE------RISVRV 235

		             GAQ  A+ +      +    L    ++  L+ QN    +G +   P         S+  

		Sbjct: 178  FGAQ-YAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIA 236

		

		Query: 236  SGQFNSEADLRAVNLRVNN--RFFRLSDVATITRGYVDPPTSIFRVNGEDAIGLGIGMKP 293

		              +F +  +   V LRVN+     RL DVA +  G  +    I R+NG+ A GLGI +  

		Sbjct: 237  QTRFKNPEEFGKVTLRVNSDGSVVRLKDVARVELG-GENYNVIARINGKPAAGLGIKLAT 295

		

		Query: 294  NGNLLEFGAELDKMMDQVTAELPVGVKVFKVADQPQVVKEAVSGFTQALFEAVVIVLAVS 353

		              N L+    +   + ++    P G+KV    D    V+ ++    + LFEA+++V  V 

		Sbjct: 296  GANALDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVM 355

		

		Query: 354  FVSLG-LRAGFVVSLSIPLVLAITFLSMSLMDISLQRVSLGALIIALGLLVDDAMIAVEM 412

		            ++ L  +RA  + ++++P+VL  TF  ++    S+  +++  +++A+GLLVDDA++ VE 

		Sbjct: 356  YLFLQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVEN 415

		

		Query: 413  MV-ARLEHGDPINKAATYVYSHTAFPMLTGTLVTIAGFIPIGLNNSQAGEYTFTLFVVIA 471

		            +    +E   P  +A     S     ++   +V  A FIP+       G       + I 

		Sbjct: 416  VERVMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIV 475

		

		Query: 472  VSLLVSWVVAVLFAPLLGVTFLPKKMKPHEEKRSRFFEAFSRVLLLSM-----------R 520

		             ++ +S +VA++  P L  T L      H E +  FF  F+     S+            

		Sbjct: 476  SAMALSVLVALILTPALCATLLKPVSAEHHENKGGFFGWFNTTFDHSVNHYTNSVGKILG 535

		

		Query: 521  HKWTTIITTIVLFVISVFGMGFIERQFFPQSDRPELVLDWTLPQNSSIADTKAQMERFEE 580

		                 ++   ++    V     +   F P+ D+   +    LP  ++   T+  +++  +

		Sbjct: 536  STGRYLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQVTD 595

		

		Query: 581  TMLKDN-PDVEHWSTYVGQGAIRFVLSFDVQPANPYFGQMVAVARDVEARDRLKAKFEAA 639

		              LK+   +VE   T  G        SF  Q  N     +     +    D   A+    

		Sbjct: 596  YYLKNEKANVESVFTVNG-------FSFSGQAQNAGMAFVSLKPWEERNGDENSAEAVIH 648

		

		Query: 640  -FRKDYVGTDVYVKYLELGPPV---GRPVQYRI-----SGPDVQKLRGIAQDFAGILS-A 689

		              + +              P +   G    +       +G     L        G+ +  

		Sbjct: 649  RAKMELGKIRDGFVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQH 708

		

		Query: 690  DKRLGVVNYNWNEPGRVIRVDVMQDKARKLGISSKDIATTLNGVVGGITITQVRDSIYLI 749

		               L  V  N  E     +++V Q+KA+ LG+S  DI  T++  +GG  +    D   + 

		Sbjct: 709  PASLVSVRPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRVK 768

		

		Query: 750  DVIARAQAHERDSIDTLQSLQVATGNGTSVPLAAIANFRYELEQPVIYRRSRIPTITVAA 809

		             +  +A A  R   + +  L V + NG  VP +A     +    P + R + +P++ +  

		Sbjct: 769  KLYVQADAKFRMLPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEIQG 828

		

		Query: 810  GIIDKTMPDTIARDLGPAIKTFADRLPAGYYIQTAGTVEESGKSQGPIAAVVPLMLFVMA 869

		                   P T + D    ++  A +LPAG      G   +   S     A+V +   V+ 

		Sbjct: 829  EA----APGTSSGDAMALMENLASKLPAGIGYDWTGMSYQERLSGNQAPALVAISFVVVF 884

		

		Query: 870  TVLMVQLQSFQRLFLVVAVAPLGLIGVVAALLPSGKPLGFVAILGVLALIGILIRNSVIL 929

		              L    +S+     V+ V PLG++GV+ A     +      ++G+L  IG+  +N++++

		Sbjct: 885  LCLAALYESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILI 944

		

		Query: 930  IVQVEE-DIQEGLHPWDAVMKASQHRMRPIALTAAAASLALIPIA------REVFWGPMA 982

		            +   ++   +EG    +A + A + R+RPI +T+ A  L ++P+A             + 

		Sbjct: 945  VEFAKDLMEKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQN-AVG 1003

		

		Query: 983  YAMMGGIIAGTAITLLFLPALYV 1005

		              +MGG+++ T + + F+P  +V

		Sbjct: 1004 IGVMGGMVSATLLAIFFVPVFFV 1026

		

		

		

		 Score = 96.8 bits (241), Expect = 2e-22

		 Identities = 89/507 (17%), Positives = 173/507 (34%), Gaps = 34/507 (6%)

		

		Query: 10   WALNHRSLVWYFMLVFLVAGLVSYLDLGREEDPEFTVKTMVVQANWP-GASIDET---LN 65

		              L           + +   +V +L L     PE      +     P GA+ + T   L+

		Sbjct: 532  KILGSTGRYLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLD 591

		

		Query: 66   QVTDRLEKKLEELDTLDYTRS-VTTAGKSV----VFVFLKDTTRAQDVKKSWTEVRHLLT 120

		            QVTD   K  +      +T +  + +G++      FV LK        + S   V H   

		Sbjct: 592  QVTDYYLKNEKANVESVFTVNGFSFSGQAQNAGMAFVSLKPWEERNGDENSAEAVIHRAK 651

		

		Query: 121  DIQNTLPQGVYGPYFNDQFGDVFGNIYAFTADGLSMR-QLRDYAEDVRTKILTIPNAGKV 179

		                 +  G   P FN       G    F  + +       D     R ++L +      

		Sbjct: 652  MELGKIRDGFVIP-FNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQHPA 710

		

		Query: 180  ELIGAQDEA------IYLEFSTRQVAALGLDQQAILKALQDQNAITPSGVVQAGPE--RI 231

		             L+  +           LE    +  ALG+    I + +      T            ++

		Sbjct: 711  SLVSVRPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRVKKL 770

		

		Query: 232  SVRVSGQF-NSEADLRAVNLRVNN-RFFRLSDVATITRGYVDPPTSIFRVNGEDAIGLGI 289

		             V+   +F     D+  + +R  N      S   T    Y      + R NG  ++ +  

		Sbjct: 771  YVQADAKFRMLPEDVDKLYVRSANGEMVPFSAFTTSHWVY--GSPRLERYNGLPSMEIQG 828

		

		Query: 290  GMKPNGNLLEFGAELDKMMDQVTAELPVGVKVFKVADQPQVVKEAVSGFTQALFEAVVIV 349

		               P  +  +  A ++ +  +    LP G+  +         + + +     +  + V+V

		Sbjct: 829  EAAPGTSSGDAMALMENLASK----LPAGIG-YDWTGMSYQERLSGNQAPALVAISFVVV 883

		

		Query: 350  ---LAVSFVSLGLRAGFVVSLSIPLVLAITFLSMSLMDISLQRVSLGALIIALGLLVDDA 406

		               LA  + S        V L +PL +    L+ +L +       +  L+  +GL   +A

		Sbjct: 884  FLCLAALYESW--SIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNA 941

		

		Query: 407  MIAVEMMVARLEH-GDPINKAATYVYSHTAFPMLTGTLVTIAGFIPIGLNNSQAGEYTFT 465

		            ++ VE     +E  G  + +A          P+L  +L  I G +P+ ++N         

		Sbjct: 942  ILIVEFAKDLMEKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNA 1001

		

		Query: 466  LFVVIAVSLLVSWVVAVLFAPLLGVTF 492

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

		Sbjct: 1002 VGIGVMGGMVSATLLAIFFVPVFFVVI 1028

		

		

		

		 Score = 73.3 bits (180), Expect = 4e-15

		 Identities = 81/524 (15%), Positives = 172/524 (32%), Gaps = 44/524 (8%)

		

		Query: 517  LSMRHKWTTIITTIVLFVISVFGMGFIERQFFPQSDRPELVLDWTLPQNSSIADTKAQME 576

		              +R      +  I+L +     +  +    +P    P + +    P  +     +  + 

		Sbjct: 4    FFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYP-GADAQTVQDTVT 62

		

		Query: 577  RFEETMLKDNPDVEH-WSTYVGQGAIRFVLSFDVQPANPYFGQMVAVARDVEARDRLKAK 635

		            +  E  +    ++ +  ST    G++   L+F     +P   Q+    +   A   L  +

		Sbjct: 63   QVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSG-TDPDIAQVQVQNKLQLATPLLPQE 121

		

		Query: 636  FEAAFRKDYVGTDVYVKYLELGPPVGRPVQYRISGPDVQKLRGIAQDFA--GILSADKRL 693

		             +           + V+       +           +    +    D+    +     RL

		Sbjct: 122  VQQ--------QGISVEKSSSSYLM----VAGFVSDNPGTTQDDISDYVASNVKDTLSRL 169

		

		Query: 694  -GVVNYNWNEPGRVIRVDVMQDKARKLGISSKDIATTLNG----VVGGITITQVRDSIYL 748

		             GV +         +R+ +  D   K  ++  D+   L      +  G            

		Sbjct: 170  NGVGDVQLFGAQYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQ 229

		

		Query: 749  IDVIARAQAHERDSIDTLQSLQVATGNGTSVPLAAIANFRYELEQPVIYRRSR-IPTITV 807

		            ++    AQ   ++  +  +       +G+ V L  +A      E   +  R    P   +

		Sbjct: 230  LNASIIAQTRFKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGL 289

		

		Query: 808  AAGIIDKTMPDTIARDLGPAIKTFADRLPAGYYIQ----TAGTVEESGKSQGPIAAVVPL 863

		               +         A+ +   +       P G  +     T   V+ S      I  VV  

		Sbjct: 290  GIKLATGANALDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLS------IHEVVKT 343

		

		Query: 864  MLFVMATVLMVQ---LQSFQRLFLVVAVA-PLGLIGVVAALLPSGKPLGFVAILGVLALI 919

		            +   +  V +V    LQ+  R  L+  +A P+ L+G  A L   G  +  + + G++  I

		Sbjct: 344  LFEAIMLVFLVMYLFLQNM-RATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAI 402

		

		Query: 920  GILIRNSVILIVQVEEDIQE-GLHPWDAVMKASQHRMRPIALTAAAASLALIPIA----- 973

		            G+L+ ++++++  VE  + E  L P +A  K+       +   A   S   IP+A     

		Sbjct: 403  GLLVDDAIVVVENVERVMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGS 462

		

		Query: 974  REVFWGPMAYAMMGGIIAGTAITLLFLPALYVAWFRIKEPEHSP 1017

		                +   +  ++  +     + L+  PAL     +    EH  

		Sbjct: 463  TGAIYRQFSITIVSAMALSVLVALILTPALCATLLKPVSAEHHE 506

		

		

		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D

		           signature.

		          Length = 478

		

		 Score = 61.0 bits (148), Expect = 2e-12

		 Identities = 42/209 (20%), Positives = 77/209 (36%), Gaps = 11/209 (5%)

		

		Query: 80  ERLVDIGQHVEKGQLLARIDDVEQRANMRVAQASMDAAEAQLVQADANFKRQQALLKQGF 139

		            RL D    + K   +A+   +EQ      A   +   ++QL Q ++     +   +   

		Sbjct: 235 SRLDDFSSLLHKQ-AIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQL-V 292

		

		Query: 140 TTRSQYDQADQALRTAQSALSSAQSQLGNARDELSYTELHAPVSGVVTARNIET-GQVVQ 198

		           T   + +  D+ LR     +     +L    +    + + APVS  V    + T G VV 

		Sbjct: 293 TQLFKNEILDK-LRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVT 351

		

		Query: 199 AAQTAFSIA-EDGSRDAIFDVQETLVNHARIGMGVTVALLADPSIEA---EGNIRELSP- 253

		            A+T   I  ED + +    VQ   +    +G    + + A P        G ++ ++  

		Sbjct: 352 TAETLMVIVPEDDTLEVTALVQNKDIGFINVGQNAIIKVEAFPYTRYGYLVGKVKNINLD 411

		

		Query: 254 -VVDAQTGTV-RVKVGIAQATAQMALGAI 280

		            + D + G V  V + I +         I

		Sbjct: 412 AIEDQRLGLVFNVIISIEENCLSTGNKNI 440

		

		

		

		 Score = 45.2 bits (107), Expect = 3e-07

		 Identities = 21/130 (16%), Positives = 48/130 (36%), Gaps = 28/130 (21%)

		

		Query: 74  VNGQVVERLVDIGQHVEKGQLLARIDDVEQRANMRVAQASMDAAEAQLVQ---------- 123

		            N  V E +V  G+ V KG +L ++  +   A+    Q+S+  A  +  +          

		Sbjct: 103 ENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIEL 162

		

		Query: 124 -----------------ADANFKRQQALLKQGFTT-RSQYDQADQALRTAQSALSSAQSQ 165

		                            ++    R  +L+K+ F+T ++Q  Q +  L   ++   +  ++

		Sbjct: 163 NKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLAR 222

		

		Query: 166 LGNARDELSY 175

		           +    +    

		Sbjct: 223 INRYENLSRV 232

		

		

		>OUTRMMBRANEA#Outer membrane protein A signature.

		          Length = 346

		

		 Score = 28.4 bits (63), Expect = 0.030

		 Identities = 33/179 (18%), Positives = 58/179 (32%), Gaps = 45/179 (25%)

		

		Query: 90  ASYGVGVGYRFNDMLRTDLTLDYF-RASINGRTNCPSYVKSSHGLNPVEDNCHYEDNSKA 148

		              G   GY+ N  +  ++  D+  R    G     +Y   + G+            +K 

		Sbjct: 56  LGAGAFGGYQVNPYVGFEMGYDWLGRMPYKGSVENGAY--KAQGVQL---------TAKL 104

		

		Query: 149 SVWTAMANAYVDLPRVGPLTPYLGAGIGAAYVKYDTWKTSEICPTCTLQSDKDGFDSWRF 208

		                        P    L  Y    +G    + DT            +S+  G +    

		Sbjct: 105 G-----------YPITDDLDIY--TRLGGMVWRADT------------KSNVYGKNHDTG 139

		

		Query: 209 AMALMA-GVSYDLTDQLKLDLGYRYLRVNGGNAYGYDEQDRQ------VINQYGQGAGA 260

		              + A GV Y +T ++   L Y++   N G+A+    +         V  ++GQG  A

		Sbjct: 140 VSPVFAGGVEYAITPEIATRLEYQWTN-NIGDAHTIGTRPDNGMLSLGVSYRFGQGEAA 197

		

		

		>ALARACEMASE#Alanine racemase signature.

		          Length = 356

		

		 Score =  251 bits (643), Expect = 7e-83

		 Identities = 106/369 (28%), Positives = 168/369 (45%), Gaps = 22/369 (5%)

		

		Query: 19  TIDLAALRHNYSAIATRIAPTRTAAVVKADAYGLGASRVAPAFYEAGCRDFFVAHLGEAV 78

		           ++DL AL+ N S +       R  +VVKA+AYG G  R+  A        F + +L EA+

		Sbjct: 8   SLDLQALKQNLSIVRQAATHARVWSVVKANAYGHGIERIWSAIGATDG--FALLNLEEAI 65

		

		Query: 79  ALKPFLKPDATLYVLNGLQPGTEAACAREG-ILPVLNSLEQVENWAALATRLGKKLPALL 137

		            L+        L +L G     +     +  +   ++S  Q++  A    RL   L   L

		Sbjct: 66  TLRERGWKGPIL-MLEGFFHAQDLEIYDQHRLTTCVHSNWQLK--ALQNARLKAPLDIYL 122

		

		Query: 138 QFDTGMSRLGLSAKEFDRLLENVTLLSRIDIKFAISHLANGDEPGNAANARQLAKMTALL 197

		           + ++GM+RLG        + + +  ++ +     +SH A  + P   +    +A++    

		Sbjct: 123 KVNSGMNRLGFQPDRVLTVWQQLRAMANVGEMTLMSHFAEAEHPDGISG--AMARIEQAA 180

		

		Query: 198 ARLPKLPAALANSGGTFLGKTYYFDLARPGIALYGIDPERQHDFSDKVAHENKKPKHSIL 257

		             L     +L+NS  T      +FD  RPGI LYG  P          + + +   ++ L

		Sbjct: 181 EGLE-CRRSLSNSAATLWHPEAHFDWVRPGIILYGASP----------SGQWRDIANTGL 229

		

		Query: 258 -PVLPLSARVIQVRDVDKGATVGYGGTYVANGPMRIATIAVGYADGLFRSLSNKGAAFFG 316

		            PV+ LS+ +I V+ +  G  VGYGG Y A    RI  +A GYADG  R           

		Sbjct: 230 RPVMTLSSEIIGVQTLKAGERVGYGGRYTARDEQRIGIVAAGYADGYPRHAPTGTPVLVD 289

		

		Query: 317 DTRLPIIGRVSMDSITLDVTSLPEGTLKLGSLVELIGPHQRLEDVARDCDTIPYEILTAL 376

		             R   +G VSMD + +D+T  P+    +G+ VEL G   +++DVA    T+ YE++ AL

		Sbjct: 290 GVRTMTVGTVSMDMLAVDLTPCPQA--GIGTPVELWGKEIKIDDVAAAAGTVGYELMCAL 347

		

		Query: 377 GNRYARVYV 385

		             R   V V

		Sbjct: 348 ALRVPVVTV 356

		

		

		>FLGFLGJ#Flagellar protein FlgJ signature.

		          Length = 313

		

		 Score = 32.0 bits (72), Expect = 0.001

		 Identities = 15/64 (23%), Positives = 29/64 (45%)

		

		Query: 88  SPAYRKFEAFMLQSFVQSMFTSDTTATFGKGIAGEYWKSMMAEAMANKMADGGGVGIARL 147

		            P  R+ E   +Q  ++SM  +              + SM  + +A +M  G G+G+A +

		Sbjct: 34  RPVARQVEGMFVQMMLKSMRDALPKDGLFSSEHTRLYTSMYDQQIAQQMTAGKGLGLAEM 93

		

		Query: 148 LEEQ 151

		           + +Q

		Sbjct: 94  MVKQ 97

		

		

		>TYPE3IMRPROT#Type III secretion system inner membrane R protein

		           family signature.

		          Length = 261

		

		 Score = 82.5 bits (204), Expect = 5e-21

		 Identities = 51/203 (25%), Positives = 92/203 (45%), Gaps = 4/203 (1%)

		

		Query: 17  LAFCRIGACLMLMPGISSARIPLQVRLFIALACSFAVLPLVLQRIVTAVDAGQPWTLFRL 76

		               R+ A +   P +S   +P +V+L +A+  +FA+ P +    V        W    L

		Sbjct: 18  WPLLRVLALISTAPILSERSVPKRVKLGLAMMITFAIAPSLPANDVPVFSFFALW----L 73

		

		Query: 77  MVGEMFIGALIGILAHIYFWAQQFMANMMAMAVGYSGSPADSITENEPQATLATIVTFSA 136

		            V ++ IG  +G      F A +    ++ + +G S +       +     LA I+   A

		Sbjct: 74  AVQQILIGIALGFTMQFAFAAVRTAGEIIGLQMGLSFATFVDPASHLNMPVLARIMDMLA 133

		

		Query: 137 LFLFFVTDMHLEIFRALLNSYVAIPVDGRFRPDAAMIDFTDALSAAFLATLRIAAPFIVF 196

		           L LF   + HL +   L++++  +P+ G      A +  T A S  FL  L +A P I  

		Sbjct: 134 LLLFLTFNGHLWLISLLVDTFHTLPIGGEPLNSNAFLALTKAGSLIFLNGLMLALPLITL 193

		

		Query: 197 AILVNFAIGLVNKLTPAIPVYFI 219

		            + +N A+GL+N++ P + ++ I

		Sbjct: 194 LLTLNLALGLLNRMAPQLSIFVI 216

		

		

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

		          Length = 539

		

		 Score = 35.4 bits (81), Expect = 7e-04

		 Identities = 20/53 (37%), Positives = 29/53 (54%)

		

		Query: 309 VGIAVPRRQARQREADAAEAGKKQREAEEQERNSVKASLETNQIELCLGKQLS 361

		             I+   RQ+ +R+ DA+   KKQ E   +E NS  A+LE    EL   K+L+

		Sbjct: 374 NKISEASRQSLRRDLDASREAKKQVEKALEEANSKLAALEKLNKELEESKKLT 426

		

		

		

		 Score = 32.7 bits (74), Expect = 0.005

		 Identities = 18/55 (32%), Positives = 27/55 (49%), Gaps = 6/55 (10%)

		

		Query: 316 RQARQREADAAEAGKKQREAEEQERNSVKASLETNQIELCLGKQLSARLIASQEE 370

		           RQ+ +R+ DA+   KKQ EAE Q+        E ++      + L   L AS+E 

		Sbjct: 346 RQSLRRDLDASREAKKQLEAEHQKLEEQNKISEASR------QSLRRDLDASREA 394

		

		

		>TYPE3IMQPROT#Type III secretion system inner membrane Q protein

		          family signature.

		          Length = 86

		

		 Score = 56.7 bits (137), Expect = 1e-14

		 Identities = 23/73 (31%), Positives = 41/73 (56%)

		

		Query: 5  DALDIVNSAIWTVLTASGPAVLAAMLAGIGIALFQALTQIQEMTLTFVPKIIVIFVVLAL 64

		          D +   N A++ VL  SG   + A + G+ + LFQ +TQ+QE TL F  K++ + + L L

		Sbjct: 3  DLVFAGNKALYLVLILSGWPTIVATIIGLLVGLFQTVTQLQEQTLPFGIKLLGVCLCLFL 62

		

		Query: 65 TAPFVGAQINAFT 77

		           + + G  + ++ 

		Sbjct: 63 LSGWYGEVLLSYG 75

		

		

		>FLGHOOKAP1#Flagellar hook-associated protein signature.

		          Length = 546

		

		 Score = 81.5 bits (201), Expect = 1e-18

		 Identities = 105/554 (18%), Positives = 192/554 (34%), Gaps = 105/554 (18%)

		

		Query: 4   SSALLTAKSSLAATSKQTSVVSRNISGAKDADYSRRT---ASLVSGPYGSLYVG------ 54

		           SS +  A S L A     +  S NIS    A Y+R+T   A   S      +VG      

		Sbjct: 1   SSLINNAMSGLNAAQAALNTASNNISSYNVAGYTRQTTIMAQANSTLGAGGWVGNGVYVS 60

		

		Query: 55  -ISRSADEAMFNRYIQSNSAASASSTLADGLDRLSALYSADNYSGSPSGLIGDLRDALQT 113

		            + R  D  + N+   + + +S  +   + + ++  + S    + S +  + D   +LQT

		Sbjct: 61  GVQREYDAFITNQLRAAQTQSSGLTARYEQMSKIDNMLSTS--TSSLATQMQDFFTSLQT 118

		

		Query: 114 YAASPSNSALGDSVVSVAQSLRND--------------ADREIADSVANINDLLAKFEKA 159

		             ++  + A   +++  ++ L N                +  I  SV  IN+   +    

		Sbjct: 119 LVSNAEDPAARQALIGKSEGLVNQFKTTDQYLRDQDKQVNIAIGASVDQINNYAKQIASL 178

		

		Query: 160 NQDV--VGGTRMGRDVSDYLDQRDALLKQLSGEIGITTMMRGDNDMVIFAENGVTLFETT 217

		           N  +  + G   G   ++ LDQRD L+ +L+  +G+   ++      I   NG +L + +

		Sbjct: 179 NDQISRLTGVGAGASPNNLLDQRDQLVSELNQIVGVEVSVQDGGTYNITMANGYSLVQGS 238

		

		Query: 218 ARKVTFEQSAVLTPGVAGKAVT----VDGVPLSHDTFDQPFGTGRLSGLLQLRDQM---- 269

		               T  Q A + P  A  + T    VDG   + +  ++   TG L G+L  R Q     

		Sbjct: 239 ----TARQLAAV-PSSADPSRTTVAYVDGTAGNIEIPEKLLNTGSLGGILTFRSQDLDQT 293

		

		Query: 270 --QLDEIARGLVTVFAESDQTGSSPDQ---TGLFSWSGSPAIPGADLSAGIAGTIEVSVP 324

		              L ++A      F    + G   +       F+  G PA+     + G          

		Sbjct: 294 RNTLGQLALAFAEAFNTQHKAGFDANGDAGEDFFA-IGKPAVLQNTKNKGDVAIGATVTD 352

		

		Query: 325 FIASEGGSALLLRDGGANGANYK--------YNVQGAAGFSDRLR-------ALNEAFSE 369

		             A       +  D                           D L        A+N++F+ 

		Sbjct: 353 ASAVLATDYKISFDNNQWQVTRLASNTTFTVTPDANGKVAFDGLELTFTGTPAVNDSFTL 412

		

		Query: 370 PMVFDAAAGI-----------------------SSSSSLIGYSASSLGWLEGKRQKANSE 406

		             V DA   +                        +  +L+   ++S     G  +  N  

		Sbjct: 413 KPVSDAIVNMDVLITDEAKIAMASEEDAGDSDNRNGQALLDLQSNSK--TVGGAKSFNDA 470

		

		Query: 407 F-----------TYNGTVASQADFALSNAT-------GVDIDTEMALLLDLEHSYQASSR 448

		           +               T ++     ++  +       GV++D E   L   +  Y A+++

		Sbjct: 471 YASLVSDIGNKTATLKTSSATQGNVVTQLSNQQQSISGVNLDEEYGNLQRFQQYYLANAQ 530

		

		Query: 449 VLTTVSAMLDDLLN 462

		           VL T +A+ D L+N

		Sbjct: 531 VLQTANAIFDALIN 544

		

		

		>FLGHOOKAP1#Flagellar hook-associated protein signature.

		          Length = 546

		

		 Score = 41.1 bits (96), Expect = 5e-06

		 Identities = 12/48 (25%), Positives = 27/48 (56%)

		

		Query: 329 IMSGTLEESNADIAQELTDMIEAQRSYTANSKVFQTGSELMDVLVNLK 376

		           + +     S  ++ +E  ++   Q+ Y AN++V QT + + D L+N++

		Sbjct: 499 LSNQQQSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALINIR 546

		

		

		

		 Score = 34.2 bits (78), Expect = 8e-04

		 Identities = 12/33 (36%), Positives = 20/33 (60%)

		

		Query: 9  TGVSGMNAQANRLSTVADNIANASTVGYKRAET 41

		            +SG+NA    L+T ++NI++ +  GY R  T

		Sbjct: 6  NAMSGLNAAQAALNTASNNISSYNVAGYTRQTT 38

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 31.7 bits (72), Expect = 0.002

		 Identities = 25/148 (16%), Positives = 53/148 (35%), Gaps = 10/148 (6%)

		

		Query: 2   IVVVDDRDMVTEGYSSWFGREGITTTGF-TPTDFDEWVESVPEQDIMAIEAFLIGECADQ 60

		           I+V DD   +    +    R G              W+ +    D++  +  +  E  + 

		Sbjct: 6   ILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGD-GDLVVTDVVMPDE--NA 62

		

		Query: 61  HRLPARIRER-CKAPVIAVNDRPSLEHTLELFQFGVDDVVRKPVHVREILARI-NAIRRR 118

		             L  RI++     PV+ ++ + +    ++  + G  D + KP  + E++  I  A+   

		Sbjct: 63  FDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEP 122

		

		Query: 119 AGASATSGADGTQLGPIRVFSDGRDPQI 146

		               +    D     P+     GR   +

		Sbjct: 123 KRRPSKLEDDSQDGMPLV----GRSAAM 146

		

		

		>FLGHOOKFLIK#Flagellar hook-length control protein signature.

		          Length = 375

		

		 Score = 34.4 bits (78), Expect = 7e-04

		 Identities = 28/129 (21%), Positives = 52/129 (40%), Gaps = 15/129 (11%)

		

		Query: 257 KTLQIRLDPVELGTVTARIRVAGDSVEAHLVADKSHAAEMLAADRSMIEKALKVAGVGDD 316

		           ++ ++RL P +LG V   ++V  +  +  +V+   H    L A   ++   L  +G+   

		Sbjct: 257 QSAELRLHPQDLGEVQISLKVDDNQAQIQMVSPHQHVRAALEAALPVLRTQLAESGI--- 313

		

		Query: 317 TKISVTVADRNAQGAAQHVAAAQNAGQQQASAQQQGHQLAFNMQQQGSQGRGGEAQAQFM 376

		                       Q    +++    +GQQQA++QQQ  Q   N +    +          +

		Sbjct: 314 ------------QLGQSNISGESFSGQQQAASQQQQSQRTANHEPLAGEDDDTLPVPVSL 361

		

		Query: 377 SGRSGGEGG 385

		            GR  G  G

		Sbjct: 362 QGRVTGNSG 370

		

		

		>FLGMRINGFLIF#Flagellar M-ring protein signature.

		          Length = 559

		

		 Score =  538 bits (1386), Expect = 0.0

		 Identities = 159/576 (27%), Positives = 252/576 (43%), Gaps = 76/576 (13%)

		

		Query: 9   LGKLGARKLIALGLVGAALMGAILYTSIYLGRPSYETLYVGLSRDDVNRMGLALGEAGIP 68

		           L +L A   I L + G+A +  ++   ++   P Y TL+  LS  D   +   L +  IP

		Sbjct: 16  LNRLRANPRIPLIVAGSAAVAIVVAMVLWAKTPDYRTLFSNLSDQDGGAIVAQLTQMNIP 75

		

		Query: 69  FDVKSDGSSILVPIGKAENARMYLAEKGLPTSNNAGYELFDNMGSLGLTSFMQEITRVRA 128

		           +   +   +I VP  K    R+ LA++GLP     G+EL D     G++ F +++   RA

		Sbjct: 76  YRFANGSGAIEVPADKVHELRLRLAQQGLPKGGAVGFELLDQE-KFGISQFSEQVNYQRA 134

		

		Query: 129 LEGEIARTIQAIRGVKAARVHIVLAEKGSFRRGDQKPSASVVIRAEGGFSAESAQ--SIR 186

		           LEGE+ARTI+ +  VK+ARVH+ + +   F R  + PSASV +  E G + +  Q  ++ 

		Sbjct: 135 LEGELARTIETLGPVKSARVHLAMPKPSLFVREQKSPSASVTVTLEPGRALDEGQISAVV 194

		

		Query: 187 QLVAAAVPSLDASSVTVLDTNGHLLA---SAGEGANGAALMTASLEQQVASHVDDSIRKA 243

		            LV++AV  L   +VT++D +GHLL    ++G   N A L  A+    V S +   I   

		Sbjct: 195 HLVSSAVAGLPPGNVTLVDQSGHLLTQSNTSGRDLNDAQLKFAN---DVESRIQRRIEAI 251

		

		Query: 244 LAPYLGLGHFQTSVQAALDTDRRQTKETTYDPESRVERSVRVVRESGDSRNNRNDNATGV 303

		           L+P +G G+    V A LD   ++  E  Y P     ++    R+   S         GV

		Sbjct: 252 LSPIVGNGNVHAQVTAQLDFANKEQTEEHYSPNGDASKATLRSRQLNISEQVGAGYPGGV 311

		

		Query: 304 -------------------------EQNIPQEQIQNRNGESSTEKTDRREELTNYEVNSK 338

		                                     QN PQ      N  S+  ++ +R E +NYEV+  

		Sbjct: 312 PGALSNQPAPPNEAPIATPPTNQQNAQNTPQTSTST-NSNSAGPRSTQRNETSNYEVDRT 370

		

		Query: 339 TVSTVSDGYSIKRLSIAVVIDQARLLQTAGTTPPPANFVDQQITKIRDLVATAAGLNTNR 398

		              T  +   I+RLS+AVV++   L   A   P P      Q+ +I DL   A G +  R

		Sbjct: 371 IRHTKMNVGDIERLSVAVVVNYKTL---ADGKPLP--LTADQMKQIEDLTREAMGFSDKR 425

		

		Query: 399 GDVINVTAVNF--LDPAGADMEPVSAPW--TDTLLRQSGSYANALAILAAVGLLIWFGLR 454

		           GD +NV    F  +D  G ++     P+    + + Q  +    L +L    +L    +R

		Sbjct: 426 GDTLNVVNSPFSAVDNTGGEL-----PFWQQQSFIDQLLAAGRWLLVLVVAWILWRKAVR 480

		

		Query: 455 PLL--RDQNVKPAGTEVAIREAGEVATPNFIGGAESVGEGVQAVIGGPAAYADQMKTSLS 512

		           P L  R +  K A  +  +R+  E A    +   E                       L 

		Sbjct: 481 PQLTRRVEEAKAAQEQAQVRQETEEAVEVRLSKDE----------------------QLQ 518

		

		Query: 513 DLRQRMRMPAKL---RLEQMIEMDEERVAAVLKQWI 545

		             R   R+ A++   R+ +M + D   VA V++QW+

		Sbjct: 519 QRRANQRLGAEVMSQRIREMSDNDPRVVALVIRQWM 554

		

		

		>FLAGELLIN#Flagellin signature.

		          Length = 507

		

		 Score = 79.7 bits (196), Expect = 5e-19

		 Identities = 45/227 (19%), Positives = 83/227 (36%), Gaps = 7/227 (3%)

		

		Query: 4   ILTNSSALTALQTLASTNKSLESTQNRISTGLRISEASDNASYWSIATSMKSDNKANSAV 63

		           I TNS +L     L  +  SL S   R+S+GLRI+ A D+A+  +IA    S+ K  +  

		Sbjct: 4   INTNSLSLLTQNNLNKSQSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGLTQA 63

		

		Query: 64  QDALGLGAGKVDTAYSAINKIRESVDDIKTKLVSAMGA--STEDKGKIETEIKSIVANIN 121

		                 G     T   A+N+I  ++  ++   V A     S  D   I+ EI+  +  I+

		Sbjct: 64  SRNANDGISIAQTTEGALNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLEEID 123

		

		Query: 122 SALSNANYAGSNLLNGPTTDLNVVASYNRSGNAVTVDKITVKATDTDAKTMVKDIVDAGF 181

		              +   + G  +L+        V +     N      I ++  D  +  +    V+   

		Sbjct: 124 RVSNQTQFNGVKVLSQDNQMKIQVGA-----NDGETITIDLQKIDVKSLGLDGFNVNGPK 178

		

		Query: 182 FTSASDDTAIGTALNTVETALASLATGAATLGAAKSQIDSQKSFLSA 228

		             +  D  +    +   +T           + +     D+    +  

		Sbjct: 179 EATVGDLKSSFKNVTGYDTYAVGANKYRVDVNSGAVVTDTTAPTVPD 225

		

		

		>PERTACTIN#Pertactin signature.

		          Length = 922

		

		 Score = 59.7 bits (144), Expect = 2e-10

		 Identities = 88/384 (22%), Positives = 134/384 (34%), Gaps = 45/384 (11%)

		

		Query: 2979 DTLLTNRLVIDGDTAGTTQVSVTNRGGLGAQTVEGIKIIQVGGASNGMFLLAGDYMFNGE 3038

		            D  L+++LV+  D +G  ++ V N G     +   + ++Q    S   F LA     N +

		Sbjct: 487  DLGLSDKLVVMRDASGQHRLWVRNSGS-EPASGNTMLLVQTPRGSAATFTLA-----NKD 540

		

		Query: 3039 QAVVAGAYGYRLYKGGVSTPADGNWYLRSALL----NPETPTNPTDPETPLYQPGVPLYE 3094

		              V  G Y YRL   G     +G W L  A       P     P     P   P  P   

		Sbjct: 541  GKVDIGTYRYRLAANG-----NGQWSLVGAKAPPAPKPAPQPGPQPGPQPPQPPQPPQPP 595

		

		Query: 3095 SYAGSLQQLNKLGTLQQRVGNRVWAKHPVPAQNDENGAGPS------------------- 3135

		                  Q+  +    Q   G  + A           G   +                   

		Sbjct: 596  QPPQPPQRQPEAPAPQPPAGRELSAAANAAVNTGGVGLASTLWYAESNALSKRLGELRLN 655

		

		Query: 3136 -GNNGIWARIEAAHAEFDPKQSTSRASYDADIWKFQTGIDGMFAETASGKFIGGVYVQYG 3194

		                G W R  A   + D +       +D  +  F+ G D   A       +GG+    G

		Sbjct: 656  PDAGGAWGRGFAQRQQLDNRAGRR---FDQKVAGFELGADHAVAVAGGRWHLGGLA---G 709

		

		Query: 3195 TVSSSVSSPFGNGSIESSGYGAGATLTWYGESDFYIDGVAQINWFDSDLNSATLGRQLVD 3254

		                      G+G   +     G   T+   S FY+D   + +  ++D   A      V 

		Sbjct: 710  YTRGDRGFT-GDGGGHTDSVHVGGYATYIANSGFYLDATLRASRLENDFKVAGSDGYAVK 768

		

		Query: 3255 GN-RAVGYSLSVETGQKIEIGEGWSLTPQAQLAYSAIRFDDFKDAFDTSVSPENDHDLTG 3313

		            G  R  G  +S+E G++    +GW L PQA+LA   +    ++ A    V  E    + G

		Sbjct: 769  GKYRTHGVGVSLEAGRRFAHADGWFLEPQAELAVFRVGGGAYRAANGLRVRDEGGSSVLG 828

		

		Query: 3314 RLGLAINRDAEWLDAQGRRVAMHI 3337

		            RLGL + +  E   A GR+V  +I

		Sbjct: 829  RLGLEVGKRIEL--AGGRQVQPYI 850

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 34.0 bits (78), Expect = 8e-04

		 Identities = 21/97 (21%), Positives = 37/97 (38%), Gaps = 2/97 (2%)

		

		Query: 163 RKLSAHDPMAHMLHALIAKIMATTESDSASQHLRQLMFNATRQAFHSTGESAPLHSLHDS 222

		             ++       +   +    +    + S S  + Q +    RQ F S G++ P   L+D 

		Sbjct: 372 DVITREIIENELRSEIPDSPIEKAAARSGSLSISQAVEENMRQYFASFGDALPPSGLYDR 431

		

		Query: 223 ASKRLQIVDLLIDRHLTETELSARWLATRLGISIRTL 259

		               ++    LI   LT T  +    A  LG++  TL

		Sbjct: 432 VLAEME--YPLILAALTATRGNQIKAADLLGLNRNTL 466