PredictBias

		>BCTERIALGSPC#Bacterial general secretion pathway protein C

		           signature.

		          Length = 272

		

		 Score = 29.5 bits (66), Expect = 0.017

		 Identities = 28/105 (26%), Positives = 48/105 (45%), Gaps = 13/105 (12%)

		

		Query: 1   MVKRVLLALIGLMTFSAHAVVILQYH-HVSETTP-AATSVTPAQFREQMQFLAD-DGFKV 57

		           +++R+L  L  LM      + ++ +   + +  P ++  +TPAQ R+Q   L D   F V

		Sbjct: 13  VIRRILFYL--LMLLFCQQLAMIFWRIGLPDNAPVSSVQITPAQARQQPVTLNDFTLFGV 70

		

		Query: 58  IPLSQVVEAIKQKQ--DLPAKTVAITF------DDGYRSIATTAH 94

		            P      A+   Q  +LP  T+ ++       DD  RSIA  + 

		Sbjct: 71  SPEKNKAGALDASQMSNLPPSTLNLSLTGVMAGDDDSRSIAIISK 115

		

		

		>PF06057#Type IV secretory pathway VirJ component

		          Length = 243

		

		 Score = 27.5 bits (61), Expect = 0.039

		 Identities = 14/42 (33%), Positives = 19/42 (45%), Gaps = 4/42 (9%)

		

		Query: 70  IGFTFCPDVCPTTLNKLAAAYPDLNKIAPLQVVFLSVDPKRD 111

		           IG++F  +V P  LN++ A Y        L  V LS     D

		Sbjct: 122 IGYSFGAEVIPFVLNEMPARYRK----NVLGAVLLSPSQSSD 159

		

		

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

		          Length = 1541

		

		 Score = 69.7 bits (170), Expect = 2e-14

		 Identities = 45/315 (14%), Positives = 95/315 (30%), Gaps = 17/315 (5%)

		

		Query: 4    KGFFSWFRKDKSQDEVVAETPVVTPTQDTEAAERLEQERAEAQRLAVEAEAQAAAAKLAA 63

		             G +  +  +  +     +T  +T   + +A         E      EA     A    +

		Sbjct: 975  NGRYDLYNPEVEKRNQTVDTTNITTPNNIQADVPSVPSNNEEIARVDEAPVPPPAPATPS 1034

		

		Query: 64   EQLAAEQAQAERIVQEQAAIEAQRLAEQQAEAARLAAAQLEAEQLAKVQAERIAQEQAQI 123

		            E     +  AE   QE   +E     EQ A        ++  E  + V+A     E AQ 

		Sbjct: 1035 ET---TETVAENSKQESKTVEKN---EQDATETTAQNREVAKEAKSNVKANTQTNEVAQS 1088

		

		Query: 124  EAQRLAEQQAETARLAAAQLEAEQLAVDKLAAEQAAAEQLAQAQAKAEAERIAQEQAQIE 183

		             ++   ++   T     A +E E+ A  +    Q   +  +Q   K E     Q QA+  

		Sbjct: 1089 GSE--TKETQTTETKETATVEKEEKAKVETEKTQEVPKVTSQVSPKQEQSETVQPQAEPA 1146

		

		Query: 184  AQR----LAEQQAEAARLAAAQLESERLAANNLAQAQAKAEAERIDHEQAQIEAQRLAEQ 239

		             +       ++        A   +  +  ++N+ Q   ++      +   +         

		Sbjct: 1147 RENDPTVNIKEPQSQTNTTADTEQPAKETSSNVEQPVTESTTVNTGNSVVENPENTTPAT 1206

		

		Query: 240  QAEAARLAAAQLEAERARVAAEQAAEALAAEQLAAEALAREQAEALAQQQAEATQTAGPV 299

		                    ++     R R +            +     +      +A     +T T   +

		Sbjct: 1207 TQPTVNSESSNKPKNRHRRSVRS-----VPHNVEPATTSSNDRSTVALCDLTSTNTNAVL 1261

		

		Query: 300  TELQPEPQARPVKEG 314

		            ++ + + Q   +  G

		Sbjct: 1262 SDARAKAQFVALNVG 1276

		

		

		

		 Score = 40.8 bits (95), Expect = 2e-05

		 Identities = 32/202 (15%), Positives = 59/202 (29%), Gaps = 15/202 (7%)

		

		Query: 11   RKDKSQDEVVAETPVVTPTQDTEAAERLEQERAEAQRLAVEAEAQAAAAKLAAEQLAAEQ 70

		             K K + E   E P VT      +    +QE++E  +   E   +        E  +   

		Sbjct: 1110 EKAKVETEKTQEVPKVT------SQVSPKQEQSETVQPQAEPARENDPTVNIKEPQSQTN 1163

		

		Query: 71   AQAERIVQEQAAIEAQRLAEQQAEAARLAAAQLEAEQLAKVQAERIAQEQAQIEAQRLAE 130

		              A+    EQ A E     EQ    +          +  +       Q     E+    +

		Sbjct: 1164 TTAD---TEQPAKETSSNVEQPVTESTTVNTGNSVVENPENTTPATTQPTVNSESSNKPK 1220

		

		Query: 131  QQAETARLAAAQLEAEQLAVDKLAAEQAAAEQLAQAQAKAEAERIAQEQAQIEAQRLAEQ 190

		             +   +      + +    V+           +A     +         A+ +AQ +A  

		Sbjct: 1221 NRHRRS------VRSVPHNVEPATTSSNDRSTVALCDLTSTNTNAVLSDARAKAQFVALN 1274

		

		Query: 191  QAEAARLAAAQLESERLAANNL 212

		              +A     +QLE       N+

		Sbjct: 1275 VGKAVSQHISQLEMNNEGQYNV 1296

		

		

		>PF05272#Virulence-associated E family protein

		          Length = 892

		

		 Score = 32.0 bits (72), Expect = 0.002

		 Identities = 9/20 (45%), Positives = 13/20 (65%)

		

		Query: 41  IEGPNGAGKTSLLRILAGLS 60

		           +EG  G GK++L+  L GL 

		Sbjct: 601 LEGTGGIGKSTLINTLVGLD 620

		

		

		>PF06580#Sensor histidine kinase

		          Length = 349

		

		 Score = 29.8 bits (67), Expect = 0.036

		 Identities = 18/109 (16%), Positives = 38/109 (34%), Gaps = 15/109 (13%)

		

		Query: 3   PELGHFALIIGVAFAFLLISVPLIGVARKDQYLVRYAWPLTYGMFFFITV---SVVVLAY 59

		           P+L      I ++   L+++           ++ R  W L   M   I     + VV+  

		Sbjct: 37  PKLHSMIFNIAISLMGLVLTHAY------RSFIKRQGW-LKLNMGQIILRVLPACVVIGM 89

		

		Query: 60  SFAVDDFSVAYVAHHSNSQLPIFFKISAVWGGHEGSLLFWVFALSTWAA 108

		            + V + S+  +    N++ P+ F +          +   V     W+ 

		Sbjct: 90  VWFVANTSIWRLLAFINTK-PVAFTLPLA----LSIIFNVVVVTFMWSL 133

		

		

		>SACTRNSFRASE#Streptothricin acetyltransferase signature.

		          Length = 173

		

		 Score = 28.4 bits (63), Expect = 0.009

		 Identities = 12/39 (30%), Positives = 21/39 (53%)

		

		Query: 85  NVYVNAHYRNKGLGKLLVNAVVDYAKALGLQKIYLFTAD 123

		           ++ V   YR KG+G  L++  +++AK      + L T D

		Sbjct: 94  DIAVAKDYRKKGVGTALLHKAIEWAKENHFCGLMLETQD 132

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 76.4 bits (188), Expect = 2e-18

		 Identities = 30/129 (23%), Positives = 61/129 (47%)

		

		Query: 2   RLLLIEDDTDLVARLIPALNKAGYTVEHADNGIDGAFLGEEENFEAVILDLGLPGKPGLQ 61

		            +L+ +DD  +   L  AL++AGY V    N           + + V+ D+ +P +    

		Sbjct: 5   TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64

		

		Query: 62  VLGQWRQKGLAMPVLILTARDAWHERVDGLKAGADDYLGKPFHIEELLARLEVLIRRHFG 121

		           +L + ++    +PVL+++A++ +   +   + GA DYL KPF + EL+  +   +     

		Sbjct: 65  LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKR 124

		

		Query: 122 RADNVLQHA 130

		           R   +   +

		Sbjct: 125 RPSKLEDDS 133

		

		

		>SACTRNSFRASE#Streptothricin acetyltransferase signature.

		          Length = 173

		

		 Score = 33.4 bits (76), Expect = 2e-04

		 Identities = 21/78 (26%), Positives = 35/78 (44%), Gaps = 2/78 (2%)

		

		Query: 67  NNLAGCGALKWLDAEHAEIKSMRTAAPYKQQGIASKILQHLINDAKTAGVKRLSLETGSM 126

		           NN  G   ++     +A I+ +  A  Y+++G+ + +L   I  AK      L LET  +

		Sbjct: 74  NNCIGRIKIRSNWNGYALIEDIAVAKDYRKKGVGTALLHKAIEWAKENHFCGLMLETQDI 133

		

		Query: 127 DFFNPARLLYSKFGFEIC 144

		           +    A   Y+K  F I 

		Sbjct: 134 NI--SACHFYAKHHFIIG 149

		

		

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

		           signature.

		          Length = 261

		

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

		 Identities = 68/248 (27%), Positives = 113/248 (45%), Gaps = 15/248 (6%)

		

		Query: 5   VLVTGSSRGIGKAIALKLAQAGFDIALHYHSNQTAADDTATQIRALGVNVSLLKFDVADR 64

		             +TG+++GIG+A+A  LA  G  IA     N    +   + ++A   +      DV D 

		Sbjct: 11  AFITGAAQGIGEAVARTLASQGAHIA-AVDYNPEKLEKVVSSLKAEARHAEAFPADVRDS 69

		

		Query: 65  ATVKAAIEADIEANGAYYGVILNAGINRDTAFPAMTESEWDSVIHTNLDGFYNVIHPCVM 124

		           A +           G    ++  AG+ R     ++++ EW++    N  G +N     V 

		Sbjct: 70  AAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGVFNASRS-VS 128

		

		Query: 125 PMVQGRKGGRIITLASVSGIAGNRGQVNYSASKAGIIGATKALSLELAKRKITVNCIAPG 184

		             +  R+ G I+T+ S            Y++SKA  +  TK L LELA+  I  N ++PG

		Sbjct: 129 KYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCNIVSPG 188

		

		Query: 185 LIETDM----------VADIPKDMVEQL---VPMRRMGKPNEIAALAAFLMSDDAAYITR 231

		             ETDM             + K  +E     +P++++ KP++IA    FL+S  A +IT 

		Sbjct: 189 STETDMQWSLWADENGAEQVIKGSLETFKTGIPLKKLAKPSDIADAVLFLVSGQAGHITM 248

		

		Query: 232 QVISVNGG 239

		             + V+GG

		Sbjct: 249 HNLCVDGG 256

		

		

		>ACRIFLAVINRP#Acriflavin resistance protein family signature.

		          Length = 1034

		

		 Score = 35.2 bits (81), Expect = 0.001

		 Identities = 27/151 (17%), Positives = 51/151 (33%), Gaps = 21/151 (13%)

		

		Query: 697 LLALALGIALLLFSLNFGFKKAAVVVAVPALAALLTLATLGLTGSPLSLFHALALILVFG 756

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

		Sbjct: 345 FEAIMLVFLVMYLFLQNMRATLIPTIAVP-VVLLGTFAILAAFGYSINTLTMFGMVLAIG 403

		

		Query: 757 IGIDYSL----------------FFASAQNHGKAVMMAVFMSACSTLLAFGLLAFSQTQA 800

		           + +D ++                   + +     +  A+   A      F  +AF     

		Sbjct: 404 LLVDDAIVVVENVERVMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGST 463

		

		Query: 801 ---IHYFGLTLSLGIGFTFLLSPLILTTTLA 828

		                 F +T+   +  + L++ LILT  L 

		Sbjct: 464 GAIYRQFSITIVSAMALSVLVA-LILTPALC 493

		

		

		

		 Score = 35.2 bits (81), Expect = 0.001

		 Identities = 27/155 (17%), Positives = 60/155 (38%), Gaps = 23/155 (14%)

		

		Query: 691  RLLTLKLLALALGIALLLFSLNFGFKKAAVVVAVPALAALLTLATLGLTGSPLSLFHALA 750

		            +   L  ++  + + L L +L   +     V+ V  L  +  L    L      ++  + 

		Sbjct: 871  QAPALVAISFVV-VFLCLAALYESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVG 929

		

		Query: 751  LILVFGIG-------IDYSLFFASAQNHG--KAVMMA-------VFMSACSTLLAFGLLA 794

		            L+   G+        ++++      +  G  +A +MA       + M++ + +L    LA

		Sbjct: 930  LLTTIGLSAKNAILIVEFAKDLMEKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLA 989

		

		Query: 795  FSQTQAIHYFGLTLSLGIGFTFLLSPLILTTTLAL 829

		             S        G   ++GIG   ++  ++  T LA+

		Sbjct: 990  ISNGAGS---GAQNAVGIG---VMGGMVSATLLAI 1018

		

		

		

		 Score = 31.0 bits (70), Expect = 0.028

		 Identities = 40/243 (16%), Positives = 83/243 (34%), Gaps = 37/243 (15%)

		

		Query: 276 LGLASLLGVIALVWLAFRSVMPLLLAIVTISSGLLLAVTFTLSVFGELHLLTLVFGTSLI 335

		           L  A +L V  +++L  +++   L+  + +   LL       +    ++ LT+      I

		Sbjct: 344 LFEAIML-VFLVMYLFLQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAI 402

		

		Query: 336 GIAIDYSFHFY--CERLSDSERSAKATVAYI------FPTVTLAFITSALAYVGIGLAPF 387

		           G+ +D +       ER+   ++                  V +A + SA   V I +A F

		Sbjct: 403 GLLVDDAIVVVENVERVMMEDKLPPKEATEKSMSQIQGALVGIAMVLSA---VFIPMAFF 459

		

		Query: 388 PG-----MQQVAIFCAAGLLGAYLTLI-----LAYPLLASSRLPEGSRPLALAGTYLASL 437

		            G      +Q +I   + +  + L  +     L   LL               G +  + 

		Sbjct: 460 GGSTGAIYRQFSITIVSAMALSVLVALILTPALCATLLKPVSAEHHENKGGFFGWFNTTF 519

		

		Query: 438 TQLSKRFTTPLG-------------MGMFALVILVWCLVGVTKLTVDDD--IRHLQQSPA 482

		                 +T  +G               + A +++++  +  + L  +D      + Q PA

		Sbjct: 520 DHSVNHYTNSVGKILGSTGRYLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPA 579

		

		Query: 483 SVT 485

		             T

		Sbjct: 580 GAT 582

		

		

		>SECA#SecA protein signature.

		          Length = 901

		

		 Score = 41.0 bits (96), Expect = 2e-05

		 Identities = 30/84 (35%), Positives = 39/84 (46%), Gaps = 8/84 (9%)

		

		Query: 294 MRLVQGDV-----GSGKTLVAAMAA-LQAIENGYQVAMMAPTELLAEQHATNFAAWFEPL 347

		           M L +  +     G GKTL A + A L A+  G  V ++   + LA++ A N    FE L

		Sbjct: 92  MVLNERCIAEMRTGEGKTLTATLPAYLNALT-GKGVHVVTVNDYLAQRDAENNRPLFEFL 150

		

		Query: 348 GLKVGW-LAGKLKGKVRAQSLADI 370

		           GL VG  L G      R    ADI

		Sbjct: 151 GLTVGINLPGMPAPAKREAYAADI 174

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 76.4 bits (188), Expect = 1e-18

		 Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 1/117 (0%)

		

		Query: 2   KILLAEDQAMVRGALAALLTLAGGFNITQASDGDEALSLLKQQSFDLLLTDIEMPGRTGL 61

		            IL+A+D A +R  L   L+ AG +++   S+       +     DL++TD+ MP     

		Sbjct: 5   TILVADDDAAIRTVLNQALSRAG-YDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63

		

		Query: 62  ELAAWLKDQHSQTKVVVITTFGRAGYIKRAIEAGVGGFLLKDAPSETLVNAIQQVMA 118

		           +L   +K       V+V++         +A E G   +L K      L+  I + +A

		Sbjct: 64  DLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALA 120

		

		

		>PF06580#Sensor histidine kinase

		          Length = 349

		

		 Score = 37.2 bits (86), Expect = 8e-05

		 Identities = 65/358 (18%), Positives = 117/358 (32%), Gaps = 53/358 (14%)

		

		Query: 1   MISTHLQLERKLAWVYLINLVFYL---IPLAINAYPAWKIALSFAVLIPFIASYF-WAYK 56

		           M STH Q  +   +   I    Y       A         ++ F + I  +      AY+

		Sbjct: 1   MASTHRQANKYYWYCQGIGWGVYTLTGFGFASLYGSPKLHSMIFNIAISLMGLVLTHAYR 60

		

		Query: 57  CNQNSAYRPILMMVAIATAITPINPGSISLFTFAAFFIGF-FYPLRTCLLAIAALIGLLF 115

		                     L M  I   + P           A   IG  ++   T +  + A I    

		Sbjct: 61  SFIKRQGWLKLNMGQIILRVLP-----------ACVVIGMVWFVANTSIWRLLAFINTKP 109

		

		Query: 116 ALNEIYDFNSYYFPLYGSGLVLGVGMFG------VAERRRHQHKLKEQQSTQEISTLAAM 169

		               +    S  F +     +  +  FG        +    Q K+       ++  L A 

		Sbjct: 110 VAFTLPLALSIIFNVVVVTFMWSLLYFGWHFFKNYKQAEIDQWKMASMAQEAQLMALKAQ 169

		

		Query: 170 VERERIARDLHDIMGHSLSSIALKAELAEKLLAKQEYQLATIQLNELGQIARESLSQIRH 229

		           +    +   L++I     + I      A ++L              L ++ R SL     

		Sbjct: 170 INPHFMFNALNNIR----ALILEDPTKAREMLTS------------LSELMRYSLRYSNA 213

		

		Query: 230 TVSDYKHKV-LADSVTQLCKLLREKGISVELTGNIPKLPARMESQLGLIVTELVNNILRH 288

		                  ++ + DS  QL  +  E  +  E   N   +  ++     ++V  LV N ++H

		Sbjct: 214 RQVSLADELTVVDSYLQLASIQFEDRLQFENQINPAIMDVQVPP---MLVQTLVENGIKH 270

		

		Query: 289 SGASQC------IIDFIQQADRLVVEVKDNGP----SKPIAEGNGLTGIRERLDSLGG 336

		            G +Q       ++   +    + +EV++ G     +   + G GL  +RERL  L G

		Sbjct: 271 -GIAQLPQGGKILLKGTKDNGTVTLEVENTGSLALKNTKESTGTGLQNVRERLQMLYG 327

		

		

		>PF07328#T-DNA border endonuclease VirD1

		          Length = 144

		

		 Score = 31.9 bits (72), Expect = 0.003

		 Identities = 17/68 (25%), Positives = 32/68 (47%), Gaps = 4/68 (5%)

		

		Query: 506 PEQIEKVI----RDTKHTTLDSLLADIGLGNAMSIVIAQRLIGDNLENQESRDGHMMPIR 561

		           P +++KVI     + +    D+ +A++GL    ++ IA R IG  +EN       +  + 

		Sbjct: 16  PARVDKVISVKMTEAELAEFDAQIAELGLNRNRALRIAARRIGGFVENDAKTVELLRDMS 75

		

		Query: 562 GAEGMLVT 569

		            A   + T

		Sbjct: 76  RAIAGVAT 83

		

		

		>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein

		           signature.

		          Length = 347

		

		 Score = 68.2 bits (167), Expect = 8e-15

		 Identities = 51/221 (23%), Positives = 91/221 (41%), Gaps = 20/221 (9%)

		

		Query: 150 SGMRMEAKVHIVTC----ANDMAKNITK-SVERCGLKVDDLVFSGIASADAVLTFDEKDL 204

		           S   M     ++ C    A  + +   + S +  G +   L+   +A+A        +  

		Sbjct: 100 SNSFMRPSPRVLVCVPVGATQVERRAIRESAQGAGAREVFLIEEPMAAAIGAGLPVSEAT 159

		

		Query: 205 GVCIVDIGGGTTDIAVYTNGALRHCAVVPVAGNQVTNDIAKIFR------TPSSHAEQIK 258

		           G  +VDIGGGTT++AV +   + + + V + G++    I    R         + AE+IK

		Sbjct: 160 GSMVVDIGGGTTEVAVISLNGVVYSSSVRIGGDRFDEAIINYVRRNYGSLIGEATAERIK 219

		

		Query: 259 VQFACARSSMVSREDSIEVPS---VGGRPSR-SMSRHTLAEVVEPRYQELFELVLKELKD 314

		            +   A          IEV       G P   +++ + + E ++     +   V+  L+ 

		Sbjct: 220 HEIGSAYPG--DEVREIEVRGRNLAEGVPRGFTLNSNEILEALQEPLTGIVSAVMVALEQ 277

		

		Query: 315 SGLE---DQIAAGIVLTGGTASIQGVVDIAEATFGMPVRVA 352

		              E   D    G+VLTGG A ++ +  +     G+PV VA

		Sbjct: 278 CPPELASDISERGMVLTGGGALLRNLDRLLMEETGIPVVVA 318

		

		

		>SECA#SecA protein signature.

		          Length = 901

		

		 Score = 1316 bits (3406), Expect = 0.0

		 Identities = 651/907 (71%), Positives = 762/907 (84%), Gaps = 7/907 (0%)

		

		Query: 1   MFGKLLTKVFGSRNDRTLKGLQKIVISINALEADYEKLTDEALKAKTAEFRERLAAGASL 60

		           M  KLLTKVFGSRNDRTL+ ++K+V  INA+E + EKL+DE LK KTAEFR RL  G  L

		Sbjct: 1   MLIKLLTKVFGSRNDRTLRRMRKVVNIINAMEPEMEKLSDEELKGKTAEFRARLEKGEVL 60

		

		Query: 61  DSIMAEAFATVREASKRVFDMRHFDVQLLGGMVLDSNRIAEMRTGEGKTLTATLPAYLNA 120

		           ++++ EAFA VREASKRVF MRHFDVQLLGGMVL+   IAEMRTGEGKTLTATLPAYLNA

		Sbjct: 61  ENLIPEAFAVVREASKRVFGMRHFDVQLLGGMVLNERCIAEMRTGEGKTLTATLPAYLNA 120

		

		Query: 121 LTGKGVHVITVNDYLARRDAENNRPLFEFLGLTVGINVAGLGQHEKKAAYNADITYGTNN 180

		           LTGKGVHV+TVNDYLA+RDAENNRPLFEFLGLTVGIN+ G+    K+ AY ADITYGTNN

		Sbjct: 121 LTGKGVHVVTVNDYLAQRDAENNRPLFEFLGLTVGINLPGMPAPAKREAYAADITYGTNN 180

		

		Query: 181 EFGFDYLRDNMAFSPQERVQRPLHYALIDEVDSILIDEARTPLIISGAAEDSSELYIKIN 240

		           E+GFDYLRDNMAFSP+ERVQR LHYAL+DEVDSILIDEARTPLIISG AEDSSE+Y ++N

		Sbjct: 181 EYGFDYLRDNMAFSPEERVQRKLHYALVDEVDSILIDEARTPLIISGPAEDSSEMYKRVN 240

		

		Query: 241 TLIPNLIRQDKEDTEEYVGEGDYSIDEKAKQVHFTERGQEKVENLLIERGMLAEGDSLYS 300

		            +IP+LIRQ+KED+E + GEG +S+DEK++QV+ TERG   +E LL++ G++ EG+SLYS

		Sbjct: 241 KIIPHLIRQEKEDSETFQGEGHFSVDEKSRQVNLTERGLVLIEELLVKEGIMDEGESLYS 300

		

		Query: 301 AANISLLHHVNAALRAHTLFERDVDYIVQDNEVIIVDEHTGRTMPGRRWSEGLHQAVEAK 360

		            ANI L+HHV AALRAH LF RDVDYIV+D EVIIVDEHTGRTM GRRWS+GLHQAVEAK

		Sbjct: 301 PANIMLMHHVTAALRAHALFTRDVDYIVKDGEVIIVDEHTGRTMQGRRWSDGLHQAVEAK 360

		

		Query: 361 EGVHIQNENQTLASITFQNYFRQYEKLAGMTGTADTEAFEFQHIYGLDTVVVPTNRPMVR 420

		           EGV IQNENQTLASITFQNYFR YEKLAGMTGTADTEAFEF  IY LDTVVVPTNRPM+R

		Sbjct: 361 EGVQIQNENQTLASITFQNYFRLYEKLAGMTGTADTEAFEFSSIYKLDTVVVPTNRPMIR 420

		

		Query: 421 KDMADLVYLTADEKYQAIIKDIKDCRERGQPVLVGTVSIEQSELLARLMVQEKIPHEVLN 480

		           KD+ DLVY+T  EK QAII+DIK+   +GQPVLVGT+SIE+SEL++  + +  I H VLN

		Sbjct: 421 KDLPDLVYMTEAEKIQAIIEDIKERTAKGQPVLVGTISIEKSELVSNELTKAGIKHNVLN 480

		

		Query: 481 AKFHEREAEIVAQAGRTGSVTIATNMAGRGTDIVLGGNWNMEIDELDNPTAEQKAKIKAD 540

		           AKFH  EA IVAQAG   +VTIATNMAGRGTDIVLGG+W  E+  L+NPTAEQ  KIKAD

		Sbjct: 481 AKFHANEAAIVAQAGYPAAVTIATNMAGRGTDIVLGGSWQAEVAALENPTAEQIEKIKAD 540

		

		Query: 541 WQIRHDEVVAAGGLHILGTERHESRRIDNQLRGRAGRQGDAGSSRFYLSMEDSLMRIFAS 600

		           WQ+RHD V+ AGGLHI+GTERHESRRIDNQLRGR+GRQGDAGSSRFYLSMED+LMRIFAS

		Sbjct: 541 WQVRHDAVLEAGGLHIIGTERHESRRIDNQLRGRSGRQGDAGSSRFYLSMEDALMRIFAS 600

		

		Query: 601 DRVSGMMKKLGMEEGEAIEHPWVSRAIENAQRKVEARNFDIRKQLLEFDDVANDQRQVVY 660

		           DRVSGMM+KLGM+ GEAIEHPWV++AI NAQRKVE+RNFDIRKQLLE+DDVANDQR+ +Y

		Sbjct: 601 DRVSGMMRKLGMKPGEAIEHPWVTKAIANAQRKVESRNFDIRKQLLEYDDVANDQRRAIY 660

		

		Query: 661 AQRNELMDAESIEDTIQNIQDDVIGAVIDQYIPPQSVEELWDIPGLEQRLHQEFMLKLPI 720

		           +QRNEL+D   + +TI +I++DV  A ID YIPPQS+EE+WDIPGL++RL  +F L LPI

		Sbjct: 661 SQRNELLDVSDVSETINSIREDVFKATIDAYIPPQSLEEMWDIPGLQERLKNDFDLDLPI 720

		

		Query: 721 QEWLDKEDDLHEESLRERIITAWGDAYKAKEEMVGAQVLRQFEKAVMLQTLDGLWKEHLA 780

		            EWLDKE +LHEE+LRERI+    + Y+ KEE+VGA+++R FEK VMLQTLD LWKEHLA

		Sbjct: 721 AEWLDKEPELHEETLRERILAQSIEVYQRKEEVVGAEMMRHFEKGVMLQTLDSLWKEHLA 780

		

		Query: 781 AMDHLRQGIHLRGYAQKNPKQEYKRESFELFQQLLNTLKHDVISVLSKVQVQAQSDVEEM 840

		           AMD+LRQGIHLRGYAQK+PKQEYKRESF +F  +L +LK++VIS LSKVQV+   +VEE+

		Sbjct: 781 AMDYLRQGIHLRGYAQKDPKQEYKRESFSMFAAMLESLKYEVISTLSKVQVRMPEEVEEL 840

		

		Query: 841 EARRREEDAKIQRDYQHAAAESLVGSSDEHEAVTAQAPMIRDGEKVGRNDPCPCGSGRKY 900

		           E +RR E  ++ +  Q  + +      D+  A  A         KVGRNDPCPCGSG+KY

		Sbjct: 841 EQQRRMEAERLAQ-MQQLSHQ------DDDSAAAAALAAQTGERKVGRNDPCPCGSGKKY 893

		

		Query: 901 KQCHGKL 907

		           KQCHG+L

		Sbjct: 894 KQCHGRL 900

		

		

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

		           signature.

		          Length = 261

		

		 Score = 73.2 bits (179), Expect = 2e-17

		 Identities = 48/184 (26%), Positives = 80/184 (43%), Gaps = 2/184 (1%)

		

		Query: 3   GLTGKVVIITGASEGIGRALAVAMARMGCQLVISARNETRLASLALEIANYGLPPFVFAA 62

		           G+ GK+  ITGA++GIG A+A  +A  G  +     N  +L  +   +         F A

		Sbjct: 5   GIEGKIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAFPA 64

		

		Query: 63  DVSRAEQCEALIEATVAHYGHLDILINNAGMTMWSRFDELTQLSVLEDIMRVNYLGPAYL 122

		           DV  +   + +        G +DIL+N AG+        L+     E    VN  G    

		Sbjct: 65  DVRDSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEW-EATFSVNSTGVFNA 123

		

		Query: 123 THAALPHLKASK-GQVVVVASVAGLTGVPTRSGYAASKHAVIGFFDSLRIELADDNVAVT 181

		           + +   ++   + G +V V S        + + YA+SK A + F   L +ELA+ N+   

		Sbjct: 124 SRSVSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCN 183

		

		Query: 182 VICP 185

		           ++ P

		Sbjct: 184 IVSP 187

		

		

		>TCRTETA#Tetracycline resistance protein signature.

		          Length = 399

		

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

		 Identities = 62/338 (18%), Positives = 113/338 (33%), Gaps = 23/338 (6%)

		

		Query: 40  MTLVPYIASDLGVD---VAHVSYAISAYALGVVVGSPIIMVLAVRVRRRTLLIALAALMA 96

		           M ++P +  DL       AH    ++ YAL     +P++  L+ R  RR +L+   A  A

		Sbjct: 25  MPVLPGLLRDLVHSNDVTAHYGILLALYALMQFACAPVLGALSDRFGRRPVLLVSLAGAA 84

		

		Query: 97  VANGLSALAPSLNWLIFFRFLSGLPHGAYFGVAMLLAASLVPPEMKARAVSRVIIGLTLA 156

		           V   + A AP L  L   R ++G+  GA   VA    A +   + +AR    +       

		Sbjct: 85  VDYAIMATAPFLWVLYIGRIVAGIT-GATGAVAGAYIADITDGDERARHFGFMSACFGFG 143

		

		Query: 157 TIIGVPFATWMGQTVGWRSGIGIVAILATITAVMVYFLAPDQAVAADASPRKELQ----- 211

		            + G      MG      +     A L  +  +   FL P+ +   +  P +        

		Sbjct: 144 MVAGPVLGGLMGG-FSPHAPFFAAAALNGLNFLTGCFLLPE-SHKGERRPLRREALNPLA 201

		

		Query: 212 ------TLKNREVWLTLGIAAIGFGGIFCVYTYLAETLIQVTQVEPFKIPIMMAVFGI-G 264

		                  +      + +       G +                 +   I I +A FGI  

		Sbjct: 202 SFRWARGMTVVAALMAVFFIMQLVGQVPA--ALWVIFGEDRFHWDATTIGISLAAFGILH 259

		

		Query: 265 ATLGTLVCGWAADK-SALAAAFWSLVLSTVVLAIYPSLTGHYWALMPV-VFFVGCGLGLA 322

		           +    ++ G  A +     A    ++       I  +     W   P+ V     G+G+ 

		Sbjct: 260 SLAQAMITGPVAARLGERRALMLGMIADGTGY-ILLAFATRGWMAFPIMVLLASGGIGMP 318

		

		Query: 323 TIVQARLMDVAPDGQAMTGALVQCAFNLANAIGPWVGS 360

		            +       V  + Q      +    +L + +GP + +

		Sbjct: 319 ALQAMLSRQVDEERQGQLQGSLAALTSLTSIVGPLLFT 356

		

		

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

		           signature.

		          Length = 261

		

		 Score = 51.6 bits (123), Expect = 4e-10

		 Identities = 41/183 (22%), Positives = 80/183 (43%), Gaps = 5/183 (2%)

		

		Query: 2   ILITGASSGLGAAIASLYAKENEPLTLTGRNAERLQTVANALTPFSNKPIAAITADLASE 61

		             ITGA+ G+G A+A   A +   +     N E+L+ V ++L   +     A  AD+   

		Sbjct: 11  AFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHA-EAFPADVRDS 69

		

		Query: 62  SSLEALFDGL---TQAPKTVIHCAGSGYFGAIETQGASDIHSLLNNNVTSTILLVRELVK 118

		           ++++ +   +         +++ AG    G I +    +  +  + N T      R + K

		Sbjct: 70  AAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGVFNASRSVSK 129

		

		Query: 119 RYKDQ-TVTVVVVMSTAALAAKAGESTYCAAKWAVRGFIESVRLELKQSPMKLIAVYPGG 177

		              D+ + ++V V S  A   +   + Y ++K A   F + + LEL +  ++   V PG 

		Sbjct: 130 YMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCNIVSPGS 189

		

		Query: 178 MDT 180

		            +T

		Sbjct: 190 TET 192

		

		

		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D

		           signature.

		          Length = 478

		

		 Score = 27.9 bits (62), Expect = 0.015

		 Identities = 8/29 (27%), Positives = 13/29 (44%)

		

		Query: 120 IQAERDGVVSAIWAKDGDEVAFDQPLFTL 148

		           I+   + +V  I  K+G+ V     L  L

		Sbjct: 99  IKPIENSIVKEIIVKEGESVRKGDVLLKL 127

		

		

		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D

		           signature.

		          Length = 478

		

		 Score = 54.4 bits (131), Expect = 4e-10

		 Identities = 36/182 (19%), Positives = 64/182 (35%), Gaps = 22/182 (12%)

		

		Query: 126 RATATLVVDRDRTATLAPQLDVRVLARHVVPGQEVKKGEPLLTLGGSAVAQAQADYINAA 185

		           R      V++ R    +  L  + +A+H V  QE                    + +N  

		Sbjct: 225 RYENLSRVEKSRLDDFSSLLHKQAIAKHAVLEQE----------------NKYVEAVNEL 268

		

		Query: 186 AEWSRVKRMSEGAVSVSRRMQAQVDAELKRAILEAIKMTPAQIRTLE----STPEAIGSY 241

		             +       E  +  ++     V    K  IL+ ++ T   I  L        E   + 

		Sbjct: 269 RVYKSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDNIGLLTLELAKNEERQQAS 328

		

		Query: 242 QLLAPIDGRVQQ-DIAMLGQVFSAGTPLMQLT-DESYLWVEAQLTPTQTAHITVGSAALV 299

		            + AP+  +VQQ  +   G V +    LM +  ++  L V A +       I VG  A++

		Sbjct: 329 VIRAPVSVKVQQLKVHTEGGVVTTAETLMVIVPEDDTLEVTALVQNKDIGFINVGQNAII 388

		

		Query: 300 QV 301

		           +V

		Sbjct: 389 KV 390

		

		

		

		 Score = 38.3 bits (89), Expect = 5e-05

		 Identities = 24/148 (16%), Positives = 53/148 (35%), Gaps = 5/148 (3%)

		

		Query: 118 IANLNLDIRATATLVVDRDRTATLAPQLDVRVLARHVVPGQEVKKGEPLLTLGG----SA 173

		           +  + +   A   L     R+  + P  +  V    V  G+ V+KG+ LL L      + 

		Sbjct: 77  LGQVEIVATANGKLTHS-GRSKEIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEAD 135

		

		Query: 174 VAQAQADYINAAAEWSRVKRMSEGAVSVSRRMQAQVDAELKRAILEAIKMTPAQIRTLES 233

		             + Q+  + A  E +R + +S              D    + + E   +    +   + 

		Sbjct: 136 TLKTQSSLLQARLEQTRYQILSRSIELNKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQF 195

		

		Query: 234 TPEAIGSYQLLAPIDGRVQQDIAMLGQV 261

		           +      YQ    +D +  + + +L ++

		Sbjct: 196 STWQNQKYQKELNLDKKRAERLTVLARI 223

		

		

		>ACRIFLAVINRP#Acriflavin resistance protein family signature.

		          Length = 1034

		

		 Score =  659 bits (1702), Expect = 0.0

		 Identities = 224/1075 (20%), Positives = 434/1075 (40%), Gaps = 73/1075 (6%)

		

		Query: 9    AIKNRLLVVLALLAMIVASVVMLPKLNLDAFPDVTNVQVTINTAAEGLAAEEVEKLISYP 68

		             I+  +   +  + +++A  + + +L +  +P +    V+++    G  A+ V+  ++  

		Sbjct: 5    FIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDTVTQV 64

		

		Query: 69   VESAMYALPAVTEVRSLS-RTGLSIVTVVFAEGTDIYFARQQVFEQLQAAREMIPSGVGV 127

		            +E  M  +  +  + S S   G   +T+ F  GTD   A+ QV  +LQ A  ++P  V  

		Sbjct: 65   IEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQEVQQ 124

		

		Query: 128  PEIGPNTSGLGQIYQYILRAEPNSGIDAAELRSLNDYLVKLIMMPVGGVTEVLSFGGDVR 187

		              I    S    +      ++ N G    ++       VK  +  + GV +V  FG    

		Sbjct: 125  QGISVEKSSSSYLMVAGFVSD-NPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFGAQ-Y 182

		

		Query: 188  QYQVQVDPNKLRAYGLSMAQVTEALESNNRNAGGWFMDQGQE------QLVVRGYGMLPA 241

		              ++ +D + L  Y L+   V   L+  N       +              +        

		Sbjct: 183  AMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTRFKN 242

		

		Query: 242  GEQGLAAIAQIPLTEDK-GTPVRVGDIAQVDFGSEIRVGAVTMTRRDEAGKVQNLGEVVA 300

		             E+      ++ L  +  G+ VR+ D+A+V+ G E       +          N      

		Sbjct: 243  PEE----FGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARI----------NGKPAAG 288

		

		Query: 301  GVVLKRMGANTKATIDDIGARVSLIEQALPDGVSFEVFYDQAELVDKAVTTVRDALLMAF 360

		              +    GAN   T   I A+++ ++   P G+     YD    V  ++  V   L  A 

		Sbjct: 289  LGIKLATGANALDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAI 348

		

		Query: 361  VFIVVILALFLVNIRATLLVLLSIPVSIGLALMVMSYYGLSANLMSLGGLAVAIGMLVDG 420

		            + + +++ LFL N+RATL+  +++PV +     +++ +G S N +++ G+ +AIG+LVD 

		Sbjct: 349  MLVFLVMYLFLQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDD 408

		

		Query: 421  SVVMVENIFKHLTQPDRRHLLEARTRADGEADPYHSDEDGGQQANMAVRIMLAAKEVCSP 480

		            ++V+VEN+ + +                         ED         + M    ++   

		Sbjct: 409  AIVVVENVERVMM------------------------EDKLPPKEATEKSM---SQIQGA 441

		

		Query: 481  IFFATAIIIVVFAPLFALEGVEGKLFQPMAVSIILAMISALLVALIAVPALAVYLFK--- 537

		            +     ++  VF P+    G  G +++  +++I+ AM  ++LVALI  PAL   L K   

		Sbjct: 442  LVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMALSVLVALILTPALCATLLKPVS 501

		

		Query: 538  -------RGVVLKQSVVLGPLDAAYRKLLTATLARPKVVMLSALLMFALSLLLLPRLGTE 590

		                    G     +         Y   +   L      +L   L+ A  ++L  RL + 

		Sbjct: 502  AEHHENKGGFFGWFNTTFDHSVNHYTNSVGKILGSTGRYLLIYALIVAGMVVLFLRLPSS 561

		

		Query: 591  FVPELEEGTINLRVTLAPTASLGTSLAVAPKLEAILLEFPEVEYALSRIGAPELGGDPEP 650

		            F+PE ++G     + L   A+   +  V  ++    L+  +     S           + 

		Sbjct: 562  FLPEEDQGVFLTMIQLPAGATQERTQKVLDQVTDYYLKNEKANVE-SVFTVNGFSFSGQA 620

		

		Query: 651  VSNIEVYIGLKPISEWQSASSRLE--LQRLMEEKLSVFPGLLLTFSQPIATRVDELLSGV 708

		             +    ++ LKP  E     +  E  + R   E   +  G ++ F+ P    + EL +  

		Sbjct: 621  QNAGMAFVSLKPWEERNGDENSAEAVIHRAKMELGKIRDGFVIPFNMP---AIVELGTAT 677

		

		Query: 709  KAQLA-IKIFGPDLAVLSERGQALTDLVAKIPGAV-DVSLEQVSGEAQLVVRPKRELLAR 766

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

		Sbjct: 678  GFDFELIDQAGLGHDALTQARNQLLGMAAQHPASLVSVRPNGLEDTAQFKLEVDQEKAQA 737

		

		Query: 767  YGISVDQVMSLVSQGIGGGSAGQVIDGNARYDINVRLAAEFRTSPDAIKDLLLSGTNGAT 826

		             G+S+  +   +S  +GG      ID      + V+  A+FR  P+ +  L +   NG  

		Sbjct: 738  LGVSLSDINQTISTALGGTYVNDFIDRGRVKKLYVQADAKFRMLPEDVDKLYVRSANGEM 797

		

		Query: 827  VRLGEVASVEVEMAPPNIRRDDVQRRVVVQANVA-GRDMGSVVKDIYALVPQADLPAGYT 885

		            V      +       P + R +    + +Q   A G   G  +  +  L  +  LPAG  

		Sbjct: 798  VPFSAFTTSHWVYGSPRLERYNGLPSMEIQGEAAPGTSSGDAMALMENLASK--LPAGIG 855

		

		Query: 886  VIIGGQYENQQRAQQKLMLVVPISIALIALLLYFSFGSFKQVLLIMANVPLALIGGIVAL 945

		                G    ++ +  +   +V IS  ++ L L   + S+   + +M  VPL ++G ++A 

		Sbjct: 856  YDWTGMSYQERLSGNQAPALVAISFVVVFLCLAALYESWSIPVSVMLVVPLGIVGVLLAA 915

		

		Query: 946  YVSGTYLSVPSSIGFITLFGVAVLNGVVLVDSINQ-RRQSGEALYDCVYEGTVGRLRPVL 1004

		             +      V   +G +T  G++  N +++V+       + G+ + +        RLRP+L

		Sbjct: 916  TLFNQKNDVYFMVGLLTTIGLSAKNAILIVEFAKDLMEKEGKGVVEATLMAVRMRLRPIL 975

		

		Query: 1005 MTALTSALGLIPILLSSGVGSEIQKPLAVVIIGGLFSSTALTLLVLPTLYRWLYR 1059

		            MT+L   LG++P+ +S+G GS  Q  + + ++GG+ S+T L +  +P  +  + R

		Sbjct: 976  MTSLAFILGVLPLAISNGAGSGAQNAVGIGVMGGMVSATLLAIFFVPVFFVVIRR 1030

		

		

		

		 Score =  113 bits (285), Expect = 1e-27

		 Identities = 81/544 (14%), Positives = 184/544 (33%), Gaps = 61/544 (11%)

		

		Query: 10   IKNRLLVVLALLAMIVASVVMLPKLNLDAFPDVTNVQVTIN-TAAEGLAAEEVEKLI--- 65

		            + +    +L    ++   VV+  +L     P+              G   E  +K++   

		Sbjct: 534  LGSTGRYLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQV 593

		

		Query: 66   -SYPVESAMYALPAVTEVRSLSRTGLS----IVTVVFAEGTDIYFARQQVFEQLQAAREM 120

		              Y +++    + +V  V   S +G +    +  V      +           +  A+  

		Sbjct: 594  TDYYLKNEKANVESVFTVNGFSFSGQAQNAGMAFVSLKPWEERNGDENSAEAVIHRAKME 653

		

		Query: 121  ---IPSGVGVPEIGPNTSGLGQIYQYILRAEPNSGIDAAELRSLNDYLVKLIMMPVGGVT 177

		               I  G  +P   P    LG    +       +G+    L    + L+ +       + 

		Sbjct: 654  LGKIRDGFVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQHPASLV 713

		

		Query: 178  EV-LSFGGDVRQYQVQVDPNKLRAYGLSMAQVTEALES--NNRNAGGWFMDQGQEQLVVR 234

		             V  +   D  Q++++VD  K +A G+S++ + + + +         +      ++L V+

		Sbjct: 714  SVRPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRVKKLYVQ 773

		

		Query: 235  GYGMLPAGEQGLAAIAQIPLTEDKGTPVRVGDIAQVDFGSEIRVGAVTMTRRDEAGKVQN 294

		                          + ++ +    G  V         +      G+  + R +    ++ 

		Sbjct: 774  AD---AKFRMLPEDVDKLYVRSANGEMVPFSAFTTSHWVY----GSPRLERYNGLPSMEI 826

		

		Query: 295  LGEVVAGVVLKRMGANTKATIDDIGARVSLIEQALPDGVSFEVFYDQAELVDKAVTTVRD 354

		             GE   G               D  A +  +   LP G+ ++ +   +     +      

		Sbjct: 827  QGEAAPGTSS-----------GDAMALMENLASKLPAGIGYD-WTGMSYQERLSGNQAPA 874

		

		Query: 355  ALLMAFVFIVVILALFLVNIRATLLVLLSIPVSIGLALMVMSYYGLSANLMSLGGLAVAI 414

		             + ++FV + + LA    +    + V+L +P+ I   L+  + +    ++  + GL   I

		Sbjct: 875  LVAISFVVVFLCLAALYESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTI 934

		

		Query: 415  GMLVDGSVVMVENIFKHLTQPDRRHLLEARTRADGEADPYHSDEDGGQQANMAVRIMLAA 474

		            G+    ++++VE           + L+E   +   EA                   ++A 

		Sbjct: 935  GLSAKNAILIVEFA---------KDLMEKEGKGVVEA------------------TLMAV 967

		

		Query: 475  KEVCSPIFFATAIIIVVFAPLFALEGVEGKLFQPMAVSIILAMISALLVALIAVPALAVY 534

		            +    PI   +   I+   PL    G        + + ++  M+SA L+A+  VP   V 

		Sbjct: 968  RMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIGVMGGMVSATLLAIFFVPVFFVV 1027

		

		Query: 535  LFKR 538

		            + + 

		Sbjct: 1028 IRRC 1031

		

		

		

		 Score =  102 bits (257), Expect = 3e-24

		 Identities = 88/516 (17%), Positives = 188/516 (36%), Gaps = 38/516 (7%)

		

		Query: 565  RPKVVMLSALLMFALSLLLLPRLGTEFVPELEEGTINLRVTLAPTASLGT-SLAVAPKLE 623

		            RP    + A+++     L + +L     P +    +++     P A   T    V   +E

		Sbjct: 8    RPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSAN-YPGADAQTVQDTVTQVIE 66

		

		Query: 624  AILLEFPEVEYALSRIGAPELGGDPEPVSNIEVYIGLKPISEWQSASSRLELQRLMEEKL 683

		              +     + Y  S           +   ++ + +  +  ++   A      Q  ++ KL

		Sbjct: 67   QNMNGIDNLMYMSST---------SDSAGSVTITLTFQSGTDPDIA------QVQVQNKL 111

		

		Query: 684  SVFPGLLLTFSQPIATRVDELLSGVKAQLAIKIFGPDLAVLSERGQALT---DLVAKIPG 740

		             +   LL    Q     V++  S            P            +   D ++++ G

		Sbjct: 112  QLATPLLPQEVQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNG 171

		

		Query: 741  AVDVSLEQVSGEAQLVVRPKRELLARYGISVDQVMSLVS---QGIGGGS--AGQVIDGNA 795

		              DV L     +  + +    +LL +Y ++   V++ +      I  G       + G  

		Sbjct: 172  VGDVQL--FGAQYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQ- 228

		

		Query: 796  RYDINVRLAAEFRTSPDAIKDLLLSGTNGATVRLGEVASVEVEMAPPNIR-RDDVQRRVV 854

		            + + ++     F+   +  K  L   ++G+ VRL +VA VE+     N+  R + +    

		Sbjct: 229  QLNASIIAQTRFKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAG 288

		

		Query: 855  VQANVA-GRDMGSVVKDIYALVP--QADLPAGYTVIIGGQYENQQRAQQKLMLVVP---I 908

		            +   +A G +     K I A +   Q   P G  V+    Y+     Q  +  VV     

		Sbjct: 289  LGIKLATGANALDTAKAIKAKLAELQPFFPQGMKVLY--PYDTTPFVQLSIHEVVKTLFE 346

		

		Query: 909  SIALIALLLYFSFGSFKQVLLIMANVPLALIGGIVALYVSGTYLSVPSSIGFITLFGVAV 968

		            +I L+ L++Y    + +  L+    VP+ L+G    L   G  ++  +  G +   G+ V

		Sbjct: 347  AIMLVFLVMYLFLQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLV 406

		

		Query: 969  LNGVVLVDSINQRRQS-GEALYDCVYEGTVGRLRPVLMTALTSALGLIPILLSSGVGSEI 1027

		             + +V+V+++ +          +   +        ++  A+  +   IP+    G    I

		Sbjct: 407  DDAIVVVENVERVMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAI 466

		

		Query: 1028 QKPLAVVIIGGLFSSTALTLLVLPTLYRWLYRGDKR 1063

		             +  ++ I+  +  S  + L++ P L   L +    

		Sbjct: 467  YRQFSITIVSAMALSVLVALILTPALCATLLKPVSA 502

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 89.5 bits (222), Expect = 5e-23

		 Identities = 31/150 (20%), Positives = 58/150 (38%), Gaps = 4/150 (2%)

		

		Query: 7   VYLIDDDDSVRRSLRFMLESYGLKITDFDSAEAFFTAVDLTLPGCALVDVRMPGLSGPQL 66

		           + + DDD ++R  L   L   G  +    +A   +  +        + DV MP  +   L

		Sbjct: 6   ILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFDL 65

		

		Query: 67  HLELVAKNSPLAVIYLTGHGDVPMAVEALKLGAVDFFQKPADGAKLAEAVLKALEHT--- 123

		              +      L V+ ++       A++A + GA D+  KP D  +L   + +AL      

		Sbjct: 66  LPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKRR 125

		

		Query: 124 -KAHHQDNQYLETYQALTPREREILNLIAQ 152

		                 D+Q        +   +EI  ++A+

		Sbjct: 126 PSKLEDDSQDGMPLVGRSAAMQEIYRVLAR 155

		

		

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

		          Length = 539

		

		 Score = 52.0 bits (124), Expect = 1e-08

		 Identities = 55/320 (17%), Positives = 102/320 (31%), Gaps = 18/320 (5%)

		

		Query: 599 EYAASEQELRIRLSKAEEAHTSAQEMQAEAESQLVAINGELDNLSRELTFARTAYKNSRD 658

		                  EL   LS A+E      +  +E  S++  +     +L + L  A         

		Sbjct: 82  ALKDHNDELTEELSNAKEKLRKNDKSLSEKASKIQELEARKADLEKALEGAMNFSTADSA 141

		

		Query: 659 DLRRLFDEKRSEQDKINKALSDRKAHAGQRLTQLDGELKQLKHQHELWLEEQKEQALEAR 718

		            ++ L  EK        +     KA  G          K    + E    E ++  LE  

		Sbjct: 142 KIKTLEAEK---AALAARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKA 198

		

		Query: 719 MEKQAYWQEVIGALDNQLGQIKATIEGRRESAKIEQKACETWYKNELKSRGVDEENILKL 778

		           +E    +     A    L   KA +  R+   +   +    +   +       E     L

		Sbjct: 199 LEGAMNFSTADSAKIKTLEAEKAALAARKADLEKALEGAMNFSTADSAKIKTLEAEKAAL 258

		

		Query: 779 KQQIRELETKISRAEQRRSDVLRFDDWYQHTWLMRKPKLQTQLADVKR----------AV 828

		           + +  ELE  +  A    +           T    K  L+ + AD++           ++

		Sbjct: 259 EARQAELEKALEGAMNFSTADSA----KIKTLEAEKAALEAEKADLEHQSQVLNANRQSL 314

		

		Query: 829 SEIDQQLKAKTLDVKTRRQQLETERKASDAAQVEASENLTKLRAVMRKLAELKLPSNNEE 888

		                  +     ++   Q+LE + K S+A++     +L   R   ++L E +     E+

		Sbjct: 315 RRDLDASREAKKQLEAEHQKLEEQNKISEASRQSLRRDLDASREAKKQL-EAEHQKLEEQ 373

		

		Query: 889 AQGSLGERLRQGEDLLLKRD 908

		            + S   R     DL   R+

		Sbjct: 374 NKISEASRQSLRRDLDASRE 393

		

		

		

		 Score = 31.2 bits (70), Expect = 0.028

		 Identities = 49/347 (14%), Positives = 114/347 (32%), Gaps = 28/347 (8%)

		

		Query: 360 WRTDVENLSERHKLQTEKHQDIEAAYNARRSKIGEQLNRELEGLHSDQDKQREARDKQRE 419

		            +   +     +     K+ D+     A      +  N EL    S+  +  + R   + 

		Sbjct: 55  VQERADKFEIENNTLKLKNSDLSFNNKAL-----KDHNDELTEELSNAKE--KLRKNDKS 107

		

		Query: 420 VARTDIDALELQWRNQMDAGKASFSEQEYQFKLTAAELKLRVDGVTYTEEEKLSLAIFDE 479

		           ++       EL+ R   D  KA      +    +A    L  +       +       ++

		Sbjct: 108 LSEKASKIQELEARKA-DLEKALEGAMNFSTADSAKIKTLEAEKAALAARKADL----EK 162

		

		Query: 480 RIHRADEEQESCNAKVERLSSDERKLRAKRDQANEALRIATLRVNERQTALDELHHMLFP 539

		            +  A     + +AK++ L +++  L A++ +  +AL  A          +  L      

		Sbjct: 163 ALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMNFSTADSAKIKTLEAEKAA 222

		

		Query: 540 QSHTL--LEFLRKEAQGWEQSLGKVIAPELLHRTDLHPSLVTESSEAFFGVHLDLKAIDV 597

		            +     LE   + A  +  +    I      +  L                       +

		Sbjct: 223 LAARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKA-------------L 269

		

		Query: 598 PEYAASEQELRIRLSKAEEAHTSAQEMQAEAESQLVAINGELDNLSRELTFARTAYKNSR 657

		                       ++   E    + +  +A+ E Q   +N    +L R+L  +R A K   

		Sbjct: 270 EGAMNFSTADSAKIKTLEAEKAALEAEKADLEHQSQVLNANRQSLRRDLDASREAKKQLE 329

		

		Query: 658 DDLRRLFDEKRSEQDKINKALSDRKAHAGQRLTQLDGELKQLKHQHE 704

		            + ++L ++ +   +   ++L      + +   QL+ E ++L+ Q++

		Sbjct: 330 AEHQKLEEQNKI-SEASRQSLRRDLDASREAKKQLEAEHQKLEEQNK 375

		

		

		>PF05272#Virulence-associated E family protein

		          Length = 892

		

		 Score = 31.6 bits (71), Expect = 0.005

		 Identities = 12/32 (37%), Positives = 16/32 (50%)

		

		Query: 32  ILALLGPSGCGKTTLLRAVVGLQAISQGEIQI 63

		            + L G  G GK+TL+  +VGL   S     I

		Sbjct: 598 SVVLEGTGGIGKSTLINTLVGLDFFSDTHFDI 629

		

		

		>NUCEPIMERASE#Nucleotide sugar epimerase signature.

		          Length = 334

		

		 Score = 39.4 bits (92), Expect = 6e-06

		 Identities = 30/123 (24%), Positives = 47/123 (38%), Gaps = 23/123 (18%)

		

		Query: 1   MKIAILGATGWIGGAILKEALSRGHQVTAL-----VRDPS-------KLSATDVAVHAVD 48

		           MK  + GA G+IG  + K  L  GHQV  +       D S        L+      H +D

		Sbjct: 1   MKYLVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLKQARLELLAQPGFQFHKID 60

		

		Query: 49  LE-QPLVAQTFA--GVDVVI-----AAVGGRAQQNHDLVASTV---QHLLDVLPNAKVPR 97

		           L  +  +   FA    + V       AV    +  H    S +    ++L+   + K+  

		Sbjct: 61  LADREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFLNILEGCRHNKIQH 120

		

		Query: 98  LLW 100

		           LL+

		Sbjct: 121 LLY 123

		

		

		>ARGREPRESSOR#Bacterial arginine repressor signature.

		          Length = 149

		

		 Score =  145 bits (367), Expect = 1e-47

		 Identities = 43/150 (28%), Positives = 71/150 (47%), Gaps = 5/150 (3%)

		

		Query: 6   NQDDLVRIFKSILKEERFGSQSEIVTALQAEGFGNINQSKVSRMLSKFGAVRTRNAKQEM 65

		           N+       + I+      +Q E+V  L+ +G+ N+ Q+ VSR + +   V+        

		Sbjct: 2   NKGQRHIKIREIITANEIETQDELVDILKKDGY-NVTQATVSRDIKELHLVKVPTNNGSY 60

		

		Query: 66  VYCLPAELGVPTAGSPLKNLV---LDVDHNQAMIVVRTSPGAAQLIARLLDSIGKPEGIL 122

		            Y LPA+          ++L+   + +D    +IV++T PG AQ I  L+D++   E I+

		Sbjct: 61  KYSLPADQRFNPLSKLKRSLMDAFVKIDSASHLIVLKTMPGNAQAIGALMDNLDWEE-IM 119

		

		Query: 123 GTIAGDDTIFICPSSIQDIADTLETIKSLF 152

		           GTI GDDTI I   +  D     + I  L 

		Sbjct: 120 GTICGDDTILIICRTHDDTKVVQKKILELL 149

		

		

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

		           signature.

		          Length = 261

		

		 Score = 48.1 bits (114), Expect = 8e-09

		 Identities = 37/192 (19%), Positives = 71/192 (36%), Gaps = 22/192 (11%)

		

		Query: 5   IIITGVGKRIGYALAKHFLAQGQQVIG-----TYRSHYDSIDELNALGATLYPCDFYDDT 59

		             ITG  + IG A+A+   +QG  +              S  +  A  A  +P D  D  

		Sbjct: 11  AFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAFPADVRDSA 70

		

		Query: 60  QVQSLIDEL-TQLPQIRAIIHNASDWLPDPVLTKNEPLKSTTFAPSQVLQRMMQVHVSVP 118

		            +  +   +  ++  I  +++ A    P  + + ++     TF+          V+ +  

		Sbjct: 71  AIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFS----------VNSTGV 120

		

		Query: 119 YQLNLALEAQLRAAAGDEIGGSDVIHITDYVAEKGSQKHIAYAASKAALHNLTLSFAAKF 178

		           +  + ++   +     D   GS V  +    A        AYA+SKAA    T     + 

		Sbjct: 121 FNASRSVSKYMM----DRRSGSIVT-VGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLEL 175

		

		Query: 179 APE-VKVNSIAP 189

		           A   ++ N ++P

		Sbjct: 176 AEYNIRCNIVSP 187

		

		

		>OMS28PORIN#OMS28 porin signature.

		          Length = 257

		

		 Score = 28.6 bits (63), Expect = 0.018

		 Identities = 14/44 (31%), Positives = 26/44 (59%), Gaps = 1/44 (2%)

		

		Query: 46  NRNQLRKSIRTARKSLSETEQIQASLSASQRMLDALLAQNAQHV 89

		           N++   K +   ++  ++ EQ++ +L AS+R LD  + Q AQ V

		Sbjct: 166 NKSPNNKELELTKEEFAKVEQVKETLMASERALDETV-QEAQKV 208

		

		

		>ABC2TRNSPORT#ABC-2 type transport system membrane protein

		           signature.

		          Length = 262

		

		 Score = 70.0 bits (171), Expect = 2e-16

		 Identities = 48/215 (22%), Positives = 96/215 (44%), Gaps = 1/215 (0%)

		

		Query: 37  LYFLIFGNLVGSRIGEMGGVSYMEFIAPGLIMMSVITNS-YSNVASSFYSAKFQRNLEEL 95

		           +Y    G  +G  +G +GGVSY  F+A G++  S +T + +  + ++F   + QR  E +

		Sbjct: 44  IYLFGLGAGLGVMVGRVGGVSYTAFLAAGMVATSAMTAATFETIYAAFGRMEGQRTWEAM 103

		

		Query: 96  MVAPVPHYVLIAGYVGGGVARGLCVGLIVTLVAMFFVDISLHHAGLVVMTVFLTSVLFSL 155

		           +   +    ++ G +     +    G  + +VA              +  + LT + F+ 

		Sbjct: 104 LYTQLRLGDIVLGEMAWAATKAALAGAGIGVVAAALGYTQWLSLLYALPVIALTGLAFAS 163

		

		Query: 156 GGLINAVFAKSFDDISIIPTFVLTPLTYLGGVFYSLSLLPPFWQGVSALNPVVYMINVFR 215

		            G++    A S+D      T V+TP+ +L G  + +  LP  +Q  +   P+ + I++ R

		Sbjct: 164 LGMVVTALAPSYDYFIFYQTLVITPILFLSGAVFPVDQLPIVFQTAARFLPLSHSIDLIR 223

		

		Query: 216 YGFLGFADISVPLSIAIMIGFCVALWTLAYYLVSR 250

		              LG   + V   +  +  + V  + L+  L+ R

		Sbjct: 224 PIMLGHPVVDVCQHVGALCIYIVIPFFLSTALLRR 258

		

		

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

		          Length = 326

		

		 Score = 92.2 bits (229), Expect = 3e-22

		 Identities = 44/159 (27%), Positives = 66/159 (41%), Gaps = 19/159 (11%)

		

		Query: 8   GHGTHVAGTAVGNKVSTTFKEIPVELSGVAPAAYLMVYKALYSKADCTGGSGSNIMLMEA 67

		           GHGTHVAGT    +             GVAP A L++ K L        GSG    +++ 

		Sbjct: 85  GHGTHVAGTIAATENENGV-------VGVAPEADLLIIKVLNK-----QGSGQYDWIIQG 132

		

		Query: 68  LEHAVNDGADVINNSWGGGAGGDPASSPYKTMFEAAEAAGVVVVTAAGNDGNGPQTIGC- 126

		           + +A+    D+I+ S GG               + A A+ ++V+ AAGN+G+G       

		Sbjct: 133 IYYAIEQKVDIISMSLGGPEDVP----ELHEAVKKAVASQILVMCAAGNEGDGDDRTDEL 188

		

		Query: 127 --PACIESGITVANTTTGRFFANSFNAGGDDLLAIPSSD 163

		             P C    I+V      R  +   N+  +  L  P  D

		Sbjct: 189 GYPGCYNEVISVGAINFDRHASEFSNSNNEVDLVAPGED 227

		

		

		

		 Score = 62.2 bits (151), Expect = 3e-12

		 Identities = 34/130 (26%), Positives = 51/130 (39%), Gaps = 25/130 (19%)

		

		Query: 285 DNLNSTSSRGPDGNQNILKPDIAAPGTNILSAFSPDDGGEDFNMISGTSMASPHVAGAAA 344

		            + +  S+   +        D+ APG +ILS       G  +   SGTSMA+PHVAGA A

		Sbjct: 207 RHASEFSNSNNE-------VDLVAPGEDILS----TVPGGKYATFSGTSMATPHVAGALA 255

		

		Query: 345 LMSQL-----HPEWSANDIKTALTSTAKFEGILDDDAVTPATPFDMGAGRMDLDAAAKAV 399

		           L+ QL       + +  ++   L                  +P   G G + L A  +  

		Sbjct: 256 LIKQLANASFERDLTEPELYAQLIKRTI---------PLGNSPKMEGNGLLYLTAVEELS 306

		

		Query: 400 LTFDKPSIAS 409

		             FD   +A 

		Sbjct: 307 RIFDTQRVAG 316

		

		

		>SACTRNSFRASE#Streptothricin acetyltransferase signature.

		          Length = 173

		

		 Score = 38.0 bits (88), Expect = 3e-06

		 Identities = 21/83 (25%), Positives = 32/83 (38%), Gaps = 4/83 (4%)

		

		Query: 40  IARDENGKLIGGVGGRTIYKNFL-INVVWVDDQTRGTGLGHKLMALAEAEAKQRGCLVAQ 98

		           +   EN   IG +  R+ +  +  I  + V    R  G+G  L+  A   AK+       

		Sbjct: 69  LYYLEN-NCIGRIKIRSNWNGYALIEDIAVAKDYRKKGVGTALLHKAIEWAKENHFCGLM 127

		

		Query: 99  VDTLSIQAPV--FYEKQGFEIIG 119

		           ++T  I      FY K  F I  

		Sbjct: 128 LETQDINISACHFYAKHHFIIGA 150

		

		

		>PF08280#M protein trans-acting positive regulator

		          Length = 530

		

		 Score = 30.2 bits (68), Expect = 0.005

		 Identities = 12/45 (26%), Positives = 16/45 (35%)

		

		Query: 101 QLAISDYLFPSPRKSGRPMSYSCYSTIIRRWASQLGYDSYLYGTH 145

		                  LF SP   G    Y+    I+  W ++L    YL   H

		Sbjct: 363 HFIPETNLFVSPYYKGNQKLYTSLKLIVEEWMAKLPGKRYLNHKH 407

		

		

		>FLGHOOKFLIK#Flagellar hook-length control protein signature.

		          Length = 375

		

		 Score = 32.5 bits (73), Expect = 0.008

		 Identities = 34/166 (20%), Positives = 65/166 (39%), Gaps = 15/166 (9%)

		

		Query: 5   DDVAQLKAELAQLQSLHLSQQSS---LSRQLAEFSTKLDTLSQQIATEDASDTSLSMAAD 61

		           D  A L A  A L     + + +    +    E  T    L+ +  T    D +    A 

		Sbjct: 126 DVTASLSALFAMLPGFDNTPKVTDAPSTVLPTEKPTLFTKLTSEQLTTAQPDDAPGTPAQ 185

		

		Query: 62  SMTAGAASIAAVVPAADNAPTLTYAIHTPILESTPVEPVPVEPSPWQQNAVQGDPWQRNT 121

		            +T   A   +      + P+   A  +P++     +P+P   +P     +    WQ+  

		Sbjct: 186 PLTPLVAEAQSKA-EVISTPSPVTAAASPLITPHQTQPLPTVAAPVLSAPLGSHEWQQ-- 242

		

		Query: 122 KNTSAEQVAKTEYQAQGQQLSDEVKLQ----ASVQVASQFDDLLSQ 163

		             + ++ ++   +  QGQQ S E++L       VQ++ + DD  +Q

		Sbjct: 243 --SLSQHISL--FTRQGQQ-SAELRLHPQDLGEVQISLKVDDNQAQ 283

		

		

		>LUXSPROTEIN#Bacterial autoinducer-2 (AI-2) production protein LuxS

		           signature.

		          Length = 171

		

		 Score =  271 bits (695), Expect = 6e-97

		 Identities = 131/168 (77%), Positives = 150/168 (89%)

		

		Query: 2   PLLDSFTVDHTRMNAPAVRVAKHMSTPKGDAITVFDLRFCAPNKDILSERGIHTLEHLFA 61

		           PLLDSFTVDHTRMNAPAVRVAK M TPKGD ITVFDLRF APNKDILSE+GIHTLEHL+A

		Sbjct: 1   PLLDSFTVDHTRMNAPAVRVAKTMQTPKGDTITVFDLRFTAPNKDILSEKGIHTLEHLYA 60

		

		Query: 62  GFMRDHLNGSNVEIIDISPMGCRTGFYMSLIGEPTERQVADAWLAAMEDVLKVVEQSEIP 121

		           GFMR+HLNG +VEIIDISPMGCRTGFYMSLIG P+E+QVADAW+AAMEDVLKV  Q++IP

		Sbjct: 61  GFMRNHLNGDSVEIIDISPMGCRTGFYMSLIGTPSEQQVADAWIAAMEDVLKVENQNKIP 120

		

		Query: 122 ELNEYQCGTYEMHSLEQAQDIARNIIAAGVSVNRNDDLKLSDEILGNL 169

		           ELNEYQCGT  MHSL++A+ IA+NI+  GV+VN+ND+L L + +L  L

		Sbjct: 121 ELNEYQCGTAAMHSLDEAKQIAKNILEVGVAVNKNDELALPESMLREL 168

		

		

		>ECOLIPORIN#E.coli/Salmonella-type porin signature.

		          Length = 383

		

		 Score = 29.5 bits (66), Expect = 0.046

		 Identities = 14/39 (35%), Positives = 18/39 (46%)

		

		Query: 418 EKVDVNRKVNLAYAGLEAADFSDSDWMPQLGVLYHAGDW 456

		           E    N    LA+AGL+  D+   D+    GVLY    W

		Sbjct: 87  EGEGANSWTRLAFAGLKFGDYGSFDYGRNYGVLYDVEGW 125

		

		

		>BCTERIALGSPG#Bacterial general secretion pathway protein G

		          signature.

		          Length = 145

		

		 Score = 31.8 bits (72), Expect = 7e-04

		 Identities = 10/24 (41%), Positives = 18/24 (75%), Gaps = 2/24 (8%)

		

		Query: 21 QRGFSLIEVLVALVIL--VIGLIG 42

		          QRGF+L+E++V +VI+  +  L+ 

		Sbjct: 7  QRGFTLLEIMVVIVIIGVLASLVV 30

		

		

		>BCTERIALGSPG#Bacterial general secretion pathway protein G

		          signature.

		          Length = 145

		

		 Score = 52.2 bits (125), Expect = 1e-11

		 Identities = 20/61 (32%), Positives = 38/61 (62%)

		

		Query: 6  KGFTLIEVMITVVIIGILAAIAYPSYTQYIALSARSEGLAALMRIANLQEQYYLDNRAYA 65

		          +GFTL+E+M+ +VIIG+LA++  P+       + + + ++ ++ + N  + Y LDN  Y 

		Sbjct: 8  RGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQKAVSDIVALENALDMYKLDNHHYP 67

		

		Query: 66 T 66

		          T

		Sbjct: 68 T 68

		

		

		>BCTERIALGSPG#Bacterial general secretion pathway protein G

		          signature.

		          Length = 145

		

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

		 Identities = 12/28 (42%), Positives = 20/28 (71%)

		

		Query: 6  KGFTLVELMVTIAVAAILLAIGVPSLTS 33

		          +GFTL+E+MV I +  +L ++ VP+L  

		Sbjct: 8  RGFTLLEIMVVIVIIGVLASLVVPNLMG 35

		

		

		>BCTERIALGSPG#Bacterial general secretion pathway protein G

		          signature.

		          Length = 145

		

		 Score = 29.9 bits (67), Expect = 0.002

		 Identities = 13/50 (26%), Positives = 30/50 (60%), Gaps = 3/50 (6%)

		

		Query: 5  QKGFSLIELITTLSISTILFTVGTPSFT---DLSDQIRADSNIRTIQQTL 51

		          Q+GF+L+E++  + I  +L ++  P+     + +D+ +A S+I  ++  L

		Sbjct: 7  QRGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQKAVSDIVALENAL 56

		

		

		>ACRIFLAVINRP#Acriflavin resistance protein family signature.

		          Length = 1034

		

		 Score = 33.3 bits (76), Expect = 0.001

		 Identities = 21/89 (23%), Positives = 29/89 (32%), Gaps = 10/89 (11%)

		

		Query: 80  STVDAITAEDIGKFPDKNVAESLQRIPGVTIQRQFGEGAGVSI-----RGAGQDLTLTT- 133

		           S     T +DI  +   NV ++L R+ GV   + FG    + I           LT    

		Sbjct: 144 SDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFGAQYAMRIWLDADLLNKYKLTPVDV 203

		

		Query: 134 ---LNGQNV-ASTGWFVLEPAKRSFNYEL 158

		              L  QN   + G     PA        

		Sbjct: 204 INQLKVQNDQIAAGQLGGTPALPGQQLNA 232

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 25.6 bits (56), Expect = 0.043

		 Identities = 10/59 (16%), Positives = 21/59 (35%), Gaps = 6/59 (10%)

		

		Query: 7   HKSYPQAFKDEAVLMVLEQ-GYSVADAAKSLGVSTSLLYNWKEKHEALKQGITLEESER 64

		           +       +   +L  L     +   AA  LG++ + L     +      G+++  S R

		Sbjct: 429 YDRVLAEMEYPLILAALTATRGNQIKAADLLGLNRNTLRKKIREL-----GVSVYRSSR 482

		

		

		>ACETATEKNASE#Acetate kinase family signature.

		          Length = 400

		

		 Score = 33.2 bits (76), Expect = 0.001

		 Identities = 16/69 (23%), Positives = 24/69 (34%), Gaps = 10/69 (14%)

		

		Query: 184 FISGTGFVRDFRAAGGVADSGIEIAQMMQAGDPLATQAFDRFIDRLARSLAHVINMMDP- 242

		               +G   DFR                + GD  A  A + F  R+ +++      M   

		Sbjct: 273 VYGISGISSDFRDL---------EDAAFKNGDKRAQLALNVFAYRVKKTIGSYAAAMGGV 323

		

		Query: 243 DVIVLGGGV 251

		           DVIV   G+

		Sbjct: 324 DVIVFTAGI 332

		

		

		>cloacin#Cloacin signature.

		          Length = 551

		

		 Score = 29.3 bits (65), Expect = 0.010

		 Identities = 16/41 (39%), Positives = 24/41 (58%), Gaps = 3/41 (7%)

		

		Query: 53  QTDLNNATVALKAAEIEKDRLRLDAALTAKTLTVREQERNK 93

		           QTD+NN   A  AA  EK     DAAL++  +  R+++ +K

		Sbjct: 401 QTDVNNKQAAFDAAAKEKS--DADAALSS-AMESRKKKEDK 438

		

		

		>NUCEPIMERASE#Nucleotide sugar epimerase signature.

		          Length = 334

		

		 Score = 36.7 bits (85), Expect = 1e-04

		 Identities = 35/181 (19%), Positives = 53/181 (29%), Gaps = 48/181 (26%)

		

		Query: 73  QLDITDAANIAAVFDQYRPSWVINCAAYNAVDAAEHDAIEAHRVNALGPELLAQQCLQSG 132

		           ++D+ D   +  +F       V       AV  +  +       N  G   + + C  + 

		Sbjct: 58  KIDLADREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFLNILEGCRHNK 117

		

		Query: 133 -ARLLHVSSDYVFGGHTVCGIAHAAERAVCDARESGVEQHQNPDLAPNSNPNHLPRPFVE 191

		              LL+ SS  V+G +                                        PF  

		Sbjct: 118 IQHLLYASSSSVYGLNR-------------------------------------KMPFST 140

		

		Query: 192 LD-APEPLSTYGKSKLLGELKVVA---ILGERATIVRTSWLYGQNG------HNFVKTML 241

		            D    P+S Y  +K   EL       + G  AT +R   +YG  G        F K ML

		Sbjct: 141 DDSVDHPVSLYAATKKANELMAHTYSHLYGLPATGLRFFTVYGPWGRPDMALFKFTKAML 200

		

		Query: 242 N 242

		            

		Sbjct: 201 E 201

		

		

		>ACETATEKNASE#Acetate kinase family signature.

		          Length = 400

		

		 Score = 29.0 bits (65), Expect = 0.022

		 Identities = 9/47 (19%), Positives = 17/47 (36%), Gaps = 1/47 (2%)

		

		Query: 218 IDEGDAIAVAAFDRYMDRLARSLAHVINMLDP-DAIVLGGGMSNVAA 263

		              GD  A  A + +  R+ +++      +   D IV   G+     

		Sbjct: 291 FKNGDKRAQLALNVFAYRVKKTIGSYAAAMGGVDVIVFTAGIGENGP 337

		

		

		>TONBPROTEIN#Gram-negative bacterial tonB protein signature.

		          Length = 239

		

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

		 Identities = 16/53 (30%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

		

		Query: 379 SEPLKPYIPQTNEAPTPAVKVKQKRLPERKPTAKPKPKAVKKVK-QVKPLQTP 430

		               +P      E P  A  V +K  P+ KP  KP  K  ++ K  VKP+++ 

		Sbjct: 68  VVEPEPEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKVQEQPKRDVKPVESR 120

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 30.2 bits (68), Expect = 0.018

		 Identities = 15/70 (21%), Positives = 29/70 (41%), Gaps = 13/70 (18%)

		

		Query: 64  KLPTPHELRAHLDDYVIGQDRAKKVLSVAVYNHYKRLKNASPKDGIELGKSNILLIGPTG 123

		           + P+  E  +     ++G+       S A+   Y+ L      D        +++ G +G

		Sbjct: 124 RRPSKLEDDSQDGMPLVGR-------SAAMQEIYRVLARLMQTD------LTLMITGESG 170

		

		Query: 124 SGKTLLAETL 133

		           +GK L+A  L

		Sbjct: 171 TGKELVARAL 180

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 34.4 bits (79), Expect = 0.002

		 Identities = 45/211 (21%), Positives = 76/211 (36%), Gaps = 37/211 (17%)

		

		Query: 261 NMPAEAKEKALAELNKLRMMSP---MSAEATV---VRSY----VDWMTSVPWSQRSKIKR 310

		            MP E     L  + K R   P   MSA+ T    +++      D++   P+     I  

		Sbjct: 56  VMPDENAFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPK-PFDLTELIGI 114

		

		Query: 311 D---------LAKAQEVLDTDHFGLEKVKERILEYLAVQSRVRQLKGPILCLVGPPGVGK 361

		                          E    D   L      + E   V +R+ Q    ++ + G  G GK

		Sbjct: 115 IGRALAEPKRRPSKLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTDLTLM-ITGESGTGK 173

		

		Query: 362 TSLGQSIAKATGRK---YVRVALGGVRD---EAEIRGHRRTYIGSMPGKVIQKMAKVGVK 415

		             + +++     R+   +V + +  +     E+E+ GH +   G+  G   +   +    

		Sbjct: 174 ELVARALHDYGKRRNGPFVAINMAAIPRDLIESELFGHEK---GAFTGAQTRSTGRFEQA 230

		

		Query: 416 N--PLFLLDEIDKMSSDMRGDPASALLEVLD 444

		               LFL DEI  M  D +    + LL VL 

		Sbjct: 231 EGGTLFL-DEIGDMPMDAQ----TRLLRVLQ 256

		

		

		>ECOLIPORIN#E.coli/Salmonella-type porin signature.

		          Length = 383

		

		 Score = 69.6 bits (170), Expect = 4e-15

		 Identities = 100/417 (23%), Positives = 163/417 (39%), Gaps = 52/417 (12%)

		

		Query: 1   MNKTLVATALAAIFLVPSVSAIEIYKDNKNAVEIGGFIDARVINTQGETEVVNG-ASRIN 59

		           M + ++A  + A+    +  A EIY  + N +++ G +D     +   ++  +G  + + 

		Sbjct: 1   MKRKVLALVIPALLAAGAAHAAEIYNKDGNKLDLYGKVDGLHYFSDDSSK--DGDQTYMR 58

		

		Query: 60  FGFNRE--LTDGWKAFAKLEWGVNPVGSSDIVYNNRFESVQEEFFYNRLGYAGLSHDTYG 117

		            GF  E  + D    + + E+ V           N  E      +  RL +AGL    YG

		Sbjct: 59  VGFKGETQINDQLTGYGQWEYNVQ---------ANTTEGEGANSW-TRLAFAGLKFGDYG 108

		

		Query: 118 TLTIGKQWGAWYDVVYNTNYGFVWDGNTAGVYTYNKDDGAVNGVGRGDKTVQYRNA--FG 175

		           +   G+ +G  YDV   T+    + G++   Y  N   G  NGV        YRN   FG

		Sbjct: 109 SFDYGRNYGVLYDVEGWTDMLPEFGGDSYT-YADNYMTGRANGV------ATYRNTDFFG 161

		

		Query: 176 DV---SFAVQAQLKNSSFYTCDTTDDITQAQCQADW--ESGDKAAQQVEYNYTYGGALTY 230

		            V   +FA+Q Q KN S    D            D   ++GD       Y+   G +   

		Sbjct: 162 LVDGLNFALQYQGKNESQSADDVNIGTNNRNNGDDIRYDNGDGFGISTTYDIGMGFSAGA 221

		

		Query: 231 KATDMLTLTAGINRGEFEVSFGNGEQRTAIDVIYGAGITWGNFDNDGLYAAA------NF 284

		             T        +N G    +   G++  A    + AG+    +D + +Y A       N 

		Sbjct: 222 AYTTSDRTNEQVNAG---GTIAGGDKADA----WTAGL---KYDANNIYLATMYSETRNM 271

		

		Query: 285 NRQENHDTDNIGRLIKDAYGIESLVSYKFDNGLRPFISYNVLDAGKDYVIQPNFNADPND 344

		                 D    G +       E    Y+FD GLRP +S+ ++  GKD +   N N D  D

		Sbjct: 272 TPYGKTDKGYDGGVANKTQNFEVTAQYQFDFGLRPAVSF-LMSKGKD-LTYNNVNGDDKD 329

		

		Query: 345 EFKRQFLVVGLHFVWDPNTVLYIEARKDYSDFTSADKDQEARMALSESDGVAIGIRY 401

		             K  +  VG  + ++ N   Y++ + +  D    D        +S  D VA+G+ Y

		Sbjct: 330 LVK--YADVGATYYFNKNFSTYVDYKINLLD---DDDPFYKDAGISTDDIVALGMVY 381

		

		

		>PF03544#Gram-negative bacterial tonB protein

		          Length = 243

		

		 Score =  102 bits (256), Expect = 4e-29

		 Identities = 35/169 (20%), Positives = 65/169 (38%), Gaps = 11/169 (6%)

		

		Query: 39  TPVIEITMDRQDSKAQNKPRVVPKPPPPPEQPQKPDTTPPDSSSNID----TSMSFNMGG 94

		            P  E     +  K        PKP P P+         P            S   N   

		Sbjct: 75  EPEPEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKVEQPKRDVKPVESRPASPFENTAP 134

		

		Query: 95  VEAGGASTG-FKLGNMMTRDGDATPIVRIEPQYPIAAARDGKEGWVQLRFTINELGGIDD 153

		                ++        + +       + R +PQYP  A     EG V+++F +   G +D+

		Sbjct: 135 ARPTSSTATAATSKPVTSVASGPRALSRNQPQYPARAQALRIEGQVKVKFDVTPDGRVDN 194

		

		Query: 154 VEVIQAEPKRLFDKEAIRALKKWKYKPKIVDGKPLKQTGQTVQLDFTLD 202

		           V+++ A+P  +F++E   A+++W+Y+P          +G  V + F ++

		Sbjct: 195 VQILSAKPANMFEREVKNAMRRWRYEP------GKPGSGIVVNILFKIN 237

		

		

		>SYCDCHAPRONE#Gram-negative bacterial type III secretion SycD

		           chaperone signature.

		          Length = 168

		

		 Score = 29.9 bits (67), Expect = 0.011

		 Identities = 11/52 (21%), Positives = 21/52 (40%)

		

		Query: 197 AYFNQKKYKKAVGVLEVMVPLFPEDGRLWVQLAQFYLMVEDYDKSLATYDLA 248

		             +   KY+ A  V + +  L   D R ++ L      +  YD ++ +Y   

		Sbjct: 45  NQYQSGKYEDAHKVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYG 96

		

		

		>SACTRNSFRASE#Streptothricin acetyltransferase signature.

		          Length = 173

		

		 Score = 26.4 bits (58), Expect = 0.046

		 Identities = 12/73 (16%), Positives = 26/73 (35%), Gaps = 1/73 (1%)

		

		Query: 97  LAAEGQGKGYATESLMAVIDWACLSFNVHKFVGHCAKDNHASARVLEKCGFRLEGLLRQQ 156

		           +A + + KG  T  L   I+WA    +    +      N ++     K  F +  +    

		Sbjct: 97  VAKDYRKKGVGTALLHKAIEWA-KENHFCGLMLETQDINISACHFYAKHHFIIGAVDTML 155

		

		Query: 157 FKMGENWFDESVF 169

		           +       + ++F

		Sbjct: 156 YSNFPTANEIAIF 168

		

		

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

		          Length = 1541

		

		 Score = 53.9 bits (129), Expect = 3e-09

		 Identities = 52/307 (16%), Positives = 106/307 (34%), Gaps = 16/307 (5%)

		

		Query: 198  AADISALVKAQRSRRDGILQSAGLASDDELSNELAKLTPELALA--QSAKEQALQQQQLI 255

		              +I A V +  S  + I +              ++ T  +A    Q +K     +Q   

		Sbjct: 1000 PNNIQADVPSVPSNNEEIARVDEAPVPPPAPATPSETTETVAENSKQESKTVEKNEQDAT 1059

		

		Query: 256  IKASDAAQHLLAEFAQFDTLTQTAAALEAQQESIVAQT-HKLNLANQAQRLAPMVEVFLA 314

		               +   +      +     TQT    ++  E+   QT      A   +     VE    

		Sbjct: 1060 ETTAQNREVAKEAKSNVKANTQTNEVAQSGSETKETQTTETKETATVEKEEKAKVETEKT 1119

		

		Query: 315  REQEAKAANLAFSHAQTALTQAKQAFDDAELKAQDLPVLEASLLEQEQAKQQLNALGPQL 374

		            +E     + ++    Q+   Q +     AE   ++ P +     ++ Q++    A   Q 

		Sbjct: 1120 QEVPKVTSQVSPKQEQSETVQPQ-----AEPARENDPTVNI---KEPQSQTNTTADTEQP 1171

		

		Query: 375  -RELDRLNKTLEQEQAQLVRAKAQLQNSKNELTAATQKRRELESALPPLQANSDTRLSLQ 433

		             +E     +    E   +    + ++N +N   A TQ     ES+  P   +  +  S  

		Sbjct: 1172 AKETSSNVEQPVTESTTVNTGNSVVENPENTTPATTQPTVNSESSNKPKNRHRRSVRS-- 1229

		

		Query: 434  QAHQQQQQLLSTYQQWQQVAARVSS--TKEKLAEAKAQGQQLNAEHQQAQVAHKALLLTW 491

		              H  +    S+  +       ++S  T   L++A+A+ Q +     +A   H + L   

		Sbjct: 1230 VPHNVEPATTSSNDRSTVALCDLTSTNTNAVLSDARAKAQFVALNVGKAVSQHISQLEMN 1289

		

		Query: 492  HQGQAAI 498

		            ++GQ  +

		Sbjct: 1290 NEGQYNV 1296

		

		

		

		 Score = 30.4 bits (68), Expect = 0.046

		 Identities = 53/358 (14%), Positives = 109/358 (30%), Gaps = 43/358 (12%)

		

		Query: 361  EQAKQQLNALGPQLRELDRLNKTL--------------------------EQEQA-QLVR 393

		            E    +L        + D LN +L                          E E+  Q V 

		Sbjct: 934  EPNHNELTLFDASKAQRDHLNVSLVGNTVDLGAWKYKLRNVNGRYDLYNPEVEKRNQTVD 993

		

		Query: 394  AK--AQLQNSKNELTAATQKRREL----ESALPPLQANSDTRLSLQQAHQQQQQLLSTYQ 447

		                    N + ++ +      E+    E+ +PP    + +  +   A   +Q+  +  +

		Sbjct: 994  TTNITTPNNIQADVPSVPSNNEEIARVDEAPVPPPAPATPSETTETVAENSKQESKTVEK 1053

		

		Query: 448  QWQQVAARVSSTKEKLAEAKAQGQQLNAEHQQAQVAHKALLLTWHQGQAAILARQLQQDE 507

		              Q      +  +E   EAK     + A  Q  +VA         Q         ++++E

		Sbjct: 1054 NEQDATETTAQNREVAKEAK---SNVKANTQTNEVAQSGSETKETQTTETKETATVEKEE 1110

		

		Query: 508  PCPVCGSQTHPQPAQSQEPLPSDEALQLAQ-DTETTAQEVLSKARAEYRGLDAQFKILQQ 566

		               V   +T   P  + +  P  E  +  Q   E   +   +    E +         +Q

		Sbjct: 1111 KAKVETEKTQEVPKVTSQVSPKQEQSETVQPQAEPARENDPTVNIKEPQSQTNTTADTEQ 1170

		

		Query: 567  QSQDLVAQLGTAVDISQDQHAHTLSQYA---FSLTQAEQAHQDLQQLQQEIVLLHAQETH 623

		             +++  + +   V  ++    +T +       + T A        +   +    H +   

		Sbjct: 1171 PAKETSSNVEQPV--TESTTVNTGNSVVENPENTTPATTQPTVNSESSNKPKNRHRRSVR 1228

		

		Query: 624  LQQKLEQGQTHDSALQSKVDLLQGQLAHIQQSVPPALATLEALTAAITQN-QQQISQI 680

		                  +  T  S  +S V L      +    +  A A  + +   + +   Q ISQ+

		Sbjct: 1229 SVPHNVEPATTSSNDRSTVALCDLTSTNTNAVLSDARAKAQFVALNVGKAVSQHISQL 1286

		

		

		>SACTRNSFRASE#Streptothricin acetyltransferase signature.

		          Length = 173

		

		 Score = 40.7 bits (95), Expect = 5e-07

		 Identities = 20/57 (35%), Positives = 30/57 (52%)

		

		Query: 80  LILNDVYVTQHARCVGIGRALVQQAASYAKAHNMSYLMLETQQKNQRAQGLYEGLGF 136

		            ++ D+ V +  R  G+G AL+ +A  +AK ++   LMLETQ  N  A   Y    F

		Sbjct: 90  ALIEDIAVAKDYRKKGVGTALLHKAIEWAKENHFCGLMLETQDINISACHFYAKHHF 146

		

		

		>MICOLLPTASE#Microbial collagenase metalloprotease (M9) signature.

		          Length = 1104

		

		 Score = 76.3 bits (187), Expect = 4e-16

		 Identities = 34/128 (26%), Positives = 60/128 (46%), Gaps = 9/128 (7%)

		

		Query: 784 APVASFTQVVNGAAVQLTST-STDSDGQIVSAEWSFGDNTVAVGEVVTHSYSQSGEYLVT 842

		           A + S + V+    +    T S D DG+I + EW FGD   +     TH Y+++GEY V 

		Sbjct: 777 AVIKSDSSVIVEEEINFDGTESKDEDGEIKAYEWDFGDGEKSNEAKATHKYNKTGEYEVK 836

		

		Query: 843 LTVTDNDGLTHSTSQTVTVVVGEVKQP------PVAQIQRINLLF-VDMFISTSYDTDGV 895

		           LTVTDN+G  ++ S+ +  VV +          P    ++ N +   +M +  +   +  

		Sbjct: 837 LTVTDNNGGINTESKKI-KVVEDKPVEVINESEPNNDFEKANQIAKSNMLVKGTLSEEDY 895

		

		Query: 896 IKQHKWTF 903

		             ++ +  

		Sbjct: 896 SDKYYFDV 903

		

		

		

		 Score = 40.5 bits (94), Expect = 4e-05

		 Identities = 18/55 (32%), Positives = 32/55 (58%), Gaps = 1/55 (1%)

		

		Query: 889 SYDTDGVIKQHKWTFDNGTRAN-GQVVLRLARRGQHTVELTVKDNDKLTDTTTLT 942

		           S D DG IK ++W F +G ++N  +   +  + G++ V+LTV DN+   +T +  

		Sbjct: 798 SKDEDGEIKAYEWDFGDGEKSNEAKATHKYNKTGEYEVKLTVTDNNGGINTESKK 852

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 25.6 bits (56), Expect = 0.043

		 Identities = 10/59 (16%), Positives = 21/59 (35%), Gaps = 6/59 (10%)

		

		Query: 7   HKSYPQAFKDEAVLMVLEQ-GYSVADAAKSLGVSTSLLYNWKEKHEALKQGITLEESER 64

		           +       +   +L  L     +   AA  LG++ + L     +      G+++  S R

		Sbjct: 429 YDRVLAEMEYPLILAALTATRGNQIKAADLLGLNRNTLRKKIREL-----GVSVYRSSR 482

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 62.2 bits (151), Expect = 1e-13

		 Identities = 31/159 (19%), Positives = 66/159 (41%), Gaps = 14/159 (8%)

		

		Query: 11  ILVVDDHSLIFDGLLGCLAPYPELNL-IGSVEDGLAVYEKCLKLRPDLVFMDLKLPGMGG 69

		           ILV DD + I   L   L+          +                DLV  D+ +P    

		Sbjct: 6   ILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAA---GDGDLVVTDVVMPDENA 62

		

		Query: 70  FDVIRQLRQRWPEMMIIMLTATVEEKSAREALDVGANGYVLKYSPKSTLLAAIKCVCKGK 129

		           FD++ ++++  P++ +++++A     +A +A + GA  Y+ K    + L+  I       

		Sbjct: 63  FDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRAL--- 119

		

		Query: 130 NFIDPSLDERQIAALSGVVDGDMPLL--TPREQQVLKLI 166

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

		Sbjct: 120 -----AEPKRRPSKLEDDSQDGMPLVGRSAAMQEIYRVL 153

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 72.9 bits (179), Expect = 2e-15

		 Identities = 26/120 (21%), Positives = 45/120 (37%), Gaps = 8/120 (6%)

		

		Query: 696 KILLVDDVETNRDIIGKMLLELGQQVIAVNSGEAALEKGTRHIFDLVLMDIRMPGLDGYQ 755

		            IL+ DD    R ++ + L   G  V   ++             DLV+ D+ MP  + + 

		Sbjct: 5   TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64

		

		Query: 756 TTQQWRHSEDILDGDCPIFALTANANPKEHDTIEA--AGMNSYITKPVSLKQLNHALEAA 813

		              + +        D P+  ++A         I+A   G   Y+ KP  L +L   +  A

		Sbjct: 65  LLPRIKK----ARPDLPVLVMSAQNTF--MTAIKASEKGAYDYLPKPFDLTELIGIIGRA 118

		

		

		>TYPE3OMGPROT#Type III secretion system outer membrane G protein

		           family signature.

		          Length = 607

		

		 Score =  441 bits (1135), Expect = e-152

		 Identities = 157/503 (31%), Positives = 263/503 (52%), Gaps = 24/503 (4%)

		

		Query: 6   SLLLLCQMGLAQAAPLTNIKWQGEPFVMISRGTALTSVIQDFASNYGVPVIVSNKVNDNY 65

		           +LLLL     AQ        W   P+V +++G +L  ++ DF +NY   V+VS+K+ND  

		Sbjct: 16  TLLLLSSYSWAQELD-----WLPIPYVYVAKGESLRDLLTDFGANYDATVVVSDKINDKV 70

		

		Query: 66  IGQIQQQDPQSVIQDLTRRFGLVWYYNNDVLYVYKASEINSEVLPLTSLSAAKVDHYLRS 125

		            GQ +  +PQ  +Q +   + LVWYY+ +VLY++K SE+ S ++ L    AA++   L+ 

		Sbjct: 71  SGQFEHDNPQDFLQHIASLYNLVWYYDGNVLYIFKNSEVASRLIRLQESEAAELKQALQR 130

		

		Query: 126 AGVLDKGVCSIKSMAGISGLQVTGVPECINSVTKLTAQLDANAKQTTE--NQETVKVYPL 183

		           +G+ +      +  A    + V+G P  +  V +  A L+   +  +E      ++++PL

		Sbjct: 131 SGIWEPR-FGWRPDASNRLVYVSGPPRYLELVEQTAAALEQQTQIRSEKTGALAIEIFPL 189

		

		Query: 184 KYASATDSVYQYRSQPVSIPGLVTVLKEMDQGTQV-------ANAVAGSVSNISGPVFAA 236

		           KYASA+D    YR   V+ PG+ T+L+ +     +             +    +     A

		Sbjct: 190 KYASASDRTIHYRDDEVAAPGVATILQRVLSDATIQQVTVDNQRIPQAATRASAQARVEA 249

		

		Query: 237 DPRQNAIIVRGSARDMATYGSLIRQLDTKPTMIEVSVSIFDVDASDFKQLGIDWSASAKL 296

		           DP  NAIIVR S   M  Y  LI  LD     IEV++SI D++A    +LG+DW    + 

		Sbjct: 250 DPSLNAIIVRDSPERMPMYQRLIHALDKPSARIEVALSIVDINADQLTELGVDWRVGIRT 309

		

		Query: 297 GGGSVSFN---------SGDSSDNFSTVIGNTGNFMLRLNALEKNSKAKVLSRPSVVTLN 347

		           G                + + +             + R+N LE    A+V+SRP+++T  

		Sbjct: 310 GNNHQVVIKTTGDQSNIASNGALGSLVDARGLDYLLARVNLLENEGSAQVVSRPTLLTQE 369

		

		Query: 348 NVQAVLDKNVTFYTKLEGDKVAKLESVTTGSLLRVTPRLIDEVGHQAVMLDLNIQDGQQS 407

		           N QAV+D + T+Y K+ G +VA+L+ +T G++LR+TPR++ +     + L+L+I+DG Q 

		Sbjct: 370 NAQAVIDHSETYYVKVTGKEVAELKGITYGTMLRMTPRVLTQGDKSEISLNLHIEDGNQK 429

		

		Query: 408 QAVSRSEPLPQVQNSEISTQATLKSGESLLLGGFVQDRDETTQNKIPLLGDLPLLGGLFR 467

		              S  E +P +  + + T A +  G+SL++GG  +D      +K+PLLGD+P +G LFR

		Sbjct: 430 PNSSGIEGIPTISRTVVDTVARVGHGQSLIIGGIYRDELSVALSKVPLLGDIPYIGALFR 489

		

		Query: 468 STDHHTQSVMRLFLIKAEPVNQG 490

		                T+  +RLF+I+   +++G

		Sbjct: 490 RKSELTRRTVRLFIIEPRIIDEG 512

		

		

		>SYCDCHAPRONE#Gram-negative bacterial type III secretion SycD

		           chaperone signature.

		          Length = 168

		

		 Score = 94.2 bits (234), Expect = 3e-27

		 Identities = 44/148 (29%), Positives = 68/148 (45%)

		

		Query: 9   DFEKLEAACQLALVNQQTLAEQVGLTSQDLEQTYQSGTSKYQMGLPAEAIVDFTYLVMHQ 68

		           D ++ + A +  L    T+A    ++S  LEQ Y    ++YQ G   +A   F  L +  

		Sbjct: 7   DTQEYQLAMESFLKGGGTIAMLNEISSDTLEQLYSLAFNQYQSGKYEDAHKVFQALCVLD 66

		

		Query: 69  PWDRRFHLGLGSCLHWLGEYQHALTFYGYALVMDACSPDASFRIAQCFLSLNDDAAAIEA 128

		            +D RF LGLG+C   +G+Y  A+  Y Y  +MD   P   F  A+C L   + A A   

		Sbjct: 67  HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAIMDIKEPRFPFHAAECLLQKGELAEAESG 126

		

		Query: 129 LQMAISQSFSKPEHHFVGEQAQQLLSAL 156

		           L +A      K E   +  +   +L A+

		Sbjct: 127 LFLAQELIADKTEFKELSTRVSSMLEAI 154

		

		

		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D

		           signature.

		          Length = 478

		

		 Score = 36.0 bits (83), Expect = 2e-04

		 Identities = 23/188 (12%), Positives = 62/188 (32%), Gaps = 19/188 (10%)

		

		Query: 185 LVVGTLWSAVVSPPSLPAHIAGTVNIVNMARRSAEPVVEGVIG--LV-DNTSTK---VLD 238

		           LV+  + S +     + A   G +   +   +  +P+   ++   +V +  S +   VL 

		Sbjct: 68  LVIAFILSVL-GQVEIVATANGKL-THSGRSKEIKPIENSIVKEIIVKEGESVRKGDVLL 125

		

		Query: 239 KLKGTSQNKSLEAEVSSVKAYQLRQLQASALTQQGNMKLSEAQLAVKDSQAKEKTAQFDA 298

		           KL             SS+   +L Q +   L++     +   +L       +        

		Sbjct: 126 KLTALGAEADTLKTQSSLLQARLEQTRYQILSRS----IELNKLPELKLPDEPYFQNVSE 181

		

		Query: 299 EIRMKQSQQLRGTNQALQQQLADKDGLLLQSQNQFEQLQSRFDKSNVQLSGVMQQLHMLQ 358

		           E  ++ +  ++      Q Q         Q +   ++ ++       +++       + +

		Sbjct: 182 EEVLRLTSLIKEQFSTWQNQKY-------QKELNLDKKRAERLTVLARINRYENLSRVEK 234

		

		Query: 359 QQLAELQP 366

		            +L +   

		Sbjct: 235 SRLDDFSS 242

		

		

		>FLGMRINGFLIF#Flagellar M-ring protein signature.

		          Length = 559

		

		 Score = 79.2 bits (195), Expect = 4e-19

		 Identities = 48/190 (25%), Positives = 81/190 (42%), Gaps = 10/190 (5%)

		

		Query: 22  LYRDLPQDEANQMVALLMLNHIDASAEADQKSGNVSLKIEKDQFINAVELLRQNGFPKPH 81

		           L+ +L   +   +VA L   +I         +G+ ++++  D+       L Q G PK  

		Sbjct: 53  LFSNLSDQDGGAIVAQLTQMNIPY----RFANGSGAIEVPADKVHELRLRLAQQGLPKGG 108

		

		Query: 82  YANIEDLFPSGQLVTSPAQEEAKMGYLKEQQLERTLSSMDGVISARVSIAEPAPDTGRQL 141

		               E L    +   S   E+       E +L RT+ ++  V SARV +A P P    + 

		Sbjct: 109 AVGFE-LLDQEKFGISQFSEQVNYQRALEGELARTIETLGPVKSARVHLAMPKPSLFVRE 167

		

		Query: 142 AQTKSASVYIKYSPQANLTNTE-NQIKSLVQNAVPGLSYDNISVFLQAASYRYQAITQPT 200

		            ++ SASV +   P   L   + + +  LV +AV GL   N+++  Q+       +TQ  

		Sbjct: 168 QKSPSASVTVTLEPGRALDEGQISAVVHLVSSAVAGLPPGNVTLVDQSGHL----LTQSN 223

		

		Query: 201 SSSSSQLLAQ 210

		           +S      AQ

		Sbjct: 224 TSGRDLNDAQ 233

		

		

		>PF07201#Hypersensitivity response secretion protein HrpJ

		          Length = 293

		

		 Score = 31.7 bits (72), Expect = 0.003

		 Identities = 37/190 (19%), Positives = 68/190 (35%), Gaps = 26/190 (13%)

		

		Query: 79  LEQLLQQLGDTQATTVNKLVEQFASLG----EGNELLSQLKQLGLDSGNMMLLMMALVVS 134

		           + +LL  L ++   ++++L            E  ++L  L+        +          

		Sbjct: 103 VSELLSLLSNSPNISLSQLKAYLEGKSEEPSEQFKMLCGLRDALKGRPEL---------- 152

		

		Query: 135 GKLGQSAHNKLRKLLTELLAQEGAEIALFAALEGVA-----LDHAGLQALQQLYQQAVRG 189

		                   + + + L  +  ++G  I L A +   A          LQ L+  Y+ AV G

		Sbjct: 153 ----AHLSHLVEQALVSMAEEQGETIVLGARITPEAYRESQSGVNPLQPLRDTYRDAVMG 208

		

		Query: 190 DASLAKWFELLQHL---PDRRKRIRVLLRALSEPLSDQHSGRNMVKIAAAVDDLRRLLIF 246

		              +   +  LQ      D    I  L +ALS  L  Q SG    K+   + DL++L  F

		Sbjct: 209 YQGIYAIWSDLQKRFPNGDIDSVILFLQKALSADLQSQQSGSGREKLGIVISDLQKLKEF 268

		

		Query: 247 LTIEEHCHML 256

		            ++ +     

		Sbjct: 269 GSVSDQVKGF 278

		

		

		>PF05932#Tir chaperone protein (CesT)

		          Length = 127

		

		 Score = 75.2 bits (185), Expect = 2e-20

		 Identities = 23/122 (18%), Positives = 47/122 (38%), Gaps = 11/122 (9%)

		

		Query: 4   HDQLLAQFGQALGL-PLVFDANGQCLLMLDEKLMISI--RYGDVQWTFYCMLAQQPLAEK 60

		           +  LL  F ++L + PLVFD +G C +++D    +++   Y   +     +L       +

		Sbjct: 6   YKTLLDDFSRSLEMQPLVFDDHGTCNMIIDNTFALTLSCDYARERLLLIGLLEPHKDIPQ 65

		

		Query: 61  HYWQACLQLNLQLAEQGKGCICYEPQADALLYLTFIPMP---ASALQLREFLGDLADTYQ 117

		              Q  L   L         +  + ++   LY  +  +P    S   L+  +  L +  +

		Sbjct: 66  ---QCLLAGALNPLLNAGPGLGLDEKSG--LYHAYQSIPREKLSVPTLKREMAGLLEWMR 120

		

		Query: 118 AL 119

		             

		Sbjct: 121 GW 122

		

		

		>FLGMOTORFLIM#Flagellar motor switch protein FliM signature.

		          Length = 344

		

		 Score = 28.7 bits (64), Expect = 0.026

		 Identities = 11/42 (26%), Positives = 21/42 (50%)

		

		Query: 224 SLLPKMDAIQSPLIAEIGRVSLSLAKLGAMMAGDKLTLAVTL 265

		            L  K+  +   ++AE+G + LS+  +  +  GD + L  T 

		Sbjct: 249 VLRDKLSTVDMDVVAEVGSLRLSVRDILGLRVGDIIRLHDTH 290

		

		

		>TYPE3IMPPROT#Type III secretion system inner membrane P protein

		           family signature.

		          Length = 224

		

		 Score =  209 bits (534), Expect = 7e-71

		 Identities = 80/215 (37%), Positives = 129/215 (60%), Gaps = 7/215 (3%)

		

		Query: 8   VQLIIMLFCLSLLPLFAVMGTSFLKLAIVFSMLRNALGIQQIPPNMAIYGLALILTLFTM 67

		           + LI +L   +LLP     GT F+K +IVF M+RNALG+QQIP NM + G+AL+L++F M

		Sbjct: 5   ISLIALLAFSTLLPFIIASGTCFVKFSIVFVMVRNALGLQQIPSNMTLNGVALLLSMFVM 64

		

		Query: 68  APVGMAINDNLKATPIVFDAPNVFEQINTEAIAPYRAFLDKNTSNTQIEFFANIGHKVWP 127

		            P+        +   + F+  +   +   E +  YR +L K +    ++FF N   K   

		Sbjct: 65  WPIMHDAYVYFEDEDVTFNDISSLSKHVDEGLDGYRDYLIKYSDRELVQFFENAQLKRQY 124

		

		Query: 128 EKYQQV-------LTKDSLLVMVPAFTMSQLIEAFKIGLLIYLPFVAIDLIVSNILLAMG 180

		            +  +        + K S+  ++PA+ +S++  AFKIG  +YLPFV +DL+VS++LLA+G

		Sbjct: 125 GEETETVKRDKDEIEKPSIFALLPAYALSEIKSAFKIGFYLYLPFVVVDLVVSSVLLALG 184

		

		Query: 181 MMMVSPMTIALPFKLLIFILMGGWEKLISQLMMSF 215

		           MMM+SP+TI+ P KL++F+ + GW  L   L++ +

		Sbjct: 185 MMMMSPVTISTPIKLVLFVALDGWTLLSKGLILQY 219

		

		

		>TYPE3IMQPROT#Type III secretion system inner membrane Q protein

		          family signature.

		          Length = 86

		

		 Score = 70.9 bits (174), Expect = 3e-20

		 Identities = 33/83 (39%), Positives = 50/83 (60%)

		

		Query: 6  IVHFTSELLWMVLLLSLPVVIVASVVGVLVSLIQALTQIQDQTLQFLIKLIAVCVTLVVC 65

		          +V   ++ L++VL+LS    IVA+++G+LV L Q +TQ+Q+QTL F IKL+ VC+ L + 

		Sbjct: 4  LVFAGNKALYLVLILSGWPTIVATIIGLLVGLFQTVTQLQEQTLPFGIKLLGVCLCLFLL 63

		

		Query: 66 YHWMGSSLLNYASMAFDQISQMG 88

		            W G  LL+Y           G

		Sbjct: 64 SGWYGEVLLSYGRQVIFLALAKG 86

		

		

		>TYPE3IMRPROT#Type III secretion system inner membrane R protein

		           family signature.

		          Length = 261

		

		 Score =  126 bits (317), Expect = 4e-37

		 Identities = 45/238 (18%), Positives = 105/238 (44%), Gaps = 5/238 (2%)

		

		Query: 1   MTTLLPNLLTAQLPVLALCMMRPLGMMLLLPLFKGGAMGSALIRNSLILMFALPTVLAMD 60

		           M  +      + L +    ++R L ++   P+    ++    ++  L +M     +    

		Sbjct: 1   MLQVTSEQWLSWLNLYFWPLLRVLALISTAPILSERSVPK-RVKLGLAMMITFA-IAPSL 58

		

		Query: 61  EMQPILQQADTWMLISLFGKEMIVGVLLGFCAAIPFWAIDMAGFVIDTMRGASMSTVLNP 120

		               +   +   + +++  +++++G+ LGF     F A+  AG +I    G S +T ++P

		Sbjct: 59  PANDVPVFSFFALWLAV--QQILIGIALGFTMQFAFAAVRTAGEIIGLQMGLSFATFVDP 116

		

		Query: 121 LMGLQSSIYGMLFTQVLTVLFLVSGGFNFLLTALYQSYQQLPPGFNLTLAQPLMVFIAHE 180

		              L   +   +   +  +LFL   G  +L++ L  ++  LP G     +   +      

		Sbjct: 117 ASHLNMPVLARIMDMLALLLFLTFNGHLWLISLLVDTFHTLPIGGEPLNSNAFLALTKAG 176

		

		Query: 181 WQLMCQLCLSFAMPAMVIMILVDVALGLVNRSAQQLNVFFLSMPIKSALVLLLLIYSL 238

		             +     L  A+P + +++ +++ALGL+NR A QL++F +  P+   + + L+   +

		Sbjct: 177 SLIF-LNGLMLALPLITLLLTLNLALGLLNRMAPQLSIFVIGFPLTLTVGISLMAALM 233

		

		

		>TYPE3IMSPROT#Type III secretion system inner membrane S protein

		           family signature.

		          Length = 354

		

		 Score =  356 bits (916), Expect = e-125

		 Identities = 119/348 (34%), Positives = 190/348 (54%)

		

		Query: 2   AEKTEKPTEKRLREARNRGQVIKSAEIVTGLQMAIILGYFLYEGPALVQAMMALIDLTIN 61

		            EKTE+PT K++R+AR +GQV KS E+V+   +  +    +       +    L+ +   

		Sbjct: 3   GEKTEQPTPKKIRDARKKGQVAKSKEVVSTALIVALSAMLMGLSDYYFEHFSKLMLIPAE 62

		

		Query: 62  AINLPLETAAEQIVGTFAMLALRFLGGLTLVLVFTIVVGNSVQTGPVWATESIMPSMNKL 121

		              LP   A   +V    +        L  V     +  + VQ G + + E+I P + K+

		Sbjct: 63  QSYLPFSQALSYVVDNVLLEFFYLCFPLLTVAALMAIASHVVQYGFLISGEAIKPDIKKI 122

		

		Query: 122 NVMNNAKQLISLKSLFELAKNLVKVTVLSLVFYYLLHRYVNAFQYLPLCEEACGISVIST 181

		           N +  AK++ S+KSL E  K+++KV +LS++ + ++   +     LP C   C   ++  

		Sbjct: 123 NPIEGAKRIFSIKSLVEFLKSILKVVLLSILIWIIIKGNLVTLLQLPTCGIECITPLLGQ 182

		

		Query: 182 MITWLWGSFLGCYLIFGIADYAFQRYSLMKELKMSKDDTKQEYKDSEGNPEMKQKRRETQ 241

		           ++  L       +++  IADYAF+ Y  +KELKMSKD+ K+EYK+ EG+PE+K KRR+  

		Sbjct: 183 ILRQLMVICTVGFVVISIADYAFEYYQYIKELKMSKDEIKREYKEMEGSPEIKSKRRQFH 242

		

		Query: 242 REVASGSLANNVRKATVVVRNPTHIAVCLYYCEGETPLPKVLEKAEDHMALHIVALAEKA 301

		           +E+ S ++  NV++++VVV NPTHIA+ + Y  GETPLP V  K  D     +  +AE+ 

		Sbjct: 243 QEIQSRNMRENVKRSSVVVANPTHIAIGILYKRGETPLPLVTFKYTDAQVQTVRKIAEEE 302

		

		Query: 302 GVPIVENIPLARALFKHVETGDVIPESLFEPVAELLRLVMAISYDNMK 349

		           GVPI++ IPLARAL+        IP    E  AE+LR +   + +   

		Sbjct: 303 GVPILQRIPLARALYWDALVDHYIPAEQIEATAEVLRWLERQNIEKQH 350