PredictBias

		>PF00577#Outer membrane usher protein FimD

		          Length = 878

		

		 Score = 29.4 bits (66), Expect = 0.006

		 Identities = 12/51 (23%), Positives = 21/51 (41%), Gaps = 3/51 (5%)

		

		Query: 6   PYNGNVTSINPEDIESTVILKDATATAIYGARGANGVVLINTKTGRGRSVI 56

		            Y  N  +++   +   V L +A A  +   RGA  +V    K   G  ++

		Sbjct: 752 EYRENRVALDTNTLADNVDLDNAVANVVPT-RGA--IVRAEFKARVGIKLL 799

		

		

		>LPSBIOSNTHSS#Lipopolysaccharide core biosynthesis protein

		          signature.

		          Length = 166

		

		 Score = 25.9 bits (57), Expect = 0.019

		 Identities = 11/37 (29%), Positives = 19/37 (51%), Gaps = 2/37 (5%)

		

		Query: 56 KDRQIPDEVIVGGYEALNPKKRPLFYRDKALEYIKQL 92

		          +  ++ D+V V      NP K+P+F   + LE I + 

		Sbjct: 22 RGCRLFDQVYVA--VLRNPNKQPMFSVQERLEQIAKA 56

		

		

		>STREPTOPAIN#Streptopain (C10) cysteine protease family signature.

		          Length = 398

		

		 Score = 29.3 bits (65), Expect = 0.017

		 Identities = 18/72 (25%), Positives = 37/72 (51%), Gaps = 7/72 (9%)

		

		Query: 186 IEGYIKNIREDGKIDVSLQPEGYTNIDEFKQKILDKLDENYGLLYLSDQSSPEEIKTELQ 245

		           +E Y++ I+E+ K+D +     Y    E KQ ++  L ++ G+ Y  +Q +P  + T + 

		Sbjct: 121 MESYVEQIKENKKLDTT-----YAGTAEIKQPVVKSLLDSKGIHY--NQGNPYNLLTPVI 173

		

		Query: 246 MSKKNFKKAIGG 257

		              K  +++  G

		Sbjct: 174 EKVKPGEQSFVG 185

		

		

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

		          Length = 539

		

		 Score = 37.7 bits (87), Expect = 1e-04

		 Identities = 23/166 (13%), Positives = 45/166 (27%), Gaps = 4/166 (2%)

		

		Query: 38  EDAKKNAENLIEKAKVKAESIKQEKNIQAKERFLELKTEHDAHIQQREKKMQEVEKRARD 97

		           +D        +  AK K     +  + +A +   +      A +++  +           

		Sbjct: 84  KDHNDELTEELSNAKEKLRKNDKSLSEKASKI--QELEARKADLEKALEGAMNFSTADSA 141

		

		Query: 98  KEQKLNDELSKVGKLEKDLDKKLSDLSRKEEQLEKKQEELSVAIAKKVELLEKVSGYSAE 157

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

		Sbjct: 142 KIKTLEAEKAALAARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQAELE--KAL 199

		

		Query: 158 EAKEELVETMKSEAKTKAQSYVQNIMEEAQLNAKNEAKKIVIQTIQ 203

		           E          ++ KT           +A L    E          

		Sbjct: 200 EGAMNFSTADSAKIKTLEAEKAALAARKADLEKALEGAMNFSTADS 245

		

		

		>PF00577#Outer membrane usher protein FimD

		          Length = 878

		

		 Score = 31.0 bits (70), Expect = 0.007

		 Identities = 13/72 (18%), Positives = 23/72 (31%), Gaps = 10/72 (13%)

		

		Query: 163 VYLRF----GRPAVPVFMPEDMPFEIGKGILLQEGKDVTIVATGHLVW-ESLVAAEQL-- 215

		           V   F    G   +      + P   G  +  +  +   IVA    V+   +  A ++  

		Sbjct: 786 VRAEFKARVGIKLLMTLTHNNKPLPFGAMVTSESSQSSGIVADNGQVYLSGMPLAGKVQV 845

		

		Query: 216 ---EKEGISCEV 224

		              E+E   C  

		Sbjct: 846 KWGEEENAHCVA 857

		

		

		>NUCEPIMERASE#Nucleotide sugar epimerase signature.

		          Length = 334

		

		 Score = 83.7 bits (207), Expect = 2e-20

		 Identities = 68/336 (20%), Positives = 118/336 (35%), Gaps = 57/336 (16%)

		

		Query: 7   KILITGALGQIGTELTAKLVE----IYGKDNVIASGID-----KWREGITTAG-HYERID 56

		           K L+TGA G IG  ++ +L+E    + G DN +    D        E +   G  + +ID

		Sbjct: 2   KYLVTGAAGFIGFHVSKRLLEAGHQVVGIDN-LNDYYDVSLKQARLELLAQPGFQFHKID 60

		

		Query: 57  VTNFKLLEDFIKENKITTVYHLASLLSGT--SEKQPLFAWKLNLEPLLHLCELAKEGYLK 114

		           + + + + D         V+           S + P      NL   L++ E  +   ++

		Sbjct: 61  LADREGMTDLFASGHFERVFISPHR-LAVRYSLENPHAYADSNLTGFLNILEGCRHNKIQ 119

		

		Query: 115 KIFWPSSIAVFGKGIPKHNVGQDVVLNPTTVYGISKMAGEKWCEYYHDKYGVDVRSIRY- 173

		            + + SS +V+G          D V +P ++Y  +K A E     Y   YG+    +R+ 

		Sbjct: 120 HLLYASSSSVYGLNRKMPFSTDDSVDHPVSLYAATKKANELMAHTYSHLYGLPATGLRFF 179

		

		Query: 174 ----PGLISWKAPAGGGTTDYAVEIFYEAVEKGE-YQCFISENTAMPMLYMDDAINATIK 228

		               P    W  P      D A+  F +A+ +G+    +          Y+DD   A I+

		Sbjct: 180 TVYGP----WGRP------DMALFKFTKAMLEGKSIDVYNYGKMKRDFTYIDDIAEAIIR 229

		

		Query: 229 LMQEPAENISVWGS--------------YNLGGMSFTP-AELTNEI-----KKVMPNFKI 268

		           L        + W                YN+G  S     +    +      +   N   

		Sbjct: 230 LQDVIPHADTQWTVETGTPAASIAPYRVYNIGNSSPVELMDYIQALEDALGIEAKKNMLP 289

		

		Query: 269 SYQPDFRQSIADSWPASIDDSKAKEDWGLSYEFDIK 304

		               D  ++ AD+           E  G + E  +K

		Sbjct: 290 LQPGDVLETSADT-------KALYEVIGFTPETTVK 318

		

		

		>TYPE4SSCAGA#Type IV secretion system CagA exotoxin signature.

		          Length = 1147

		

		 Score = 32.4 bits (73), Expect = 0.008

		 Identities = 29/118 (24%), Positives = 52/118 (44%), Gaps = 6/118 (5%)

		

		Query: 432 NDNYSRSKNDLDSIRRKIRA-----AEKDAED-EYIANLRNEKTRLDNRVYSIDKEVYDL 485

		           N N   +K   +S + +I A     A +DA    Y  NL+  K  L +++ +++K + D 

		Sbjct: 638 NKNKMEAKAQANSQKDEIFALINKEANRDARAIAYAQNLKGIKRELSDKLENVNKNLKDF 697

		

		Query: 486 SEKIGSFKNEIKTLKQRQEELRKKIDDSRRYSDKDKITQRQIENLRNFIKDFKDATKK 543

		            +    FKN       + EE  K +  S +    +     ++ENL   + +FK+   K

		Sbjct: 698 DKSFDEFKNGKNKDFSKAEETLKALKGSVKDLGINPEWISKVENLNAALNEFKNGKNK 755

		

		

		>adhesinb#Adhesin B signature.

		          Length = 310

		

		 Score = 32.1 bits (73), Expect = 0.002

		 Identities = 15/86 (17%), Positives = 37/86 (43%), Gaps = 12/86 (13%)

		

		Query: 208 EAKGKWELNPKQ---IEALKENLDYIKKRNIPYILVQAPITKKLYE--SKTNNKS----- 257

		            +   WE+N ++    + +K  ++ ++K  +P + V++ +  +  +  SK  N       

		Sbjct: 219 PSAYIWEINTEEEGTPDQIKTLVEKLRKTKVPSLFVESSVDDRPMKTVSKDTNIPIYAKI 278

		

		Query: 258 -VDSLLSTMGTYKNFYGELPLN-DTI 281

		             DS+        ++Y  +  N + I

		Sbjct: 279 FTDSVAEKGEEGDSYYSMMKYNLEKI 304

		

		

		>PF03544#Gram-negative bacterial tonB protein

		          Length = 243

		

		 Score = 41.9 bits (98), Expect = 1e-06

		 Identities = 38/190 (20%), Positives = 62/190 (32%), Gaps = 11/190 (5%)

		

		Query: 86  ILEQPKEETPPPPPPPKVEEEKIEIIQNVVPEPVKAPTVETPPPPISKQLETTTGLVNQE 145

		           ++     E P    PP     + E     +PEP K   V    P    +       V + 

		Sbjct: 54  MVAPADLEPPQAVQPPPEPVVEPEPEPEPIPEPPKEAPVVIEKPKPKPK--PKPKPVKKV 111

		

		Query: 146 GVKKPSYAPPPPPPSTGKGTTVEVKPQVSTTEVYTTVDQEAEFSGGGINGFRSAFQESFD 205

		              K    P    P++    T   +P  ST        +       G         +   

		Sbjct: 112 EQPKRDVKPVESRPASPFENTAPARPTSSTAT--AATSKPVTSVASGPRALSRNQPQYPA 169

		

		Query: 206 TSVMEGDEGTLKAEVTFVVERDGSLSQVKVTGS--NSTFNREAERAVKSIKKKWTPGKVN 263

		            +     EG +K  V F V  DG +  V++  +   + F RE + A++    ++ PGK  

		Sbjct: 170 RAQALRIEGQVK--VKFDVTPDGRVDNVQILSAKPANMFEREVKNAMRR--WRYEPGKPG 225

		

		Query: 264 GE-PVRSRFR 272

		               V   F+

		Sbjct: 226 SGIVVNILFK 235

		

		

		>V8PROTEASE#V8 serine protease family signature.

		          Length = 336

		

		 Score = 67.3 bits (164), Expect = 2e-14

		 Identities = 32/167 (19%), Positives = 57/167 (34%), Gaps = 32/167 (19%)

		

		Query: 120 PTGLGSGVIISPDGYIISNNHVVAGASKLEVTLS------------NKKTYVAKLIGSDP 167

		            T + SGV++  D  +++N HVV         L             N      ++     

		Sbjct: 100 GTFIASGVVVGKD-TLLTNKHVVDATHGDPHALKAFPSAINQDNYPNGGFTAEQITKYSG 158

		

		Query: 168 STDIALLKIED--------SGLPYLNFANSDLLEVGQWVVAVGNPLGLNSTVTAGIVSAK 219

		             D+A++K             +     +N+   +V Q +   G P        A +  +K

		Sbjct: 159 EGDLAIVKFSPNEQNKHIGEVVKPATMSNNAETQVNQNITVTGYPGDKPV---ATMWESK 215

		

		Query: 220 GRSIDLLRQQSKTPIESFIQTDAVINRGNSGGALVNLSGDLVGINSA 266

		           G+   L            +Q D     GNSG  + N   +++GI+  

		Sbjct: 216 GKITYL--------KGEAMQYDLSTTGGNSGSPVFNEKNEVIGIHWG 254

		

		

		>SACTRNSFRASE#Streptothricin acetyltransferase signature.

		          Length = 173

		

		 Score = 27.6 bits (61), Expect = 0.006

		 Identities = 9/33 (27%), Positives = 20/33 (60%)

		

		Query: 37  LIISFVNIFPKFEGRGLGKALIREAISFAREHQ 69

		            +I  + +   +  +G+G AL+ +AI +A+E+ 

		Sbjct: 90  ALIEDIAVAKDYRKKGVGTALLHKAIEWAKENH 122

		

		

		>OMPADOMAIN#OMPA domain signature.

		          Length = 346

		

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

		 Identities = 24/90 (26%), Positives = 40/90 (44%), Gaps = 8/90 (8%)

		

		Query: 6   NTIKIGTR--NSPLALWQAKEVAAALEQKNYATEIVPIVSSGDKNLTQPLYSLGITGVFT 63

		            T +IG+   N  L+  +A+ V   L  K    + +     G+ N   P+       V  

		Sbjct: 260 YTDRIGSDAYNQGLSERRAQSVVDYLISKGIPADKISARGMGESN---PVTGNTCDNVKQ 316

		

		Query: 64  KDLDIALL--NKQIDIAVHSLKDVPTQLPQ 91

		           +   I  L  +++++I V  +KDV TQ PQ

		Sbjct: 317 RAALIDCLAPDRRVEIEVKGIKDVVTQ-PQ 345

		

		

		>HTHTETR#TetR bacterial regulatory protein HTH signature.

		          Length = 215

		

		 Score = 28.1 bits (62), Expect = 0.015

		 Identities = 16/81 (19%), Positives = 35/81 (43%), Gaps = 5/81 (6%)

		

		Query: 1  MAKKGRLSNKEREQK-KEYAKILFLQE--KNITIKDLAERVGVSVNTLSEWIKAEKWEGL 57

		          MA+K +   +E  Q   + A  LF Q+   + ++ ++A+  GV+   +    K +    L

		Sbjct: 1  MARKTKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDK--SDL 58

		

		Query: 58 RRNILLTRQEQLVQMQDELAE 78

		             I    +  + +++ E   

		Sbjct: 59 FSEIWELSESNIGELELEYQA 79

		

		

		>TYPE3OMGPROT#Type III secretion system outer membrane G protein

		           family signature.

		          Length = 607

		

		 Score = 28.7 bits (64), Expect = 0.009

		 Identities = 18/105 (17%), Positives = 40/105 (38%), Gaps = 13/105 (12%)

		

		Query: 50  DTFHDVLQQFNAEFTLSLVVKAGDTSSLTEENRREQAMAYLDLSEKIYSKLQGYEDGHF- 108

		           ++  D+L  F A +  ++VV       ++ +   +    +L     +Y+ L  Y DG+  

		Sbjct: 43  ESLRDLLTDFGANYDATVVVSDKINDKVSGQFEHDNPQDFLQHIASLYN-LVWYYDGNVL 101

		

		Query: 109 ----------ETFTFQSASEPNLRKGLKIVAL-RYSCGWKQEATK 142

		                          Q +    L++ L+   +     GW+ +A+ 

		Sbjct: 102 YIFKNSEVASRLIRLQESEAAELKQALQRSGIWEPRFGWRPDASN 146

		

		

		>FbpA_PF05833#Fibronectin-binding protein

		          Length = 577

		

		 Score = 30.6 bits (69), Expect = 0.022

		 Identities = 15/92 (16%), Positives = 33/92 (35%), Gaps = 7/92 (7%)

		

		Query: 563 NQNGEKYFVAYAEPKRSFEVVPKLMPDGEKEQAQKDMQVAELEYQRDLQLLRDLEKKTGI 622

		           +QN + Y+  Y + K+S E   + +   E+E       +  +    +   + +++     

		Sbjct: 380 SQNVQSYYKKYNKLKKSEEAANEQLLQNEEELNYLYSVLTNINNADNYDEIEEIK----- 434

		

		Query: 623 STERLIAEQEMAVKTQNINSKKLNIKADRGES 654

		             + LI    +  K    + K    K     S

		Sbjct: 435 --KELIETGYIKFKKIYKSKKSKTSKPMHFIS 464

		

		

		>SACTRNSFRASE#Streptothricin acetyltransferase signature.

		          Length = 173

		

		 Score = 51.1 bits (122), Expect = 1e-10

		 Identities = 23/96 (23%), Positives = 41/96 (42%), Gaps = 7/96 (7%)

		

		Query: 53  EELQDEFSEFYFARVDGVLAGYLKLNFGVSQTELKDPKAIEIERIYVLKAFQGKRVGQAL 112

		             +++E    +   ++    G +K+    +   L       IE I V K ++ K VG AL

		Sbjct: 58  SYVEEEGKAAFLYYLENNCIGRIKIRSNWNGYAL-------IEDIAVAKDYRKKGVGTAL 110

		

		Query: 113 YEHALQLARDRGVDYIWLGVWEQNHKAIRFYEKNGF 148

		              A++ A++     + L   + N  A  FY K+ F

		Sbjct: 111 LHKAIEWAKENHFCGLMLETQDINISACHFYAKHHF 146

		

		

		>TYPE4SSCAGA#Type IV secretion system CagA exotoxin signature.

		          Length = 1147

		

		 Score = 31.6 bits (71), Expect = 0.010

		 Identities = 42/174 (24%), Positives = 76/174 (43%), Gaps = 18/174 (10%)

		

		Query: 48  LKNWISKTKDL-EQSLNLEKEHYKAKTTENESLKDSLSKTSATLETAHSQVEELKTQLQT 106

		           +K+++S  K+L  ++LN  K    AK T N    D + K    LE +  + E L+ +++ 

		Sbjct: 574 IKDFLSSNKELVGKTLNFNKAVADAKNTGN---YDEVKKAQKDLEKSLRKREHLEKEVEK 630

		

		Query: 107 QTLNLTQLQEKNQHYYAKISELSAKNETLEQSLVNQKKEIQELQEATKLQFENIANKILE 166

		               L           AK    S K+E    +L+N++      ++A  + +      I  

		Sbjct: 631 ---KLESKSGNKNKMEAKAQANSQKDEIF--ALINKEAN----RDARAIAYAQNLKGIKR 681

		

		Query: 167 EKTEKFTSLNKENLGHILKPFQEKITELKNTVHETYDKEAKERFSLGAKVKELA 220

		           E ++K  ++NK      LK F +   E KN  ++ + K  +   +L   VK+L 

		Sbjct: 682 ELSDKLENVNKN-----LKDFDKSFDEFKNGKNKDFSKAEETLKALKGSVKDLG 730

		

		

		>HELNAPAPROT#Helicobacter neutrophil-activating protein A family

		           signature.

		          Length = 153

		

		 Score =  151 bits (382), Expect = 8e-50

		 Identities = 47/140 (33%), Positives = 75/140 (53%)

		

		Query: 17  ITEKLNILLANYSIFYQNTRGAHWNIKGADFFTLHPKFEELYDSLVLKIDEIAERILTLG 76

		           +   LN  L+N+ + Y      HW +KG  FFTLH KFEELYD     +D IAER+L +G

		Sbjct: 13  VENSLNTQLSNWFLLYSKLHRFHWYVKGPHFFTLHEKFEELYDHAAETVDTIAERLLAIG 72

		

		Query: 77  ATPNHNYSDYLKVSSIKESKEVTDGNKCVEQILEAFKIVIDLQREILEIAGEAGDEGTNS 136

		             P     +Y + +SI +    T  ++ V+ ++  +K +    + ++ +A E  D  T  

		Sbjct: 73  GQPVATVKEYTEHASITDGGNETSASEMVQALVNDYKQISSESKFVIGLAEENQDNATAD 132

		

		Query: 137 QMSDYIKEQEKEVWMYNAFL 156

		                I+E EK+VWM +++L

		Sbjct: 133 LFVGLIEEVEKQVWMLSSYL 152

		

		

		>BINARYTOXINB#Binary toxin B family signature.

		          Length = 764

		

		 Score = 30.0 bits (67), Expect = 0.022

		 Identities = 10/15 (66%), Positives = 11/15 (73%)

		

		Query: 34  DLDSDNDGIPDSIEK 48

		             D DNDGIPDS+E 

		Sbjct: 204 VPDRDNDGIPDSLEV 218

		

		

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

		          Length = 478

		

		 Score = 33.3 bits (76), Expect = 0.009

		 Identities = 13/58 (22%), Positives = 28/58 (48%), Gaps = 10/58 (17%)

		

		Query: 1155 AVVTEID-GVVSYGKIK-RGNRELIVESKSGEIKKYLVKLSNQILVQENDFVRAGSPL 1210

		            +V+ +++    + GK+   G  + I   ++  +K        +I+V+E + VR G  L

		Sbjct: 75   SVLGQVEIVATANGKLTHSGRSKEIKPIENSIVK--------EIIVKEGESVRKGDVL 124

		

		

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

		          Length = 331

		

		 Score = 30.5 bits (69), Expect = 0.022

		 Identities = 17/89 (19%), Positives = 33/89 (37%), Gaps = 10/89 (11%)

		

		Query: 639 GFHQYNAKIGYKKE---------FGKWSLDAYVAGNNLTNRVNYAFLFVGNAIGDTDLGN 689

		           G     +KIG+K +           +    A +AG +       +F+ +    G   +G 

		Sbjct: 52  GIVDLGSKIGFKGQEDLGNGLKAIWQVEQKASIAGTDSGWGNRQSFIGLKGGFGKLRVGR 111

		

		Query: 690 GY-PVGVTTDVNPGPARAYFFGGTTIKYS 717

		               +  T D+NP  +++ + G   I   

		Sbjct: 112 LNSVLKDTGDINPWDSKSDYLGVNKIAEP 140

		

		

		>DNABINDINGHU#Prokaryotic integration host factor signature.

		          Length = 91

		

		 Score = 85.9 bits (213), Expect = 7e-26

		 Identities = 29/89 (32%), Positives = 47/89 (52%)

		

		Query: 2  TKAELVNTISNKLGIEKNDTQKVIEAFMQEIRGSLYEGNNVYLRGFGSFIIKTRAAKTGR 61

		           K +L+  ++    + K D+   ++A    +   L +G  V L GFG+F ++ RAA+ GR

		Sbjct: 3  NKQDLIAKVAEATELTKKDSAAAVDAVFSAVSSYLAKGEKVQLIGFGNFEVRERAARKGR 62

		

		Query: 62 NISKNTAIEIPAHNIPAFKPSKSFAERVK 90

		          N      I+I A  +PAFK  K+  + VK

		Sbjct: 63 NPQTGEEIKIKASKVPAFKAGKALKDAVK 91

		

		

		>TCRTETB#Tetracycline resistance protein TetB signature.

		          Length = 458

		

		 Score = 33.3 bits (76), Expect = 0.002

		 Identities = 26/126 (20%), Positives = 49/126 (38%), Gaps = 4/126 (3%)

		

		Query: 48  LSIDPAQASLIYGYFTGFVYFTPLIGGWLADKFLGQRLSITIGGVLMMLGQFTLFAINTH 107

		            +  PA  + +   F         + G L+D+   +RL +  G ++   G    F  ++ 

		Sbjct: 44  FNKPPASTNWVNTAFMLTFSIGTAVYGKLSDQLGIKRLLL-FGIIINCFGSVIGFVGHSF 102

		

		Query: 108 FGLYI-GLLLLIIGNGFFKPNISVLVGNLYEEGDERRDSAFSIFYMGINLGALIAPLVIG 166

		           F L I    +   G   F   + V+V     +  E R  AF +    + +G  + P + G

		Sbjct: 103 FSLLIMARFIQGAGAAAFPALVMVVVARYIPK--ENRGKAFGLIGSIVAMGEGVGPAIGG 160

		

		Query: 167 VLTDDI 172

		           ++   I

		Sbjct: 161 MIAHYI 166

		

		

		>56KDTSANTIGN#Rickettsia 56kDa type-specific antigen protein

		           signature.

		          Length = 533

		

		 Score = 29.2 bits (65), Expect = 0.034

		 Identities = 21/77 (27%), Positives = 32/77 (41%), Gaps = 12/77 (15%)

		

		Query: 43  QLHLDALPYYNFGKGVGITSPDSLFQFNIRFRMQNRLEADFNDNRSTEYKAAIRRLRLRF 102

		           Q++ D  P   F    GI  PD+         + N    +   ++  E    +  LR  F

		Sbjct: 270 QIYSDIKP---FADIAGINVPDT--------GLPNSASIEQIQSKIQELGDTLEELRDSF 318

		

		Query: 103 DGYVGNPRFLYAIQLSF 119

		           DGY+ N  F+  I L+F

		Sbjct: 319 DGYINNA-FVNQIHLNF 334

		

		

		>DPTHRIATOXIN#Diphtheria toxin signature.

		          Length = 567

		

		 Score = 28.9 bits (64), Expect = 0.037

		 Identities = 21/70 (30%), Positives = 36/70 (51%), Gaps = 8/70 (11%)

		

		Query: 261 EIMQSLSHSPKLGHITTFGG-NPLIAAASYA----TLKEVLESELMEEVEEKEALFRQLL 315

		           E  Q+    P+L  + T  G NP+ A A+YA     + +V++SE  + +E+  A    L 

		Sbjct: 281 EFHQTALEHPELSELKTVTGTNPVFAGANYAAWAVNVAQVIDSETADNLEKTTA---ALS 337

		

		Query: 316 VHPKIKNING 325

		           + P I ++ G

		Sbjct: 338 ILPGIGSVMG 347

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 83.3 bits (206), Expect = 1e-20

		 Identities = 32/142 (22%), Positives = 62/142 (43%), Gaps = 3/142 (2%)

		

		Query: 1   MKGKRILLIDDEPDILEIISYNLKKEGYEVHTANNGNEGIEKAKEILPHLILLDVMMPDK 60

		           M G  IL+ DD+  I  +++  L + GY+V   +N              L++ DV+MPD+

		Sbjct: 1   MTGATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDE 60

		

		Query: 61  DGIETCQEIRKIATLEGCLIVFLSARGEEFSQLAGYQAGANDYIVKLIKPKVLISKV-NA 119

		           +  +    I+K        ++ +SA+    + +   + GA DY+ K      LI  +  A

		Sbjct: 61  NAFDLLPRIKKA--RPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRA 118

		

		Query: 120 LMNLTQQVEEKNKILKIGHLII 141

		           L    ++  +     + G  ++

		Sbjct: 119 LAEPKRRPSKLEDDSQDGMPLV 140

		

		

		>cdtoxina#Cytolethal distending toxin A signature.

		          Length = 258

		

		 Score = 30.1 bits (67), Expect = 0.004

		 Identities = 11/27 (40%), Positives = 15/27 (55%)

		

		Query: 5  IILTGLLSLGLLTGCNSQKQNDMNEPK 31

		          I + G+L   LL GC+S K     +PK

		Sbjct: 8  IFIAGILIPILLNGCSSGKNKAYLDPK 34

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 32.9 bits (75), Expect = 0.002

		 Identities = 33/153 (21%), Positives = 61/153 (39%), Gaps = 17/153 (11%)

		

		Query: 32  GKVVIGQS----YMVDRLLVGLLGNGHILLEGVPGLAKTL---AIKTLSEALQGQFSRIQ 84

		           G  ++G+S     +   L   +  +  +++ G  G  K L   A+    +   G F  I 

		Sbjct: 136 GMPLVGRSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVARALHDYGKRRNGPFVAIN 195

		

		Query: 85  FTPDLLPADVVGTMIYNVKENDFSIKKGPVFANFVLA-------DEINRAPAKVQSALLE 137

		                +P D++ + ++  ++  F+  +      F  A       DEI   P   Q+ LL 

		Sbjct: 196 MAA--IPRDLIESELFGHEKGAFTGAQTRSTGRFEQAEGGTLFLDEIGDMPMDAQTRLLR 253

		

		Query: 138 VMQEKQVT-IGDETLQLPKPFLVMATQNPIDQE 169

		           V+Q+ + T +G  T       +V AT   + Q 

		Sbjct: 254 VLQQGEYTTVGGRTPIRSDVRIVAATNKDLKQS 286

		

		

		>BLACTAMASEA#Beta-lactamase class A signature.

		          Length = 286

		

		 Score =  171 bits (436), Expect = 3e-54

		 Identities = 60/296 (20%), Positives = 131/296 (44%), Gaps = 17/296 (5%)

		

		Query: 4   LKLIIISFTFLIINSCATVHDNNLKYQIEKIISSK-KGDFGISIIDENNN--IIEINGNK 60

		           ++ I +    L+      VH +    +  K+  S+  G  G+  +D  +   +     ++

		Sbjct: 1   MRYIRLCIISLLATLPLAVHASPQPLEQIKLSESQLSGRVGMIEMDLASGRTLTAWRADE 60

		

		Query: 61  SYPLLSTFKFPIALTILHKVENGELLMQQQIFIKKEELLENTWSPFKEKYPNGNISISLE 120

		            +P++STFK  +   +L +V+ G+  ++++I  ++++L+   +SP  EK+    ++  + 

		Sbjct: 61  RFPMMSTFKVVLCGAVLARVDAGDEQLERKIHYRQQDLV--DYSPVSEKHLADGMT--VG 116

		

		Query: 121 EALHWMIVYSDNNMTDILLRLIGGTNAVEKF---IDDENFVIKNNEDEMHKDWNSQFINK 177

		           E     I  SDN+  ++LL  +GG   +  F   I D    +   E E+++       + 

		Sbjct: 117 ELCAAAITMSDNSAANLLLATVGGPAGLTAFLRQIGDNVTRLDRWETELNEALPGDARDT 176

		

		Query: 178 STPNSFTKLLKNFSEGKMLNSENTKWLYESMVNSKTGVKRLKGKLP-NVKIAQRAGTSFT 236

		           +TP S    L+     + L++ + + L + MV+ +     ++  LP    IA + G    

		Sbjct: 177 TTPASMAATLRKLLTSQRLSARSQRQLLQWMVDDRVAGPLIRSVLPAGWFIADKTGA--- 233

		

		Query: 237 NDDGITGAINNVGIMQLPNNQKIYITVFIHNTSEEFNKGEEIIADIAKTTYEFYTK 292

		              G  GA   V ++   N  +  + +++ +T     +  + IA I     E + +

		Sbjct: 234 ---GERGARGIVALLGPNNKAERIVVIYLRDTPASMAERNQQIAGIGAALIEHWQR 286

		

		

		>MECHCHANNEL#Bacterial mechano-sensitive ion channel signature.

		          Length = 136

		

		 Score =  126 bits (319), Expect = 6e-41

		 Identities = 61/132 (46%), Positives = 82/132 (62%), Gaps = 10/132 (7%)

		

		Query: 1   MGFIKEFKEFALRGNVIDLAVGVIIGGAFGKIVNSFVEDVVTPALLSPALEKLG------ 54

		           M  IKEF+EFA+RGNV+DLAVGVIIG AFGKIV+S V D++ P  L   +  +       

		Sbjct: 1   MSIIKEFREFAMRGNVVDLAVGVIIGAAFGKIVSSLVADIIMP-PLGLLIGGIDFKQFAV 59

		

		Query: 55  --AENIAQLSWNGIKYGSFLSAVISFLCIAFVLFVMIKGINKM-KKEEKVEEAPAGPTQE 111

		              +    +    + YG F+  V  FL +AF +F+ IK INK+ +K+E+   APA   +E

		Sbjct: 60  TLRDAQGDIPAVVMHYGVFIQNVFDFLIVAFAIFMAIKLINKLNRKKEEPAAAPAPTKEE 119

		

		Query: 112 ELLAEIRDLLKK 123

		            LL EIRDLLK+

		Sbjct: 120 VLLTEIRDLLKE 131

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 37.5 bits (87), Expect = 9e-05

		 Identities = 52/245 (21%), Positives = 95/245 (38%), Gaps = 50/245 (20%)

		

		Query: 31  TIRKMLDTDRLNSLILWGPPGTGKTTLAEILSEQSGRK---FFKL--SAVSSGVKE---- 81

		            + +++ TD   +L++ G  GTGK  +A  L +   R+   F  +  +A+   + E    

		Sbjct: 152 VLARLMQTDL--TLMITGESGTGKELVARALHDYGKRRNGPFVAINMAAIPRDLIESELF 209

		

		Query: 82  --VREVIDDAKKQH--LF---SGKSPILFIDEIHRFNKSQQDSLLHAVEKGWVILIGATT 134

		              +     A+ +    F    G +  LF+DEI       Q  LL  +++G    +G  T

		Sbjct: 210 GHEKGAFTGAQTRSTGRFEQAEGGT--LFLDEIGDMPMDAQTRLLRVLQQGEYTTVGGRT 267

		

		Query: 135 ENPS-FEVVSA-----------------LLSRSQVY--ILKPLSYEKLEELATIA---VA 171

		              S   +V+A                 L  R  V    L PL  ++ E++  +    V 

		Sbjct: 268 PIRSDVRIVAATNKDLKQSINQGLFREDLYYRLNVVPLRLPPLR-DRAEDIPDLVRHFVQ 326

		

		Query: 172 RFNQD--ENTDFTIENNQGFIQYS-GGDARKLINSVEWVLNQYKGSGQNQLSSETILKVL 228

		           +  ++  +   F  E  +    +   G+ R+L N V  +   Y     + ++ E I   L

		Sbjct: 327 QAEKEGLDVKRFDQEALELMKAHPWPGNVRELENLVRRLTALYPQ---DVITREIIENEL 383

		

		Query: 229 QETIP 233

		           +  IP

		Sbjct: 384 RSEIP 388

		

		

		>NUCEPIMERASE#Nucleotide sugar epimerase signature.

		          Length = 334

		

		 Score = 36.3 bits (84), Expect = 7e-05

		 Identities = 13/32 (40%), Positives = 22/32 (68%), Gaps = 1/32 (3%)

		

		Query: 1  MKYIIVGLGNF-GASLAQKLTVQGNEVIGIDN 31

		          MKY++ G   F G  ++++L   G++V+GIDN

		Sbjct: 1  MKYLVTGAAGFIGFHVSKRLLEAGHQVVGIDN 32

		

		

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

		           signature.

		          Length = 261

		

		 Score = 78.9 bits (194), Expect = 2e-19

		 Identities = 49/194 (25%), Positives = 90/194 (46%), Gaps = 3/194 (1%)

		

		Query: 2   SKKFQHKNILITGGASGIGKIMARLSLEKGAKVIIWDIDQSKIDETILQFSSLG-SIFGY 60

		           +K  + K   ITG A GIG+ +AR    +GA +   D +  K+++ +    +       +

		Sbjct: 3   AKGIEGKIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAF 62

		

		Query: 61  KVDVSNYDEVQHFAIKTKQKIGNVDILINNAGIVVGKYFHEHSQKDILKTIEINTNAPMV 120

		             DV +   +     + ++++G +DIL+N AG++     H  S ++   T  +N+     

		Sbjct: 63  PADVRDSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGVFN 122

		

		Query: 121 ITNLFLQDMLTQNSGHICNIASSAGLVSNPKMSVYAGSKWAVVGWSDSLRLEMEQLKKNI 180

		            +    + M+ + SG I  + S+   V    M+ YA SK A V ++  L LE+ +   NI

		Sbjct: 123 ASRSVSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAE--YNI 180

		

		Query: 181 KVTTIMPYYINTGM 194

		           +   + P    T M

		Sbjct: 181 RCNIVSPGSTETDM 194

		

		

		>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein

		           signature.

		          Length = 347

		

		 Score = 62.5 bits (152), Expect = 9e-13

		 Identities = 56/216 (25%), Positives = 90/216 (41%), Gaps = 23/216 (10%)

		

		Query: 151 KRLEANFHVVVGQMSSIKNIS-RCVKE----AGLEMESLTLEPLASSEAVLTKEEKEAGV 205

		             +  +  V+V        +  R ++E    AG     L  EP+A++        +  G 

		Sbjct: 102 SFMRPSPRVLVCVPVGATQVERRAIRESAQGAGAREVFLIEEPMAAAIGAGLPVSEATGS 161

		

		Query: 206 AIVDIGGGTTDIAIFKDNIIRHTCVIPYGGGIITEDI------KDGCSIIEKHAEQLKVR 259

		            +VDIGGGTT++A+   N + ++  +  GG    E I        G  I E  AE++K  

		Sbjct: 162 MVVDIGGGTTEVAVISLNGVVYSSSVRIGGDRFDEAIINYVRRNYGSLIGEATAERIKHE 221

		

		Query: 260 FGSAVPELEKESTFVTIPGLHGRTEKEISLKTLAKIIHARVEEILEMVNTELKAYGAHEK 319

		            GSA P  E     V      GR   E   +      +  +E + E +   + A     +

		Sbjct: 222 IGSAYPGDEVREIEV-----RGRNLAEGVPRGFTLNSNEILEALQEPLTGIVSAVMVALE 276

		

		Query: 320 KRK--LIA-----GIVLTGGGSNLKHLRQLANYITG 348

		           +    L +     G+VLTGGG+ L++L +L    TG

		Sbjct: 277 QCPPELASDISERGMVLTGGGALLRNLDRLLMEETG 312

		

		

		>TOXICSSTOXIN#Staphylococcal toxic shock syndrome toxin signature.

		          Length = 234

		

		 Score = 28.8 bits (64), Expect = 0.013

		 Identities = 29/149 (19%), Positives = 53/149 (35%), Gaps = 25/149 (16%)

		

		Query: 81  QRVPVFRLSKGKKEFYVDEKGVEFPINRNYSASCMLISGNVQPEEYPQLIE--LVKKINQ 138

		              P F   +         K  +      Y      ISG    E+ P  IE  L  K++ 

		Sbjct: 91  YYSPAFTKGEKVDLNTKRTKKSQHTSEGTYIHFQ--ISGVTNTEKLPTPIELPLKVKVHG 148

		

		Query: 139 DDFSKKFFIGVVKERENYYLIANEENYRVELGSLENIDFKVKGFKAFVEKYLVYQPSDK- 197

		            D   K+                ++       ++  +DF+++      + + +Y+ SDK 

		Sbjct: 149 KDSPLKY----------GPKFDKKQL------AISTLDFEIR--HQLTQIHGLYRSSDKT 190

		

		Query: 198 --YTKISLKYDNQIVTTLSKGYKEETYKE 224

		             Y KI++   +   + LSK ++  T K 

		Sbjct: 191 GGYWKITMNDGSTYQSDLSKKFEYNTEKP 219

		

		

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

		          Length = 591

		

		 Score = 29.7 bits (66), Expect = 0.024

		 Identities = 19/60 (31%), Positives = 30/60 (50%), Gaps = 3/60 (5%)

		

		Query: 160 KDYSVVEADEYDRSFLNLAPDWAIITSTDADHLDIYGDKSTIEKGFRDFAHLVSEERQLF 219

		           K+Y+ +     D++F++ +PD A I  T    L+IY +K    +   D AH   E   LF

		Sbjct: 485 KEYTTIGNIIIDKAFMSTSPDKAWINDTI---LNIYLEKGHKGRILGDVAHFKGEAEMLF 541

		

		

		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D

		           signature.

		          Length = 478

		

		 Score = 50.2 bits (120), Expect = 6e-09

		 Identities = 22/95 (23%), Positives = 41/95 (43%), Gaps = 6/95 (6%)

		

		Query: 59  EVRAQGKGFLDKIYVDEGQYVKAGQVLFRIMPQVYEAELMKTRAEVEQARIEYQNASILA 118

		           E++      + +I V EG+ V+ G VL ++     EA+ +KT++ + QAR+E        

		Sbjct: 98  EIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLE--QTRYQI 155

		

		Query: 119 GNNIVSKNE----KALAKAKLDAASAEMRMAQLHL 149

		            +  +  N+    K   +      S E  +    L

		Sbjct: 156 LSRSIELNKLPELKLPDEPYFQNVSEEEVLRLTSL 190

		

		

		

		 Score = 39.0 bits (91), Expect = 2e-05

		 Identities = 25/109 (22%), Positives = 51/109 (46%), Gaps = 8/109 (7%)

		

		Query: 75  EGQYVKAGQVLFRIMPQVYEAELMKTRAEVEQARIEYQNASILAGNNIVSKNEKALAKAK 134

		           E +YV+A   L     +VY+++L +  +E+  A+ EYQ  + L  N I+ K  +      

		Sbjct: 258 ENKYVEAVNEL-----RVYKSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQT--TDN 310

		

		Query: 135 LDAASAEMRMAQLHLSFTTIRAPFSGIINRIPLK-LGSLIEEGDLLTSL 182

		           +   + E+   +     + IRAP S  + ++ +   G ++   + L  +

		Sbjct: 311 IGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAETLMVI 359

		

		

		>ACRIFLAVINRP#Acriflavin resistance protein family signature.

		          Length = 1034

		

		 Score =  912 bits (2358), Expect = 0.0

		 Identities = 378/1039 (36%), Positives = 588/1039 (56%), Gaps = 15/1039 (1%)

		

		Query: 1    MFKTFIKRPVLSIVISLIIVFLGVLSLLSLPITQFPSISPPKVNITAEYPGANNELLVKS 60

		            M   FI+RP+ + V+++I++  G L++L LP+ Q+P+I+PP V+++A YPGA+ + +  +

		Sbjct: 1    MANFFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDT 60

		

		Query: 61   VVIPLEQALNGVQGMKYITSDAGNDGVASIQVVFNLGTDPNLAAVNVQNRVSSAINKLPP 120

		            V   +EQ +NG+  + Y++S + + G  +I + F  GTDP++A V VQN++  A   LP 

		Sbjct: 61   VTQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQ 120

		

		Query: 121  LVVREGVKITREEPNMLMYVNLYSDDPKADQKFLFNYADINILPELRRVNGVGFADILGT 180

		             V ++G+ + +   + LM     SD+P   Q  + +Y   N+   L R+NGVG   + G 

		Sbjct: 121  EVQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFG- 179

		

		Query: 181  REYAMRIWLKPDRLTAYNISTDEVMEALSSQSLEASPGRTGESSGKRSQAFEYVLKYPGR 240

		             +YAMRIWL  D L  Y ++  +V+  L  Q+ + + G+ G +     Q     +    R

		Sbjct: 180  AQYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTR 239

		

		Query: 241  FDNEKDYGNIIVKANSNGEFVRLKDVADVEFGSSMYDIYSTLNGKPSAAITIKQSYGSNA 300

		            F N +++G + ++ NS+G  VRLKDVA VE G   Y++ + +NGKP+A + IK + G+NA

		Sbjct: 240  FKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGANA 299

		

		Query: 301  SEVIKNVKTLLEELNKTSFPKGMHYEISYDVSRFLDASMEKVVHTLFEAFVLVGIVVFIF 360

		             +  K +K  L EL +  FP+GM     YD + F+  S+ +VV TLFEA +LV +V+++F

		Sbjct: 300  LDTAKAIKAKLAEL-QPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVMYLF 358

		

		Query: 361  LGDWRSTLIPALAVPVSLIGAFAVMSSFGITVNMITLFALVMAIGVVVDDAIVVIEAVHA 420

		            L + R+TLIP +AVPV L+G FA++++FG ++N +T+F +V+AIG++VDDAIVV+E V  

		Sbjct: 359  LQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVER 418

		

		Query: 421  KMEEKHLSPLEATQEAMGEISGAIIAITLVMAAVFIPVAFMSGPVGVFYRQFSITMASSI 480

		             M E  L P EAT+++M +I GA++ I +V++AVFIP+AF  G  G  YRQFSIT+ S++

		Sbjct: 419  VMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAM 478

		

		Query: 481  ILSGIVALTLTPALCALILKNNHGKERKKTPINRFIDGFNRVFAKGTKRYETLLYKTVSK 540

		             LS +VAL LTPALCA +LK              F   FN  F      Y   + K +  

		Sbjct: 479  ALSVLVALILTPALCATLLKPV--SAEHHENKGGFFGWFNTTFDHSVNHYTNSVGKILGS 536

		

		Query: 541  KWITLGGLSVFCFLVYFLNNGLPSGFIPNEDQGMIYAIVQTPPGSTIERTNQQALKIQKI 600

		                L   ++    +  L   LPS F+P EDQG+   ++Q P G+T ERT +   ++   

		Sbjct: 537  TGRYLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQVTDY 596

		

		Query: 601  A--EGIDGVKSVSSLAGYEILSEGTGANSGTCLINLKNWDERDK---SATEIIEELEEKC 655

		                    V+SV ++ G+     G   N+G   ++LK W+ER+    SA  +I   + + 

		Sbjct: 597  YLKNEKANVESVFTVNGF--SFSGQAQNAGMAFVSLKPWEERNGDENSAEAVIHRAKMEL 654

		

		Query: 656  KDIGGSNIEFFQPPSIPGYGAAGGFELRLLDKTGSNDYAKMEEVSRNFVKELSKRP-ELA 714

		              I    +  F  P+I   G A GF+  L+D+ G   +  + +     +   ++ P  L 

		Sbjct: 655  GKIRDGFVIPFNMPAIVELGTATGFDFELIDQAG-LGHDALTQARNQLLGMAAQHPASLV 713

		

		Query: 715  SVFTFYSASFPQYMLKVDNDIAEQKGVSIGSAMNNLSTLIGSNYETGFIRFGKPYKVIVQ 774

		            SV         Q+ L+VD + A+  GVS+      +ST +G  Y   FI  G+  K+ VQ

		Sbjct: 714  SVRPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRVKKLYVQ 773

		

		Query: 775  AAPQYRALPQDIMNLYVKNDKEEMVPYSDFMHMEKVYGMSEITRHNMYNSAQISGYPSEG 834

		            A  ++R LP+D+  LYV++   EMVP+S F     VYG   + R+N   S +I G  + G

		Sbjct: 774  ADAKFRMLPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEIQGEAAPG 833

		

		Query: 835  YSSGQAIEAIKETADKTLPRGYGIDWAGISKDEVGRGNEAVYIFLICLGFVYLILSAQYE 894

		             SSG A+  ++  A K LP G G DW G+S  E   GN+A  +  I    V+L L+A YE

		Sbjct: 834  TSSGDAMALMENLASK-LPAGIGYDWTGMSYQERLSGNQAPALVAISFVVVFLCLAALYE 892

		

		Query: 895  SFILPLPVILCLPAGIFGAFLFLKLFGLENNIYAQVALVMLIGLLGKNAVLIVEYAVQRK 954

		            S+ +P+ V+L +P GI G  L   LF  +N++Y  V L+  IGL  KNA+LIVE+A    

		Sbjct: 893  SWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILIVEFAKDLM 952

		

		Query: 955  -NEGATILKAAIEGAVTRFRPILMTSFAFIAGLIPLALATGPGAIGNRTIGTAAAGGMFI 1013

		              EG  +++A +     R RPILMTS AFI G++PLA++ G G+     +G    GGM  

		Sbjct: 953  EKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIGVMGGMVS 1012

		

		Query: 1014 GTIFGVVLIPGLYLIFGKI 1032

		             T+  +  +P  +++  + 

		Sbjct: 1013 ATLLAIFFVPVFFVVIRRC 1031

		

		

		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D

		           signature.

		          Length = 478

		

		 Score = 31.7 bits (72), Expect = 0.006

		 Identities = 24/139 (17%), Positives = 42/139 (30%), Gaps = 19/139 (13%)

		

		Query: 180 LSSLIAEVAQSYYELLALDSQYSYLKKYIELQRKALEVSKIQKQAAATTELSVKKFEAEL 239

		           L    AE       +   ++     K  ++     L    I K A    E    +   EL

		Sbjct: 209 LDKKRAERLTVLARINRYENLSRVEKSRLDDFSSLLHKQAIAKHAVLEQENKYVEAVNEL 268

		

		Query: 240 AKSSANLYTVQQSILEKENDINLLLGRFYQPIPRSSAEFLELVPQSIKTGIPSELLANRP 299

		               + L  ++  IL  + +                    +LV Q  K  I  +L     

		Sbjct: 269 RVYKSQLEQIESEILSAKEEY-------------------QLVTQLFKNEILDKLRQTTD 309

		

		Query: 300 DVKQAELELEAAKLDVEAA 318

		           ++    LEL   +   +A+

		Sbjct: 310 NIGLLTLELAKNEERQQAS 328

		

		

		>SYCDCHAPRONE#Gram-negative bacterial type III secretion SycD

		           chaperone signature.

		          Length = 168

		

		 Score = 39.1 bits (91), Expect = 9e-06

		 Identities = 22/124 (17%), Positives = 43/124 (34%), Gaps = 4/124 (3%)

		

		Query: 201 FEYGQFYFNRKNYEEAIRGFDYLLAINSNSVGVYANKAACYEAMQEWDKAVEVYEEMLEL 260

		           +      +    YE+A + F  L  ++      +    AC +AM ++D A+  Y     +

		Sbjct: 40  YSLAFNQYQSGKYEDAHKVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAIM 99

		

		Query: 261 EYTKAYTYYKIGLCHKENKKPLLALKSFQKSLVEDPQFYLSMMEQSFLYEEMGQMREALH 320

		           +  +    +    C  +  +   A    +  L    +      E   L   +  M EA+ 

		Sbjct: 100 DIKEPRFPFHAAECLLQKGELAEA----ESGLFLAQELIADKTEFKELSTRVSSMLEAIK 155

		

		Query: 321 FAKE 324

		             KE

		Sbjct: 156 LKKE 159

		

		

		

		 Score = 32.2 bits (73), Expect = 0.002

		 Identities = 16/97 (16%), Positives = 33/97 (34%)

		

		Query: 307 FLYEEMGQMREALHFAKEATVLNETNVDYQKRLAFLYIDSELFEESLPCLEKMVEAEPDR 366

		           F   + G+  +A    +   VL+  +  +   L         ++ ++         +   

		Sbjct: 44  FNQYQSGKYEDAHKVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAIMDIKE 103

		

		Query: 367 FYNWYAYTEVLMLVGQYNKALEILQKAISLHKDRAEF 403

		               +   E L+  G+  +A   L  A  L  D+ EF

		Sbjct: 104 PRFPFHAAECLLQKGELAEAESGLFLAQELIADKTEF 140

		

		

		

		 Score = 32.2 bits (73), Expect = 0.002

		 Identities = 19/69 (27%), Positives = 27/69 (39%), Gaps = 7/69 (10%)

		

		Query: 252 EVYEEMLELEYTKAYTYYKIGLCHKENKKPLLALKSFQKSLVEDPQFYLSMMEQSFLYEE 311

		           E+  + LE  Y+ A+  Y+ G       K   A K FQ   V D       +      + 

		Sbjct: 30  EISSDTLEQLYSLAFNQYQSG-------KYEDAHKVFQALCVLDHYDSRFFLGLGACRQA 82

		

		Query: 312 MGQMREALH 320

		           MGQ   A+H

		Sbjct: 83  MGQYDLAIH 91

		

		

		

		 Score = 29.1 bits (65), Expect = 0.025

		 Identities = 16/88 (18%), Positives = 26/88 (29%)

		

		Query: 173 FYKLNKNDDAIKFLNHYIEEFPFSETAWFEYGQFYFNRKNYEEAIRGFDYLLAINSNSVG 232

		            Y+  K +DA K          +    +   G        Y+ AI  + Y   ++     

		Sbjct: 46  QYQSGKYEDAHKVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAIMDIKEPR 105

		

		Query: 233 VYANKAACYEAMQEWDKAVEVYEEMLEL 260

		              + A C     E  +A        EL

		Sbjct: 106 FPFHAAECLLQKGELAEAESGLFLAQEL 133

		

		

		>PF03309#Bvg accessory factor

		          Length = 271

		

		 Score =  196 bits (501), Expect = 1e-64

		 Identities = 75/257 (29%), Positives = 125/257 (48%), Gaps = 16/257 (6%)

		

		Query: 4   IVVNIGNTNIRFGLFNNEGCSL----SWVINTKPYRTKDELFVQFLMHYQSYDIKPKEID 59

		           + +++ NT+   GL +  G        W I T+P  T DEL +             + + 

		Sbjct: 3   LAIDVRNTHTVVGLISGSGDHAKVVQQWRIRTEPEVTADELALTID---GLIGDDAERLT 59

		

		Query: 60  QLIIGSVVPQMTNDIVRALEKIHHLKPILV---DRNTPSEVKPKS-KQMGTDIYANLVAA 115

		                S VP + +++   LE+     P ++      T   +   + K++G D   N +AA

		Sbjct: 60  GASGLSTVPSVLHEVRVMLEQYWPNVPHVLIEPGVRTGIPLLVDNPKEVGADRIVNCLAA 119

		

		Query: 116 HHLYPNKSKIIFDFGTALTASCISHSGETLGAIIAPGIITSLKSLIQDTAQLLEIELQAP 175

		           +H Y   + I+ DFG+++    +S  GE LG  IAPG+  S  +    +A L  +EL  P

		Sbjct: 120 YHKYG-TAAIVVDFGSSICVDVVSAKGEFLGGAIAPGVQVSSDAAAARSAALRRVELTRP 178

		

		Query: 176 KSVLGLDTVSCMQSGMVYGYLGMVEGFIERINREI----GEETFVIATGGVSHVYKPLSD 231

		           +SV+G +TV CMQ+G V+G+ G+V+G + RI  ++    G +  V+ATG  + +  P   

		Sbjct: 179 RSVIGKNTVECMQAGAVFGFAGLVDGLVNRIRDDVDGFSGADVAVVATGHTAPLVLPDLR 238

		

		Query: 232 KIHIADRLHTLKGLYFL 248

		            +   DR  TL GL  +

		Sbjct: 239 TVEHYDRHLTLDGLRLV 255

		

		

		>PF06580#Sensor histidine kinase

		          Length = 349

		

		 Score = 39.8 bits (93), Expect = 2e-05

		 Identities = 30/189 (15%), Positives = 72/189 (38%), Gaps = 35/189 (18%)

		

		Query: 319 SGLIKQENLRMKKQVENVLNMSKLERNEMKLF-LRETNLRELIRNIANSVRLIVNERGGR 377

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

		Sbjct: 183 RALILEDP---TKAREMLTSLSELMRYSLRYSNARQVSLADELTVVDSYLQLASIQFEDR 239

		

		Query: 378 LT--EDFKAERYNLKVDEFHLSNTLINLLDNANKY----SPDKPEIKIATRNEGNYYVIE 431

		           L           +++V        +  L++N  K+     P   +I +    +     +E

		Sbjct: 240 LQFENQINPAIMDVQVPPM----LVQTLVENGIKHGIAQLPQGGKILLKGTKDNGTVTLE 295

		

		Query: 432 ISDKGMGMEPQNKTKIFEKFFREETGNVHNVKGQGLGLSYVKKIIELHKG---QISVETQ 488

		           + + G       K                  +  G GL  V++ +++  G   QI +  +

		Sbjct: 296 VENTGSLALKNTK------------------ESTGTGLQNVRERLQMLYGTEAQIKLSEK 337

		

		Query: 489 KGKGSTFIV 497

		           +GK +  ++

		Sbjct: 338 QGKVNAMVL 346

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 91.4 bits (227), Expect = 1e-23

		 Identities = 34/128 (26%), Positives = 64/128 (50%)

		

		Query: 4   RILLVEDDQSFGAVLKDYLSINNFEVTLATDGEEGLKEYTNNDFDICIFDVMMPKKDGFT 63

		            IL+ +DD +   VL   LS   ++V + ++     +     D D+ + DV+MP ++ F 

		Sbjct: 5   TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64

		

		Query: 64  LAEDVKKLGKNIPIIFLTARNLREDILKGYQLGADDYITKPFDTELLLYKIKAILSRSTS 123

		           L   +KK   ++P++ ++A+N     +K  + GA DY+ KPFD   L+  I   L+    

		Sbjct: 65  LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKR 124

		

		Query: 124 LEEEEQEQ 131

		              + ++ 

		Sbjct: 125 RPSKLEDD 132

		

		

		>FLGPRINGFLGI#Flagellar P-ring protein signature.

		          Length = 373

		

		 Score = 28.7 bits (64), Expect = 0.040

		 Identities = 17/49 (34%), Positives = 21/49 (42%), Gaps = 6/49 (12%)

		

		Query: 26 ALQILCAVLLTDQEVRIKNIPDIQDV--NKLIGILGDLGVKVTKNGKGD 72

		          AL  L          RIK+I  +Q    N+LIG     G+ V   G GD

		Sbjct: 15 ALPFLSTPPAQADTSRIKDIASLQAGRDNQLIGY----GLVVGLQGTGD 59

		

		

		>NUCEPIMERASE#Nucleotide sugar epimerase signature.

		          Length = 334

		

		 Score =  373 bits (959), Expect = e-131

		 Identities = 128/351 (36%), Positives = 192/351 (54%), Gaps = 37/351 (10%)

		

		Query: 5   TYLVTGGSGFIGSHLVEALLKNGHFVINVDNFDDFYNYKTKINNTLESLGITTNFDFENK 64

		            YLVTG +GFIG H+ + LL+ GH V+ +DN +D+Y+   K    LE L           

		Sbjct: 2   KYLVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLK-QARLELLA---------- 50

		

		Query: 65  NLDIKKLASLVNKGNYKFYYQDIRDKEGLEKIFKNHRPDVVIHLAALAGVRPSIERPLEY 124

		                       +  ++F+  D+ D+EG+  +F +   + V        VR S+E P  Y

		Sbjct: 51  ------------QPGFQFHKIDLADREGMTDLFASGHFERVFISPHRLAVRYSLENPHAY 98

		

		Query: 125 QEVNIKGTMNIWEVAKDLGICKFVIASSSSVYGNNEKIPFSEEDNVDRPISPYAATKKCV 184

		            + N+ G +NI E  +   I   + ASSSSVYG N K+PFS +D+VD P+S YAATKK  

		Sbjct: 99  ADSNLTGFLNILEGCRHNKIQHLLYASSSSVYGLNRKMPFSTDDSVDHPVSLYAATKKAN 158

		

		Query: 185 EVLGHTYHHLYGMDMVQLRFFTVYGPRQRPDLAIHKFAKIIKDNKQVPFYGDGNTARDYT 244

		           E++ HTY HLYG+    LRFFTVYGP  RPD+A+ KF K + + K +  Y  G   RD+T

		Sbjct: 159 ELMAHTYSHLYGLPATGLRFFTVYGPWGRPDMALFKFTKAMLEGKSIDVYNYGKMKRDFT 218

		

		Query: 245 FVDDIIDGIMKSIKYVEE--------------NAGVYEIFNLGESEVIPLHKMLSTIEEE 290

		           ++DDI + I++    +                +   Y ++N+G S  + L   +  +E+ 

		Sbjct: 219 YIDDIAEAIIRLQDVIPHADTQWTVETGTPAASIAPYRVYNIGNSSPVELMDYIQALEDA 278

		

		Query: 291 LGVKATLNKLPMQAGDVQKTNADIRKAQQKIGYAPTTNFQNGIKKFVEWFL 341

		           LG++A  N LP+Q GDV +T+AD +   + IG+ P T  ++G+K FV W+ 

		Sbjct: 279 LGIEAKKNMLPLQPGDVLETSADTKALYEVIGFTPETTVKDGVKNFVNWYR 329

		

		

		>SECA#SecA protein signature.

		          Length = 901

		

		 Score =  860 bits (2223), Expect = 0.0

		 Identities = 392/1051 (37%), Positives = 537/1051 (51%), Gaps = 254/1051 (24%)

		

		Query: 4    LNTILKSFLGNKNEKDLKEVKKVVAKIKAVEPEVGKLSDDGLRQKTEEFQNKIKEATSKI 63

		            L  +L    G++N++ L+ ++KVV  I A+EPE+ KLSD+ L+ KT EF+ ++++     

		Sbjct: 2    LIKLLTKVFGSRNDRTLRRMRKVVNIINAMEPEMEKLSDEELKGKTAEFRARLEKGEV-- 59

		

		Query: 64   TSQVEELKEKIKTSKDVDEKEALFNKIEELKKEAYQIEEKVLTDILPEAFAVLKETARRW 123

		                                                     L +++PEAFAV++E ++R 

		Sbjct: 60   -----------------------------------------LENLIPEAFAVVREASKR- 77

		

		Query: 124  AQNGEIRVKANDRDRALAATKDFVVIEGDEAVWLNHWDAAGTKVQWDMVHYDVQFIGGVV 183

		                                                         + M H+DVQ +GG+V

		Sbjct: 78   --------------------------------------------VFGMRHFDVQLLGGMV 93

		

		Query: 184  LHGGKIAEMATGEGKTLVGTLPIYLNALPGRGVHVVTVNDYLARRDSAWMGPLYEFHGLS 243

		            L+   IAEM TGEGKTL  TLP YLNAL G+GVHVVTVNDYLA+RD+    PL+EF GL+

		Sbjct: 94   LNERCIAEMRTGEGKTLTATLPAYLNALTGKGVHVVTVNDYLAQRDAENNRPLFEFLGLT 153

		

		Query: 244  IDCIDNHQPNSDARRKAYQCNITYGTNNEFGFDYLRDNMVNSPNEMVQGELNYAIVDEVD 303

		            +       P + A+R+AY  +ITYGTNNE+GFDYLRDNM  SP E VQ +L+YA+VDEVD

		Sbjct: 154  VGINLPGMP-APAKREAYAADITYGTNNEYGFDYLRDNMAFSPEERVQRKLHYALVDEVD 212

		

		Query: 304  SVLIDDARTPLIISGPVPQGDRQEFDVLKPSVDRIVDVQKKTVSAIFHEAKKLIAQGNTK 363

		            S+LID+ARTPLIISGP                        +  S ++    K+I      

		Sbjct: 213  SILIDEARTPLIISGPA-----------------------EDSSEMYKRVNKIIP----- 244

		

		Query: 364  EGGFKLLQAYRGLPKNRQLIKFLSETGNKALLQKVEAQYMQDNNREMPKVDKDLYFVIDE 423

		                                                    +  + E  + +    F +DE

		Sbjct: 245  -----------------------------------HLIRQEKEDSETFQGEGH--FSVDE 267

		

		Query: 424  KNNQIDLTDKGVEYMSQGNSDPNFFVLQDIGTELAELEAQNLPKEEEFAKKEELFRDFAV 483

		            K+ Q++LT++G+  + +         + D G  L       L                  

		Sbjct: 268  KSRQVNLTERGLVLIEELLVKEG---IMDEGESLYSPANIML------------------ 306

		

		Query: 484  KSERIHTLNQLLKAYTLFEKDDQYVVMDGEVKIVDEQTGRIMEGRRYSDGLHQAIEAKEN 543

		                +H +   L+A+ LF +D  Y+V DGEV IVDE TGR M+GRR+SDGLHQA+EAKE 

		Sbjct: 307  ----MHHVTAALRAHALFTRDVDYIVKDGEVIIVDEHTGRTMQGRRWSDGLHQAVEAKEG 362

		

		Query: 544  VKIEAATQTFATITLQNYFRMYNKLAGMTGTAETESGEFWEIYRLDVVVIPTNRPIQRND 603

		            V+I+   QT A+IT QNYFR+Y KLAGMTGTA+TE+ EF  IY+LD VV+PTNRP+ R D

		Sbjct: 363  VQIQNENQTLASITFQNYFRLYEKLAGMTGTADTEAFEFSSIYKLDTVVVPTNRPMIRKD 422

		

		Query: 604  KHDLVYKTNREKYNAVIEEVEKLTSAGRPVLVGTTSVEISQLLSKALQLRKIPHQVLNAK 663

		              DLVY T  EK  A+IE++++ T+ G+PVLVGT S+E S+L+S  L    I H VLNAK

		Sbjct: 423  LPDLVYMTEAEKIQAIIEDIKERTAKGQPVLVGTISIEKSELVSNELTKAGIKHNVLNAK 482

		

		Query: 664  LHKKEAEIVAEAGRAGVVTIATNMAGRGTDIKL--------------------------- 696

		             H  EA IVA+AG    VTIATNMAGRGTDI L                           

		Sbjct: 483  FHANEAAIVAQAGYPAAVTIATNMAGRGTDIVLGGSWQAEVAALENPTAEQIEKIKADWQ 542

		

		Query: 697  --SKEVKDAGGLAIIGTERHDSRRVDRQLRGRAGRQGDPGSSQFYVSLEDNLMRLFGSER 754

		                 V +AGGL IIGTERH+SRR+D QLRGR+GRQGD GSS+FY+S+ED LMR+F S+R

		Sbjct: 543  VRHDAVLEAGGLHIIGTERHESRRIDNQLRGRSGRQGDAGSSRFYLSMEDALMRIFASDR 602

		

		Query: 755  IAKMMDRLGHKEGEVIQHSMITKSIERAQKKVEENNFGIRKRLLEYDDVMNKQRDVIYKR 814

		            ++ MM +LG K GE I+H  +TK+I  AQ+KVE  NF IRK+LLEYDDV N QR  IY +

		Sbjct: 603  VSGMMRKLGMKPGEAIEHPWVTKAIANAQRKVESRNFDIRKQLLEYDDVANDQRRAIYSQ 662

		

		Query: 815  RKNALFGDHLKYDIANMIFDVSHSIVNQTKMHGDYKDFEFEVIKYFTMEAPVSEADFKNK 874

		            R   L    +   I ++  DV  + ++        +    E+     ++  +      + 

		Sbjct: 663  RNELLDVSDVSETINSIREDVFKATIDAYIPPQSLE----EMWDIPGLQERLKNDFDLDL 718

		

		Query: 875  TVKELTDVVFKKAQEDYEMKLNLLKEKSFPIIENVYQNQGNMFKMIQVPFSDGTKTMTIL 934

		             + E  D       ++ E+    L+E+                               IL

		Sbjct: 719  PIAEWLD-------KEPELHEETLRER-------------------------------IL 740

		

		Query: 935  ADLKEAYETQCDSL----INDFEKNICLSIIDENWKLHLREMDDLRRSSQGAVYEQKDPL 990

		            A   E Y+ + + +    +  FEK + L  +D  WK HL  MD LR+      Y QKDP 

		Sbjct: 741  AQSIEVYQRKEEVVGAEMMRHFEKGVMLQTLDSLWKEHLAAMDYLRQGIHLRGYAQKDPK 800

		

		Query: 991  VIYKQESFHLFSEMVDKINKEIISFLYKGEI 1021

		              YK+ESF +F+ M++ +  E+IS L K ++

		Sbjct: 801  QEYKRESFSMFAAMLESLKYEVISTLSKVQV 831

		

		

		>INTIMIN#Intimin signature.

		          Length = 939

		

		 Score = 27.0 bits (59), Expect = 0.022

		 Identities = 15/69 (21%), Positives = 23/69 (33%), Gaps = 7/69 (10%)

		

		Query: 56  HHSHFSTQKHYKSFFSASYFVLPKLVNIPSLLKHKR-------EKKIADYRKWQIVKYTF 108

		           +   +S Q  Y+     S  + P+ VN    L   R          I +Y+K  I+    

		Sbjct: 399 NDLLYSMQFRYQFDKPWSQQIEPQYVNELRTLSGSRYDLVQRNNNIILEYKKQDILSLNI 458

		

		Query: 109 THSNRGPPH 117

		            H   G   

		Sbjct: 459 PHDINGTER 467

		

		

		>PF03309#Bvg accessory factor

		          Length = 271

		

		 Score = 35.5 bits (82), Expect = 2e-04

		 Identities = 25/148 (16%), Positives = 51/148 (34%), Gaps = 27/148 (18%)

		

		Query: 10  MALGIDIGGTDTKFGLVN---HRGEILGKGRIKTDYDEIDDFINALYKEIEPILEQHNAK 66

		           M L ID+  T T  GL++      +++ + RI+T+ +   D +          L   +A+

		Sbjct: 1   MLLAIDVRNTHTVVGLISGSGDHAKVVQQWRIRTEPEVTADELALTIDG----LIGDDAE 56

		

		Query: 67  SQLEGIGIG--APNGNYYKGTIENAPNLKWKGIVPLAEKMTAKFGVQCKVTND------- 117

		            +L G       P+  +    +       W  +  +  +   + G+   V N        

		Sbjct: 57  -RLTGASGLSTVPSVLH---EVRVMLEQYWPNVPHVLIEPGVRTGIPLLVDNPKEVGADR 112

		

		Query: 118 -ANAAAYGEMMFGAARGMKDFIMITLGT 144

		             N  A         +     I++  G+

		Sbjct: 113 IVNCLA------AYHKYGTAAIVVDFGS 134

		

		

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

		           signature.

		          Length = 639

		

		 Score = 32.5 bits (74), Expect = 0.003

		 Identities = 35/169 (20%), Positives = 64/169 (37%), Gaps = 19/169 (11%)

		

		Query: 2   SNIVAIVGRPNVGKSTLFNRLLERREAIVDSVAGVTRDRHYGKSEWNGVEFTVIDTGGYD 61

		           S  +  +G  + G +   N LLER+  I       +         W   +  +IDT G+ 

		Sbjct: 27  SGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQ-------WENTKVNIIDTPGH- 78

		

		Query: 62  VGTDDIFEEEIRHQVQLAVDEATSIIFMLNVEEGLTDTDQEIHELLRRSNKPIYIVVNKV 121

		              D + E      V   +D A   I +++ ++G+    + +   LR+   P    +NK+

		Sbjct: 79  --MDFLAEVYRSLSV---LDGA---ILLISAKDGVQAQTRILFHALRKMGIPTIFFINKI 130

		

		Query: 122 DSAKEELPATEFYQLGIEKYYTLSSATGSGTGDLLDAVVADFPTTEYKD 170

		           D    +L     YQ  I++  +             +  V +F  +E  D

		Sbjct: 131 DQNGIDLSTV--YQ-DIKEKLSAEIVIKQKVELYPNMCVTNFTESEQWD 176

		

		

		

		 Score = 31.0 bits (70), Expect = 0.010

		 Identities = 30/138 (21%), Positives = 55/138 (39%), Gaps = 30/138 (21%)

		

		Query: 178 ITIAGRPNVGKSTLTNALLDNKRNI----VTDIAGTTRDSIE-------------TIYNK 220

		           I +    + GK+TLT +LL N   I      D   T  D+               T +  

		Sbjct: 6   IGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQW 65

		

		Query: 221 FGHEFVLVDTAGMRKKSKVSENLEFYS-VMRSVRAIEHSDVVVIMVDATQGWESQDMNIF 279

		              +  ++DT G         +++F + V RS+  +   D  ++++ A  G ++Q   +F

		Sbjct: 66  ENTKVNIIDTPG---------HMDFLAEVYRSLSVL---DGAILLISAKDGVQAQTRILF 113

		

		Query: 280 GIAQKNRKGIVILVNKWD 297

		              +K     +  +NK D

		Sbjct: 114 HALRKMGIPTIFFINKID 131

		

		

		>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein

		           signature.

		          Length = 347

		

		 Score =  362 bits (930), Expect = e-127

		 Identities = 159/339 (46%), Positives = 221/339 (65%), Gaps = 9/339 (2%)

		

		Query: 3   LFDLFTQEIAIDLGTANTLIIHNNK-IVIDQPSIVAIDRQSGRP----IAVGEQAKHMQG 57

		              +F+ +++IDLGTANTLI    + IV+++PS+VAI +          AVG  AK M G

		Sbjct: 5   FRGMFSNDLSIDLGTANTLIYVKGQGIVLNEPSVVAIRQDRAGSPKSVAAVGHDAKQMLG 64

		

		Query: 58  KTHEDIRTVRPLKDGVIADFHASEHMIKEFIKQIPGIKGKLFQPALKIVICIPSGITEVE 117

		           +T  +I  +RP+KDGVIADF  +E M++ FIKQ+        +P+ ++++C+P G T+VE

		Sbjct: 65  RTPGNIAAIRPMKDGVIADFFVTEKMLQHFIKQV--HSNSFMRPSPRVLVCVPVGATQVE 122

		

		Query: 118 KRAVRDSAQKVNAKEVRLIYEPMAAAIGVGIDVQKPEGNMIIDIGGGTTEIAVVALGGIV 177

		           +RA+R+SAQ   A+EV LI EPMAAAIG G+ V +  G+M++DIGGGTTE+AV++L G+V

		Sbjct: 123 RRAIRESAQGAGAREVFLIEEPMAAAIGAGLPVSEATGSMVVDIGGGTTEVAVISLNGVV 182

		

		Query: 178 CDKSVKIAGDVFTNDIAYYLRTHHNLFIGERTAERIKIEVGSAVEELDIDIEDIPVQGRD 237

		              SV+I GD F   I  Y+R ++   IGE TAERIK E+GSA      ++ +I V+GR+

		Sbjct: 183 YSSSVRIGGDRFDEAIINYVRRNYGSLIGEATAERIKHEIGSAYP--GDEVREIEVRGRN 240

		

		Query: 238 LITGKPKEIMIGYKEIARALDKSIIRIEDAVMETLSMTPPELAADIYKTGIYLAGGGALL 297

		           L  G P+   +   EI  AL + +  I  AVM  L   PPELA+DI + G+ L GGGALL

		Sbjct: 241 LAEGVPRGFTLNSNEILEALQEPLTGIVSAVMVALEQCPPELASDISERGMVLTGGGALL 300

		

		Query: 298 RGLADRLHKKTGLPVFVAEDPLRAVVRGTGIALKNMDKF 336

		           R L   L ++TG+PV VAEDPL  V RG G AL+ +D  

		Sbjct: 301 RNLDRLLMEETGIPVVVAEDPLTCVARGGGKALEMIDMH 339

		

		

		>OMPADOMAIN#OMPA domain signature.

		          Length = 346

		

		 Score = 68.8 bits (168), Expect = 2e-15

		 Identities = 40/176 (22%), Positives = 66/176 (37%), Gaps = 20/176 (11%)

		

		Query: 98  SNAYIKQLISTNARNDSLNLALSNKLKRSLDNVADQDVQVKVLKGVV--MISLSDKMLYR 155

		           +N      I T   N  L+L +S +  +  +              V     +L   +L+ 

		Sbjct: 166 NNIGDAHTIGTRPDNGMLSLGVSYRFGQG-EAAPVVAPAPAPAPEVQTKHFTLKSDVLFN 224

		

		Query: 156 SGDYNILPAAQEVLGKVAKVINDYD--KYSVLIEGNTDNVPLNSASLPKDNWDLSALRAT 213

		                + P  Q  L ++   +++ D    SV++ G TD +          N  LS  RA 

		Sbjct: 225 FNKATLKPEGQAALDQLYSQLSNLDPKDGSVVVLGYTDRI-----GSDAYNQGLSERRAQ 279

		

		Query: 214 SVAKVLQNQFGVDPSRITAGGRSEYNPKATNMS---------VSGRAENRRTEIII 260

		           SV   L ++ G+   +I+A G  E NP   N           +   A +RR EI +

		Sbjct: 280 SVVDYLISK-GIPADKISARGMGESNPVTGNTCDNVKQRAALIDCLAPDRRVEIEV 334

		

		

		>MYCMG045#Hypothetical mycoplasma lipoprotein (MG045) signature.

		          Length = 483

		

		 Score = 29.3 bits (65), Expect = 0.019

		 Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 5/61 (8%)

		

		Query: 30  FDSFTEETNGILAYIPKNDLNEDAIKSLYIFEQEGVEIDYTYTEMPNINWNEEWEKNFSP 89

		           FD +TE    +L      +LNE+  K +     E ++  YT  +  +I WN+  EK  SP

		Sbjct: 411 FDYYTETLKALLEKEDSAELNENEKKLV-----ETIKKAYTIEKDSSIRWNQLVEKPISP 465

		

		Query: 90  I 90

		           +

		Sbjct: 466 L 466

		

		

		>SACTRNSFRASE#Streptothricin acetyltransferase signature.

		          Length = 173

		

		 Score = 29.9 bits (67), Expect = 0.003

		 Identities = 13/101 (12%), Positives = 30/101 (29%), Gaps = 14/101 (13%)

		

		Query: 48  DGVGYVWVQGDEVLGYAVLMLNNEPAYDNIEGEWLSNGDYLVVHRVVVHDRCLGKGIAKQ 107

		               +++   +  +G   +  N           W     Y ++  + V      KG+   

		Sbjct: 64  GKAAFLYYLENNCIGRIKIRSN-----------W---NGYALIEDIAVAKDYRKKGVGTA 109

		

		Query: 108 MFLWIEGWAKQQNIYSVKVDTNYDNQPMLHILQHLGYQYCG 148

		           +      WAK+ +   + ++T   N    H      +    

		Sbjct: 110 LLHKAIEWAKENHFCGLMLETQDINISACHFYAKHHFIIGA 150

		

		

		>BINARYTOXINB#Binary toxin B family signature.

		          Length = 764

		

		 Score = 28.5 bits (63), Expect = 0.027

		 Identities = 12/38 (31%), Positives = 19/38 (50%), Gaps = 1/38 (2%)

		

		Query: 163 ESGKTILIETDAVYGTNDAFYEAKGSYSFMHTCNTWAN 200

		           E  K + ++TD VYG N A Y  +     + T + W+ 

		Sbjct: 472 EKTKQLRLDTDQVYG-NIATYNFENGRVRVDTGSNWSE 508

		

		

		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D

		           signature.

		          Length = 478

		

		 Score = 29.4 bits (66), Expect = 0.015

		 Identities = 9/57 (15%), Positives = 22/57 (38%), Gaps = 11/57 (19%)

		

		Query: 189 DIKSAAAGTILFAGEKSGYGKCVIISHGNGLATLYGHLSQVLVKANDKIKAGETIAK 245

		           +I + A G +  +G          I            + +++VK  + ++ G+ + K

		Sbjct: 81  EIVATANGKLTHSGRS------KEIKPIEN-----SIVKEIIVKEGESVRKGDVLLK 126