RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddB 
           21,608 sequences; 5,994,473 total letters

Searching..................................................done

Query= gi|254780592|ref|YP_003065005.1| TPR repeat-containing protein
[Candidatus Liberibacter asiaticus str. psy62]
         (271 letters)



>gnl|CDD|163072 TIGR02917, PEP_TPR_lipo, putative PEP-CTERM system TPR-repeat
           lipoprotein.  This protein family occurs in strictly
           within a subset of Gram-negative bacterial species with
           the proposed PEP-CTERM/exosortase system, analogous to
           the LPXTG/sortase system common in Gram-positive
           bacteria. This protein occurs in a species if and only
           if a transmembrane histidine kinase (TIGR02916) and a
           DNA-binding response regulator (TIGR02915) also occur.
           The present of tetratricopeptide repeats (TPR) suggests
           protein-protein interaction, possibly for the regulation
           of PEP-CTERM protein expression, since many PEP-CTERM
           proteins in these genomes are preceded by a proposed DNA
           binding site for the response regulator.
          Length = 899

 Score = 58.2 bits (141), Expect = 2e-09
 Identities = 38/181 (20%), Positives = 67/181 (37%), Gaps = 4/181 (2%)

Query: 88  QALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINRAQRPDIPDWQLISAKGSV 147
           QA   + Q+    P   +            G +DE +  ++ A   D  D   +S  G  
Sbjct: 313 QAYQYLNQILKYAPNSHQARRLLASIQLRLGRVDEAIATLSPALGLDPDDPAALSLLGEA 372

Query: 148 LAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEEKLRFASQMIGADSR 207
              +G   +A     +A EL P  ++  + + +S L  GD   A   L  A+Q+     R
Sbjct: 373 YLALGDFEKAAEYLAKATELDPENAAARTQLGISKLSQGDPSEAIADLETAAQLDPELGR 432

Query: 208 IRQNLALVVGLQGRMKEAYSIASQELSPEEATRNI-KYIKSILSQRDPWKKIAKARSNHN 266
               L L     G+  +A + A +    +    ++   + +I   +     +AKAR    
Sbjct: 433 ADLLLILSYLRSGQFDKALAAAKKLEKKQPDNASLHNLLGAIYLGK---GDLAKAREAFE 489

Query: 267 K 267
           K
Sbjct: 490 K 490



 Score = 42.0 bits (99), Expect = 1e-04
 Identities = 36/152 (23%), Positives = 60/152 (39%), Gaps = 7/152 (4%)

Query: 77  ADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEG---LDAINRAQRP 133
              L   G TA+A+  +      +P D  +  A  +        D+       + +    
Sbjct: 743 HRALLASGNTAEAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-- 800

Query: 134 DIPDWQLISAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEE 193
             PD  ++    + L    K   AL   E+AL+L+PN  +I+  +    +  G+   A  
Sbjct: 801 --PDNAVVLNNLAWLYLELKDPRALEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALP 858

Query: 194 KLRFASQMIGADSRIRQNLALVVGLQGRMKEA 225
            LR A  +    + IR +LAL +   GR  EA
Sbjct: 859 LLRKAVNIAPEAAAIRYHLALALLATGRKAEA 890



 Score = 38.9 bits (91), Expect = 0.002
 Identities = 40/157 (25%), Positives = 64/157 (40%), Gaps = 6/157 (3%)

Query: 77  ADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEG---LDAINRAQRP 133
            D+L  +G    ALA  R+   L P +  VL A    L  AG  +E     DA+   + P
Sbjct: 200 GDLLLSLGNIELALAAYRKAIALRPNNPAVLLALATILIEAGEFEEAEKHADAL-LKKAP 258

Query: 134 DIPDWQLISAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEE 193
           + P       K  V  Q   + +A    + AL+ +P     +     S   +G+L+ A +
Sbjct: 259 NSP--LAHYLKALVDFQKKNYEDARETLQDALKSAPEYLPALLLAGASEYQLGNLEQAYQ 316

Query: 194 KLRFASQMIGADSRIRQNLALVVGLQGRMKEAYSIAS 230
            L    +      + R+ LA +    GR+ EA +  S
Sbjct: 317 YLNQILKYAPNSHQARRLLASIQLRLGRVDEAIATLS 353



 Score = 33.9 bits (78), Expect = 0.046
 Identities = 26/87 (29%), Positives = 45/87 (51%), Gaps = 1/87 (1%)

Query: 140 LISAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEEKLRFAS 199
           LI A  S L +  K+  A+I+ + AL+  PN++     +   YL +GD   AE++LR A 
Sbjct: 25  LIEAAKSYLQK-NKYKAAIIQLKNALQKDPNDAEARFLLGKIYLALGDYAAAEKELRKAL 83

Query: 200 QMIGADSRIRQNLALVVGLQGRMKEAY 226
            +    +++   LA    LQG+ ++  
Sbjct: 84  SLGYPKNQVLPLLARAYLLQGKFQQVL 110



 Score = 33.1 bits (76), Expect = 0.082
 Identities = 27/149 (18%), Positives = 56/149 (37%), Gaps = 1/149 (0%)

Query: 77  ADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINRAQRPDIP 136
           AD    +   A+A+  +++   L P++ E      + L  A   +         Q+    
Sbjct: 642 ADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPK 701

Query: 137 DWQLISAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEEKLR 196
                  +G +  +   +  A+  Y +AL+ +P+ S     +  + L  G+   A + L 
Sbjct: 702 AALGFELEGDLYLRQKDYPAAIQAYRKALKRAPS-SQNAIKLHRALLASGNTAEAVKTLE 760

Query: 197 FASQMIGADSRIRQNLALVVGLQGRMKEA 225
              +    D+ +R  LA +   Q    +A
Sbjct: 761 AWLKTHPNDAVLRTALAELYLAQKDYDKA 789



 Score = 33.1 bits (76), Expect = 0.083
 Identities = 20/95 (21%), Positives = 36/95 (37%)

Query: 101 PEDQEVLAAYGKSLANAGYLDEGLDAINRAQRPDIPDWQLISAKGSVLAQMGKHSEALIE 160
           P          +        DE    I+     D  +   +  KG +L  +G    AL  
Sbjct: 156 PRSLYAKLGLAQLALAENRFDEARALIDEVLTADPGNVDALLLKGDLLLSLGNIELALAA 215

Query: 161 YERALELSPNESSIVSNIAMSYLLMGDLKTAEEKL 195
           Y +A+ L PN  +++  +A   +  G+ + AE+  
Sbjct: 216 YRKAIALRPNNPAVLLALATILIEAGEFEEAEKHA 250



 Score = 32.0 bits (73), Expect = 0.18
 Identities = 28/98 (28%), Positives = 42/98 (42%), Gaps = 7/98 (7%)

Query: 109 AYGKSLANAGYLDEG----LDAINRAQR---PDIPDWQLISAKGSVLAQMGKHSEALIEY 161
            +  + AN   +D       DAI R ++    D  + + I A   +  + G   EA+   
Sbjct: 497 DFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEEAVAWL 556

Query: 162 ERALELSPNESSIVSNIAMSYLLMGDLKTAEEKLRFAS 199
           E+A EL+P E      +A  YL  G LK A   L  A+
Sbjct: 557 EKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAA 594



 Score = 32.0 bits (73), Expect = 0.19
 Identities = 39/184 (21%), Positives = 75/184 (40%), Gaps = 6/184 (3%)

Query: 84  GRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINR--AQRPDIPDWQLI 141
           G  ++A+A +   A L PE          S   +G  D+ L A  +   ++PD     L 
Sbjct: 411 GDPSEAIADLETAAQLDPELGRADLLLILSYLRSGQFDKALAAAKKLEKKQPDNA--SLH 468

Query: 142 SAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEEKLRFASQM 201
           +  G++    G  ++A   +E+AL + P+     +N+A   +  G+   A ++      +
Sbjct: 469 NLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTI 528

Query: 202 IGADSRIRQNLALVVGLQGRMKEAYSIASQ--ELSPEEATRNIKYIKSILSQRDPWKKIA 259
              + R    LA +    G  +EA +   +  EL+P+E    +   +  L +    K +A
Sbjct: 529 DPKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALA 588

Query: 260 KARS 263
               
Sbjct: 589 ILNE 592


>gnl|CDD|182209 PRK10049, pgaA, outer membrane protein PgaA; Provisional.
          Length = 765

 Score = 43.2 bits (102), Expect = 8e-05
 Identities = 23/96 (23%), Positives = 41/96 (42%), Gaps = 5/96 (5%)

Query: 77  ADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLD-AINR-AQRPD 134
           A   R + +   +L + ++   L P++ +       +LA+AG  DE L  A    +  PD
Sbjct: 56  AVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQYDEALVKAKQLVSGAPD 115

Query: 135 IPDWQLISAKGSVLAQMGKHSEALIEYERALELSPN 170
             +     A   V  + G+H + L    +AL  +P 
Sbjct: 116 KANLL---ALAYVYKRAGRHWDELRAMTQALPRAPQ 148


>gnl|CDD|162919 TIGR02552, LcrH_SycD, type III secretion low calcium response
           chaperone LcrH/SycD.  ScyD/LcrH contains three central
           tetratricopeptide-like repeats that are predicted to
           fold into an all-alpha-helical array.
          Length = 135

 Score = 41.5 bits (98), Expect = 2e-04
 Identities = 24/126 (19%), Positives = 48/126 (38%), Gaps = 12/126 (9%)

Query: 88  QALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDE------GLDAINRAQRPDIPDWQLI 141
              A ++ +  L  E  E + A   +L   G  DE       L A +        + +  
Sbjct: 1   SGGATLKDLLGLDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYDPY------NSRYW 54

Query: 142 SAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEEKLRFASQM 201
               +    + ++ EA+  Y  A  L P++     + A   L +G+ ++A + L  A ++
Sbjct: 55  LGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLALGEPESALKALDLAIEI 114

Query: 202 IGADSR 207
            G +  
Sbjct: 115 CGENPE 120


>gnl|CDD|183140 PRK11447, PRK11447, cellulose synthase subunit BcsC; Provisional.
          Length = 1157

 Score = 37.4 bits (87), Expect = 0.004
 Identities = 27/113 (23%), Positives = 49/113 (43%), Gaps = 20/113 (17%)

Query: 111 GKSLANAGYLDEGLDAINRAQRPDIPDWQLISAKGSVLAQMGKHSEALIEYERALELSPN 170
           G +  ++G   + +  + +A R +  D + + A G   +Q G  + A+ ++E+AL L P+
Sbjct: 276 GLAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPH 335

Query: 171 -------ESSIVSNIAMSYLLM----------GDLKTAEEKLRFASQMIGADS 206
                  ES +  N    Y L+           +L  AE   + A Q+   DS
Sbjct: 336 SSNRDKWESLLKVN---RYWLLIQQGDAALKANNLAQAERLYQQARQVDNTDS 385



 Score = 37.4 bits (87), Expect = 0.005
 Identities = 38/181 (20%), Positives = 62/181 (34%), Gaps = 42/181 (23%)

Query: 76  YADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINRAQR--- 132
            A  LR+ G+ +QA A+MR++A   P D E + AYG  L+ +      L  +N   R   
Sbjct: 501 LAQDLRQAGQRSQADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQW 560

Query: 133 -PDIPDW------QLISAKGSVL------------------------------AQMGKHS 155
             +I +         +    + L                               Q G ++
Sbjct: 561 NSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQPPSTRIDLTLADWAQQRGDYA 620

Query: 156 EALIEYERALELSP-NESSIVSNIAMSYLLMGDLKTAEEKLRFASQMIGADSRIRQNLAL 214
            A   Y+R L   P N  + +  I    +  GDL  A  +L             ++ +AL
Sbjct: 621 AARAAYQRVLTREPGNADARLGLIE-VDIAQGDLAAARAQLAKLPATANDSLNTQRRVAL 679

Query: 215 V 215
            
Sbjct: 680 A 680



 Score = 37.0 bits (86), Expect = 0.006
 Identities = 24/132 (18%), Positives = 51/132 (38%), Gaps = 14/132 (10%)

Query: 84  GRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINRA-----QRPDIPDW 138
           G+  +A+  ++Q     P+D E L A G++ +  G     +    +A        +   W
Sbjct: 283 GQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKW 342

Query: 139 Q---------LISAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLK 189
           +         L+  +G    +    ++A   Y++A ++   +S  V  +    +   D  
Sbjct: 343 ESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDYA 402

Query: 190 TAEEKLRFASQM 201
            AE   + A +M
Sbjct: 403 AAERYYQQALRM 414



 Score = 31.2 bits (71), Expect = 0.26
 Identities = 15/68 (22%), Positives = 32/68 (47%), Gaps = 5/68 (7%)

Query: 136 PDWQLISAKGSVLAQM--GKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEE 193
           P ++   A+   LA +  G+  +A+ E ++A+  +P +S  +  +  +Y   GD   A  
Sbjct: 268 PAFR---ARAQGLAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVA 324

Query: 194 KLRFASQM 201
           +   A  +
Sbjct: 325 QFEKALAL 332



 Score = 26.6 bits (59), Expect = 6.4
 Identities = 19/64 (29%), Positives = 29/64 (45%), Gaps = 4/64 (6%)

Query: 77  ADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINR---AQRP 133
           A+ L   G+ AQA  + RQ   L P    +     + L  AG   +  DA+ R    Q+P
Sbjct: 468 AEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQA-DALMRRLAQQKP 526

Query: 134 DIPD 137
           + P+
Sbjct: 527 NDPE 530


>gnl|CDD|179448 PRK02603, PRK02603, photosystem I assembly protein Ycf3;
           Provisional.
          Length = 172

 Score = 33.1 bits (76), Expect = 0.079
 Identities = 21/50 (42%), Positives = 31/50 (62%), Gaps = 2/50 (4%)

Query: 145 GSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEEK 194
           G + A  G+H +AL  Y +ALEL+P + S ++NIA+ Y   G+   AEE 
Sbjct: 79  GIIYASNGEHDKALEYYHQALELNPKQPSALNNIAVIYHKRGE--KAEEA 126



 Score = 30.8 bits (70), Expect = 0.40
 Identities = 25/95 (26%), Positives = 44/95 (46%), Gaps = 15/95 (15%)

Query: 152 GKHSEALIEYERALEL--SPNESS-IVSNIAMSYLLMGDLKTAEEKLRFASQMIGADSRI 208
           G+++EAL  YE AL+L   PN+ S I+ N+ + Y   G+   A   L +  Q +  + + 
Sbjct: 49  GEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKA---LEYYHQALELNPKQ 105

Query: 209 RQ---NLALVVGLQGRMKEAYSIASQELSPEEATR 240
                N+A++   +G        A +    +EA  
Sbjct: 106 PSALNNIAVIYHKRGE------KAEEAGDQDEAEA 134


>gnl|CDD|185096 PRK15174, PRK15174, Vi polysaccharide export protein VexE;
           Provisional.
          Length = 656

 Score = 32.0 bits (72), Expect = 0.15
 Identities = 24/85 (28%), Positives = 39/85 (45%), Gaps = 4/85 (4%)

Query: 75  VYADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINR--AQR 132
           +YAD L R G+  +A+ +++Q    +P+   V A Y ++L   G      D   +   ++
Sbjct: 289 LYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLAREK 348

Query: 133 PDIPDWQLISAKGSVLAQMGKHSEA 157
                W    A  + L Q GK SEA
Sbjct: 349 GVTSKWNR-YAAAA-LLQAGKTSEA 371


>gnl|CDD|128343 smart00028, TPR, Tetratricopeptide repeats.  Repeats present in 4
           or more copies in proteins. Contain a minimum of 34
           amino acids each and self-associate via a "knobs and
           holes" mechanism.
          Length = 34

 Score = 32.0 bits (74), Expect = 0.15
 Identities = 13/27 (48%), Positives = 18/27 (66%)

Query: 144 KGSVLAQMGKHSEALIEYERALELSPN 170
            G+   ++G + EAL  YE+ALEL PN
Sbjct: 7   LGNAYLKLGDYDEALEYYEKALELDPN 33


>gnl|CDD|149015 pfam07719, TPR_2, Tetratricopeptide repeat.  This Pfam entry
           includes outlying Tetratricopeptide-like repeats (TPR)
           that are not matched by pfam00515.
          Length = 34

 Score = 31.7 bits (73), Expect = 0.22
 Identities = 13/28 (46%), Positives = 17/28 (60%)

Query: 143 AKGSVLAQMGKHSEALIEYERALELSPN 170
             G    ++G + EAL  YE+ALEL PN
Sbjct: 6   NLGLAYYKLGDYEEALEAYEKALELDPN 33


>gnl|CDD|131573 TIGR02521, type_IV_pilW, type IV pilus biogenesis/stability protein
           PilW.  Members of this family are designated PilF in ref
           (PubMed:8973346) and PilW in ref (PubMed:15612916). This
           outer membrane protein is required both for pilus
           stability and for pilus function such as adherence to
           human cells. Members of this family contain copies of
           the TPR (tetratricopeptide repeat) domain.
          Length = 234

 Score = 31.2 bits (71), Expect = 0.29
 Identities = 24/112 (21%), Positives = 45/112 (40%), Gaps = 2/112 (1%)

Query: 116 NAGYLDEGLDAINRAQRPDIPDWQLISAKGSVLAQMGKHSEALIEYERALELSPNESSIV 175
             G L+   + +++A   D  D+    A      Q+G+  +A   + RAL L+PN   ++
Sbjct: 43  EQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVL 102

Query: 176 SNIAMSYLLMGDLKTAEEKLRFA--SQMIGADSRIRQNLALVVGLQGRMKEA 225
           +N        G  + A ++   A    +    +R  +N  L     G   +A
Sbjct: 103 NNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKA 154



 Score = 30.4 bits (69), Expect = 0.54
 Identities = 38/194 (19%), Positives = 69/194 (35%), Gaps = 23/194 (11%)

Query: 21  LIPLLLFSSCHLNPRISIPDPESLENMNHEQLLEVTSTIGLQY----------------- 63
           L+ LL  + C   P +    P S    +  +  ++   + L Y                 
Sbjct: 3   LVFLLALTGCVTTPDV----PRSSRTTDRNKAAKIRVQLALGYLEQGDLEVAKENLDKAL 58

Query: 64  QSHTKNKMIGIVYADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEG 123
           +    + +  +  A   +++G   +A    R+   L P + +VL  YG  L   G  ++ 
Sbjct: 59  EHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKYEQA 118

Query: 124 LDAINRAQR-PDIPD-WQLISAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMS 181
           +    +A   P  P   + +   G    + G   +A     RAL++ P     +  +A  
Sbjct: 119 MQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAEL 178

Query: 182 YLLMGDLKTAEEKL 195
           Y L G  K A   L
Sbjct: 179 YYLRGQYKDARAYL 192


>gnl|CDD|152282 pfam11846, DUF3366, Domain of unknown function (DUF3366).  This
           domain is functionally uncharacterized. This domain is
           found in bacteria. This presumed domain is about 200
           amino acids in length.
          Length = 193

 Score = 30.8 bits (70), Expect = 0.40
 Identities = 22/88 (25%), Positives = 34/88 (38%), Gaps = 9/88 (10%)

Query: 31  HLNPRISIPDPESLENMNHEQLLEVTSTIGLQYQSHTKNKMIGIVYADVLRRVGRTAQAL 90
            L   I+  +PE L    HEQ L++        +   +  +     A  L  +G+ A+A 
Sbjct: 114 ALLLGITPQNPELLLPY-HEQALKL-------LRYKPRPAVYRR-LALALALLGKPAEAR 164

Query: 91  AVMRQVAILYPEDQEVLAAYGKSLANAG 118
             M Q   LYP      A Y +  A + 
Sbjct: 165 DWMAQARYLYPLADFCAALYARPAAASA 192


>gnl|CDD|117839 pfam09295, ChAPs, ChAPs (Chs5p-Arf1p-binding proteins).  ChAPs
           (Chs5p-Arf1p-binding proteins) are required for the
           export of specialized cargo from the Golgi. They
           physically interact with Chs3, Chs5 and the small GTPase
           Arf1, and they form also interactions with each other.
          Length = 395

 Score = 30.4 bits (69), Expect = 0.47
 Identities = 35/168 (20%), Positives = 72/168 (42%), Gaps = 14/168 (8%)

Query: 32  LNPRISIPDPESLENM---NHEQLLEVTSTIG----LQYQSHTKNKMI-GIVYADVLRRV 83
           LNP  +  + E + NM     E L      +G    +Q  +   N ++ G++    +R  
Sbjct: 126 LNP-FTNGELEDVANMFLKAFELLFFRGPQLGSPSEIQVPTLVNNYLVEGLL--KYVRLT 182

Query: 84  GRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINRAQRPDIPDWQLISA 143
            R  +AL ++ ++    PE   +LA   + L       + +  ++ A + +  D++L+  
Sbjct: 183 KRYDRALNLLEKLREEEPEVVSLLA---RVLLLMDEEIDAVKLMHDALQENPMDYELLCL 239

Query: 144 KGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTA 191
           +   L    K   AL   +RA+  +P+E    + +   Y+ + D + A
Sbjct: 240 QAEFLLSKKKDELALECAKRAVNSAPSEFKTWALLVKVYIKLEDWENA 287


>gnl|CDD|162156 TIGR01004, PulS_OutS, lipoprotein, PulS/OutS family.  This family
          comprises lipoproteins from four gamma proteobacterial
          species: PulS protein of Klebsiella pneumoniae, the
          OutS protein of Erwinia chrysanthemi and Pectobacterium
          chrysanthemi, and the functionally uncharacterized E.
          coli protein EtpO. PulS and OutS have been shown to
          interact with and facilitate insertion of secretins
          into the outer membrane, suggesting a chaperone-like,
          or piloting function for members of this family.
          Length = 128

 Score = 30.3 bits (68), Expect = 0.59
 Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 4/37 (10%)

Query: 15 IKCIVFLIPLLLFSSCHLNPRI----SIPDPESLENM 47
          +KCI F +  +  S C  NP I    S+P  E LE +
Sbjct: 6  LKCIAFGLCCVSLSGCQQNPAIHKAASVPANEQLEQL 42


>gnl|CDD|184125 PRK13538, PRK13538, cytochrome c biogenesis protein CcmA;
           Provisional.
          Length = 204

 Score = 29.4 bits (67), Expect = 0.91
 Identities = 14/38 (36%), Positives = 18/38 (47%), Gaps = 3/38 (7%)

Query: 187 DLKTAEEKLRFASQMIGA--DSRIRQNLALVVGLQGRM 222
              TA E LRF  ++ G   D  + + LA  VGL G  
Sbjct: 87  TELTALENLRFYQRLHGPGDDEALWEALAQ-VGLAGFE 123


>gnl|CDD|181272 PRK08180, PRK08180, feruloyl-CoA synthase; Reviewed.
          Length = 614

 Score = 29.1 bits (66), Expect = 1.3
 Identities = 12/33 (36%), Positives = 15/33 (45%), Gaps = 5/33 (15%)

Query: 72  IGIVYADVLRRVGRTAQALAVM-----RQVAIL 99
             + YA+ L RV   AQAL        R + IL
Sbjct: 68  RRLTYAEALERVRAIAQALLDRGLSAERPLMIL 100


>gnl|CDD|185101 PRK15179, PRK15179, Vi polysaccharide biosynthesis protein TviE;
           Provisional.
          Length = 694

 Score = 28.8 bits (64), Expect = 1.5
 Identities = 26/140 (18%), Positives = 48/140 (34%)

Query: 74  IVYADVLRRVGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINRAQRP 133
           ++ A  L    R+ + LAV R +   +P+  E      + +     ++ G   I      
Sbjct: 90  VLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG 149

Query: 134 DIPDWQLISAKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEE 193
                + I  +     ++G+  +A   +ER     P   +     A S    G L  A +
Sbjct: 150 GSSSAREILLEAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARD 209

Query: 194 KLRFASQMIGADSRIRQNLA 213
            L+     IG  +R      
Sbjct: 210 VLQAGLDAIGDGARKLTRRL 229


>gnl|CDD|184326 PRK13788, PRK13788, adenylosuccinate synthetase; Provisional.
          Length = 404

 Score = 28.6 bits (64), Expect = 1.9
 Identities = 30/125 (24%), Positives = 54/125 (43%), Gaps = 14/125 (11%)

Query: 32  LNPRISIPDPESLENMNHEQLLEVTSTIGLQYQSHTKNKMIGIVYADVLRRVGRTAQALA 91
           LNP++ I +   L   +H+ +    + +G      T  + IG  Y+D  RRVG     L 
Sbjct: 91  LNPKLLISERAHLVLPHHKYVDGRKNFVG------TTGRGIGPAYSDRARRVGIRFGDLL 144

Query: 92  VMRQVAILYPEDQEVLAAYGKSLANAGY--LDEGLDAINRAQRPDIPDWQLISAKGSVLA 149
                A+L    + +L A   S   AG+  +++ L  +   +   +P    I+  GS+L 
Sbjct: 145 ---DEAVLRERVERLLEAKPNSTREAGWDTVEKALADLAPMREILLP---FIADTGSLLR 198

Query: 150 QMGKH 154
           +  + 
Sbjct: 199 EAIRE 203


>gnl|CDD|182072 PRK09782, PRK09782, bacteriophage N4 receptor, outer membrane
           subunit; Provisional.
          Length = 987

 Score = 28.3 bits (63), Expect = 2.3
 Identities = 19/73 (26%), Positives = 34/73 (46%)

Query: 143 AKGSVLAQMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEEKLRFASQMI 202
           A+ ++  Q      A+ +   ALEL PN S+  + +  +    GD+  + E L  A + +
Sbjct: 614 ARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGL 673

Query: 203 GADSRIRQNLALV 215
             D  + + LA V
Sbjct: 674 PDDPALIRQLAYV 686


>gnl|CDD|181247 PRK08137, PRK08137, amidase; Provisional.
          Length = 497

 Score = 27.8 bits (62), Expect = 3.0
 Identities = 12/29 (41%), Positives = 16/29 (55%), Gaps = 2/29 (6%)

Query: 108 AAYGKSLANAGYL--DEGLDAINRAQRPD 134
            AY  +LA+A  L   EG+DA  +  R D
Sbjct: 381 PAYLDALADAKRLAGPEGIDAALKEHRLD 409


>gnl|CDD|183138 PRK11443, PRK11443, lipoprotein; Provisional.
          Length = 124

 Score = 27.8 bits (62), Expect = 3.5
 Identities = 11/28 (39%), Positives = 14/28 (50%), Gaps = 1/28 (3%)

Query: 16 KCIVFLIPLLLFSSCHLNPRISIPDPES 43
          K I  L+ LLL S C ++P    P   S
Sbjct: 3  KFIAPLLALLL-SGCQIDPYTHAPTLTS 29


>gnl|CDD|171499 PRK12438, PRK12438, hypothetical protein; Provisional.
          Length = 991

 Score = 27.5 bits (61), Expect = 3.6
 Identities = 10/22 (45%), Positives = 15/22 (68%)

Query: 182 YLLMGDLKTAEEKLRFASQMIG 203
           Y+L+GD +TA+   R  S M+G
Sbjct: 742 YVLVGDQQTAQPSFRLTSAMVG 763


>gnl|CDD|150766 pfam10129, OpgC_C, OpgC protein.  This domain, found in various
           hypothetical and OpgC prokaryotic proteins. It is likely
           to act as an acyltransferase enzyme.
          Length = 358

 Score = 27.1 bits (61), Expect = 4.4
 Identities = 10/30 (33%), Positives = 14/30 (46%)

Query: 71  MIGIVYADVLRRVGRTAQALAVMRQVAILY 100
             G+ Y    RR G  A A  ++R+   LY
Sbjct: 50  AAGMAYGRAFRRRGWLAAAARILRRAWQLY 79


>gnl|CDD|182152 PRK09932, PRK09932, glycerate kinase II; Provisional.
          Length = 381

 Score = 27.2 bits (60), Expect = 4.7
 Identities = 36/162 (22%), Positives = 59/162 (36%), Gaps = 30/162 (18%)

Query: 87  AQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLD-EGLDAINRAQRPDIP---DWQLIS 142
           AQAL V          D +VL A G +LA    ++ +  D        ++    D  L+ 
Sbjct: 146 AQALGVR-----FLDADGQVLGANGGNLARVASIEMDECDPRLANCHIEVACDVDNPLVG 200

Query: 143 AKGSVLA---QMGKHSEALIEYERALELSPNESSIVSNIAMSYLLMGDLKTAEEKLRFAS 199
           A+G+      Q G   E + E E+ L+   N + +             L+   E      
Sbjct: 201 ARGAAAVFGPQKGATPEMVEELEQGLQ---NYARV-------------LQQQTE--INVC 242

Query: 200 QMIGADSRIRQNLALVVGLQGRMKEAYSIASQELSPEEATRN 241
           QM G  +     +A  V L   +K    I    ++ E+A + 
Sbjct: 243 QMAGGGAAGGMGIAAAVFLNADIKPGIEIVLNAVNLEQAVQG 284


>gnl|CDD|162353 TIGR01426, MGT, glycosyltransferase, MGT family.  This model
           describes the MGT (macroside glycosyltransferase)
           subfamily of the UDP-glucuronosyltransferase family.
           Members include a number of glucosyl transferases for
           macrolide antibiotic inactivation, but also include
           transferases of glucose-related sugars for macrolide
           antibiotic production.
          Length = 392

 Score = 27.0 bits (60), Expect = 5.1
 Identities = 12/44 (27%), Positives = 21/44 (47%), Gaps = 5/44 (11%)

Query: 192 EEKLRFASQMIGADSRIRQNLALVVGLQGRMKEA--YSIASQEL 233
            EKLR A   + +D R  + L     ++  ++EA     A+ E+
Sbjct: 346 AEKLREAVLAVLSDPRYAERLR---KMRAEIREAGGARRAADEI 386


>gnl|CDD|179714 PRK04023, PRK04023, DNA polymerase II large subunit; Validated.
          Length = 1121

 Score = 27.2 bits (61), Expect = 5.2
 Identities = 16/43 (37%), Positives = 22/43 (51%), Gaps = 8/43 (18%)

Query: 72  IGIVYADVLRRVGRTAQALAVM-----RQVAILY---PEDQEV 106
           + I YA  +R  G TAQAL+V+     R+   L    P D E+
Sbjct: 135 LAIYYAGPIRSAGGTAQALSVLVGDYVRRKLGLDRYKPTDDEI 177


>gnl|CDD|149016 pfam07721, TPR_4, Tetratricopeptide repeat.  This Pfam entry
          includes tetratricopeptide-like repeats not detected by
          the pfam00515, pfam07719 and pfam07720 models.
          Length = 26

 Score = 26.5 bits (60), Expect = 6.7
 Identities = 5/22 (22%), Positives = 11/22 (50%)

Query: 74 IVYADVLRRVGRTAQALAVMRQ 95
          +  A  L  +G   +A A++ +
Sbjct: 5  LALARALLALGDLDEARALLER 26


>gnl|CDD|183811 PRK12882, ubiA, prenyltransferase; Reviewed.
          Length = 276

 Score = 26.5 bits (59), Expect = 7.6
 Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 2/29 (6%)

Query: 119 YLDEGLDAINRAQRPDIPDWQLISAKGSV 147
           Y D  +D INR  RP IP    +S +G++
Sbjct: 60  YFDREIDRINRPDRP-IPSGA-VSPRGAL 86


>gnl|CDD|150637 pfam09986, DUF2225, Uncharacterized protein conserved in bacteria
           (DUF2225).  This domain, found in various hypothetical
           bacterial proteins, has no known function.
          Length = 214

 Score = 26.5 bits (59), Expect = 8.5
 Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 3/52 (5%)

Query: 156 EALIEYERALELSPNESSIVSNIAMSYL---LMGDLKTAEEKLRFASQMIGA 204
           +AL  Y+ A E        +    + YL   L   L   EE LR+ S++IG+
Sbjct: 143 KALELYKEAYEKEDFPIEGIDEATLMYLIGELSRRLGNKEEALRWFSKVIGS 194


>gnl|CDD|184801 PRK14715, PRK14715, DNA polymerase II large subunit; Provisional.
          Length = 1627

 Score = 26.0 bits (57), Expect = 10.0
 Identities = 11/24 (45%), Positives = 16/24 (66%)

Query: 70  KMIGIVYADVLRRVGRTAQALAVM 93
           + + I YA  +R  G TAQAL+V+
Sbjct: 137 EYLAIYYAGPIRSAGGTAQALSVL 160


  Database: CddB
    Posted date:  Feb 4, 2011  9:54 PM
  Number of letters in database: 5,994,473
  Number of sequences in database:  21,608
  
Lambda     K      H
   0.319    0.133    0.371 

Gapped
Lambda     K      H
   0.267   0.0642    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 4,362,382
Number of extensions: 280388
Number of successful extensions: 698
Number of sequences better than 10.0: 1
Number of HSP's gapped: 686
Number of HSP's successfully gapped: 62
Length of query: 271
Length of database: 5,994,473
Length adjustment: 92
Effective length of query: 179
Effective length of database: 4,006,537
Effective search space: 717170123
Effective search space used: 717170123
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (25.5 bits)