RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780728|ref|YP_003065141.1| pilus assembly protein
[Candidatus Liberibacter asiaticus str. psy62]
         (263 letters)



>gnl|CDD|163174 TIGR03177, pilus_cpaB, Flp pilus assembly protein CpaB.  Members of
           this protein family are the CpaB protein of Flp-type
           pilus assembly. Similar proteins include the FlgA
           protein of bacterial flagellum biosynthesis.
          Length = 261

 Score =  156 bits (397), Expect = 4e-39
 Identities = 81/224 (36%), Positives = 116/224 (51%), Gaps = 16/224 (7%)

Query: 9   IVVSGVFALVAGIIAMRLVSPHHVQTEEVITENPAKFINVLISKGDLAVGMVVTPNILEW 68
           + ++ V   +A ++A R +SP          E     + V+++  DL  G  +T   L W
Sbjct: 2   LAIALVAGGLAALLARRWLSPQQPAAAVA--EKVPT-VPVVVAARDLPAGTPITAEDLRW 58

Query: 69  VAFPEENVFDGFIDDVHQPNAMQELDGVLVRVPILKGDPIRLEKLVDRG-NGGLSSLLPK 127
           V +PE +V  G  DD+ Q      L G +VR P+  G+PI   KL   G +GGL++L+P 
Sbjct: 59  VLWPEASVPAGAFDDIAQ------LVGRIVRRPLEAGEPILEAKLAPPGASGGLAALIPP 112

Query: 128 GKRAATMDISISSAVGGMIKPNDHVDVVMVRSLSER----KPTVTVVLSNIRVIAIDHNI 183
           G RA  + +   + VGG I P D VDV++ R   E     + T   VL NIRV+A+D   
Sbjct: 113 GMRAVAIRVDEVTGVGGFILPGDRVDVLLTRRDDESRPNDRATSETVLQNIRVLAVDQTT 172

Query: 184 --DSDERVLVGSTATLELTPMQAKALVAAQSVAKLSLVLRSIAD 225
               D +  V  T TLE+TP QA+ L  A+ V  LSL LR+ AD
Sbjct: 173 QEGEDTKPKVVRTVTLEVTPEQAEKLALARQVGTLSLALRNAAD 216


>gnl|CDD|129091 smart00858, SAF, This domain family includes a range of different
           proteins. Such as antifreeze proteins and flagellar FlgA
           proteins, and CpaB pilus proteins. 
          Length = 64

 Score = 30.2 bits (69), Expect = 0.56
 Identities = 14/70 (20%), Positives = 25/70 (35%), Gaps = 9/70 (12%)

Query: 47  NVLISKGDLAVGMVVTPNILEWVAFPEENV--FDGFIDDVHQPNAMQELDGVLVRVPILK 104
            V+++  DL  G V+T   +        ++    G            ++ G + R  I  
Sbjct: 2   RVVVAARDLPAGEVITAEDVRLGHVALRDLPGGGGLTP-------YGQVIGKVARRDIAA 54

Query: 105 GDPIRLEKLV 114
           G+PI    L 
Sbjct: 55  GEPITASDLE 64


>gnl|CDD|163171 TIGR03170, flgA_cterm, flagella basal body P-ring formation protein
           FlgA.  This model describes a conserved C-terminal
           region of the flagellar basal body P-ring formation
           protein FlgA. This sequence region contains a SAF
           domain, now described by Pfam model pfam08666.
          Length = 122

 Score = 29.4 bits (67), Expect = 0.96
 Identities = 18/76 (23%), Positives = 32/76 (42%), Gaps = 11/76 (14%)

Query: 48  VLISKGDLAVGMVVTPNILEWVAFPEENVFDGFIDDVHQPNAMQELDGVLVRVPILKGDP 107
           V+++K  L  G V++P  L+        +  G + D        E+ G + + P+  G P
Sbjct: 1   VVVAKRPLKRGEVISPEDLKLERGDLARLPGGVLTDP------DEVVGKVAKRPLRAGQP 54

Query: 108 IRL-----EKLVDRGN 118
           +         LV RG+
Sbjct: 55  LTANMLRPPWLVKRGD 70


>gnl|CDD|149652 pfam08666, SAF, SAF domain.  This domain family includes a range of
           different proteins. Such as antifreeze proteins and
           flagellar FlgA proteins, and CpaB pilus proteins.
          Length = 63

 Score = 28.7 bits (65), Expect = 1.7
 Identities = 17/68 (25%), Positives = 29/68 (42%), Gaps = 6/68 (8%)

Query: 47  NVLISKGDLAVGMVVTPNILEWVAFPEENVFDGFIDDVHQPNAMQELDGVLVRVPILKGD 106
           NV+++  DL  G V+T + L  V  P +             +A  E+ G + +  I  G+
Sbjct: 2   NVVVAARDLPAGEVLTADDLTLVRPPLDLPAGLA------ADAYGEVIGKVAKRDIAAGE 55

Query: 107 PIRLEKLV 114
           P+    L 
Sbjct: 56  PLTPSDLE 63


>gnl|CDD|185606 PTZ00420, PTZ00420, coronin; Provisional.
          Length = 568

 Score = 27.2 bits (60), Expect = 4.5
 Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 9/37 (24%)

Query: 222 SIADLNP-------SSSEDS--DVWDVQEEGKEIQII 249
           SI D NP       SS  DS  ++WD++ E +  QI 
Sbjct: 129 SIIDWNPMNYYIMCSSGFDSFVNIWDIENEKRAFQIN 165


>gnl|CDD|178131 PLN02516, PLN02516, methylenetetrahydrofolate dehydrogenase
           (NADP+).
          Length = 299

 Score = 27.2 bits (60), Expect = 5.1
 Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 7/54 (12%)

Query: 69  VAFPEENVFDGFIDDVHQPNAMQELDGVLVRVPILKG-------DPIRLEKLVD 115
           V  PE       I  VH+ NA  ++ G+LV++P+ K        + I LEK VD
Sbjct: 74  VDLPENISEAELISKVHELNANPDVHGILVQLPLPKHINEEKILNEISLEKDVD 127


>gnl|CDD|184557 PRK14186, PRK14186, bifunctional 5,10-methylene-tetrahydrofolate
           dehydrogenase/ 5,10-methylene-tetrahydrofolate
           cyclohydrolase; Provisional.
          Length = 297

 Score = 26.6 bits (59), Expect = 6.1
 Identities = 18/76 (23%), Positives = 30/76 (39%), Gaps = 18/76 (23%)

Query: 71  FPEENVFDGFIDDVHQPNAMQELDGVLVRVPILKG-DPIRL------EKLVD-------- 115
            P +         + Q N  + +DG+L+++P+ K  D + L      +K  D        
Sbjct: 69  LPADTSQAEVEALIAQLNQDERVDGILLQLPLPKHLDEVPLLHAIDPDKDADGLHPLNLG 128

Query: 116 ---RGNGGLSSLLPKG 128
              +G  GL S  P G
Sbjct: 129 RLVKGEPGLRSCTPAG 144


>gnl|CDD|130645 TIGR01583, formate-DH-gamm, formate dehydrogenase, gamma subunit.
           NiFe-hydrogenase and thiosulfate reductase contain
           homologous gamma subunits, and these can be found
           scoring in the noise of this model.
          Length = 204

 Score = 26.3 bits (58), Expect = 9.2
 Identities = 7/30 (23%), Positives = 14/30 (46%)

Query: 9   IVVSGVFALVAGIIAMRLVSPHHVQTEEVI 38
           +V+ G   ++ GI    L  P    + E++
Sbjct: 115 LVLGGFLMIITGIFMWFLDFPSTAFSIELL 144


>gnl|CDD|178580 PLN03003, PLN03003, Probable polygalacturonase At3g15720.
          Length = 456

 Score = 26.2 bits (57), Expect = 9.3
 Identities = 31/164 (18%), Positives = 66/164 (40%), Gaps = 24/164 (14%)

Query: 106 DPIRLEKLVDRGNGGLSSLLPKGKRAATMDIS--ISSAVGGMIKPNDHVDVVMVRSLSER 163
           +PI +++     NGG S    K ++++ +++S  + S   G  K    VD       SER
Sbjct: 293 NPIIIDQFY---NGGDSDN-AKDRKSSAVEVSKVVFSNFIGTSKSEYGVDF----RCSER 344

Query: 164 KPTVTVVLSNIRVIAIDH-----------NIDSDERVLVGSTATLELTPMQAKALVAAQS 212
            P   + L ++++                N+     + V     LEL+        +AQ 
Sbjct: 345 VPCTEIFLRDMKIETASSGSGQVAQGQCLNVRGASTIAVPGLECLELST---DMFSSAQL 401

Query: 213 VAKLSLVLRSIADLNPSSSEDSDVWDVQEEGKEIQIIKAGVIVN 256
           + +  +  +S+     +      +W  Q  GK++++    ++V+
Sbjct: 402 LEQTCMSAQSVQPRTTTQPMQDPIWVFQSRGKQLRVYNIAILVS 445


  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
   0.317    0.135    0.370 

Gapped
Lambda     K      H
   0.267   0.0745    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 4,270,759
Number of extensions: 279209
Number of successful extensions: 597
Number of sequences better than 10.0: 1
Number of HSP's gapped: 591
Number of HSP's successfully gapped: 15
Length of query: 263
Length of database: 5,994,473
Length adjustment: 92
Effective length of query: 171
Effective length of database: 4,006,537
Effective search space: 685117827
Effective search space used: 685117827
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 56 (25.3 bits)