RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780396|ref|YP_003064809.1| peptidyl-prolyl cis-trans
isomerase protein [Candidatus Liberibacter asiaticus str. psy62]
         (317 letters)



>gnl|CDD|150092 pfam09312, SurA_N, SurA N-terminal domain.  This domain is found at
           the N-terminus of the chaperone SurA. It is a helical
           domain of unknown function. The C-terminus of the SurA
           protein folds back and forms part of this domain also
           but is not included in the current alignment.
          Length = 118

 Score = 44.2 bits (105), Expect = 4e-05
 Identities = 23/104 (22%), Positives = 49/104 (47%), Gaps = 8/104 (7%)

Query: 41  RIRTTINGEVITDGDISKRIALLK--LQKINGE------LEKIAVQELIVETLKKQEIEK 92
           RI   +N  VI   ++ +R+  +K  L K   +      L +  ++ LI+E ++ Q  E+
Sbjct: 3   RIVAVVNDGVILQSELDRRVKTVKRQLAKQGTQLPPDAVLRRQVLERLILERIQLQMAER 62

Query: 93  SGITFDSNTVNYFFVQHARNTGLSAEDFSSFLDKQGIGDNHFKQ 136
           +GI  D   +N    + A+   ++ +   + L   G+  + F++
Sbjct: 63  TGIRVDDEQLNQAIARIAQQNNMTLDQLRAALAADGLSYDEFRE 106


>gnl|CDD|185599 PTZ00408, PTZ00408, NAD-dependent deacetylase; Provisional.
          Length = 242

 Score = 29.0 bits (65), Expect = 1.5
 Identities = 13/40 (32%), Positives = 22/40 (55%), Gaps = 4/40 (10%)

Query: 114 GLSAED-FSSFLDKQGIGDNHFKQYLAIQSIW---PDVVK 149
           G+SAE   S+F D  G+ +NH  + +A    +   P +V+
Sbjct: 14  GISAESGISTFRDGNGLWENHRVEDVATPDAFLRNPALVQ 53


>gnl|CDD|148380 pfam06744, DUF1215, Protein of unknown function (DUF1215).  This
           family represents a conserved region situated towards
           the C-terminal end of several hypothetical bacterial
           proteins of unknown function. A few members resemble the
           ImcF protein, which has been proposed to be involved in
           Vibrio cholerae cell surface reorganisation that results
           in increased adherence to epithelial cells line and
           increased conjugation frequency.
          Length = 125

 Score = 29.2 bits (66), Expect = 1.6
 Identities = 11/37 (29%), Positives = 17/37 (45%), Gaps = 1/37 (2%)

Query: 103 NYFFVQHARNTGLSAEDFSSFLDKQGIGDNHFKQYLA 139
            Y F   + +  +S  DF+ F    G+ D+ F   LA
Sbjct: 54  RYPFAPDSSSD-VSLADFARFFGPGGLLDSFFDTNLA 89


>gnl|CDD|183704 PRK12726, PRK12726, flagellar biosynthesis regulator FlhF;
           Provisional.
          Length = 407

 Score = 27.8 bits (61), Expect = 3.7
 Identities = 22/84 (26%), Positives = 35/84 (41%), Gaps = 3/84 (3%)

Query: 55  DISKRIALLKLQKINGELEKIAVQELIVETLKKQEIEKSGITFDSNTVNYFFVQHARNTG 114
           D+ K+  LL++     EL   A    ++E  K QE E S +  +   +N       R   
Sbjct: 85  DLLKKEKLLEMLAAGAEL---AQSTPLLEERKTQEEELSAMRLELAALNRELAVKMREER 141

Query: 115 LSAEDFSSFLDKQGIGDNHFKQYL 138
               DF  FL  +GI D +   ++
Sbjct: 142 EQNSDFVKFLKGRGISDTYVADFM 165


>gnl|CDD|162042 TIGR00796, livcs, branched-chain amino acid uptake carrier.
           transmembrane helical spanners.
          Length = 378

 Score = 27.3 bits (61), Expect = 5.0
 Identities = 12/40 (30%), Positives = 16/40 (40%), Gaps = 6/40 (15%)

Query: 4   KVFTSLSDFIKLLTTYFVLIIFC------IVPIVSYKSWA 37
                L   +  LTT   L   C      +VP +SYK+W 
Sbjct: 270 SFLLGLIITLACLTTAVGLTTACSEYFHKLVPKLSYKTWV 309


>gnl|CDD|178080 PLN02461, PLN02461, Probable pyruvate kinase.
          Length = 511

 Score = 26.9 bits (60), Expect = 7.6
 Identities = 13/31 (41%), Positives = 17/31 (54%), Gaps = 6/31 (19%)

Query: 146 DVVKND--FMLKYGNLEMEIPANK----QKM 170
           D++     FM+  G+L MEIP  K    QKM
Sbjct: 253 DILAESDAFMVARGDLGMEIPIEKIFLAQKM 283


  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
   0.318    0.135    0.377 

Gapped
Lambda     K      H
   0.267   0.0729    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 4,978,839
Number of extensions: 312281
Number of successful extensions: 718
Number of sequences better than 10.0: 1
Number of HSP's gapped: 717
Number of HSP's successfully gapped: 22
Length of query: 317
Length of database: 5,994,473
Length adjustment: 93
Effective length of query: 224
Effective length of database: 3,984,929
Effective search space: 892624096
Effective search space used: 892624096
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 (21.7 bits)
S2: 57 (25.7 bits)