RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780130|ref|YP_003064543.1| hypothetical protein
CLIBASIA_00045 [Candidatus Liberibacter asiaticus str. psy62]
         (205 letters)



>gnl|CDD|128766 smart00490, HELICc, helicase superfamily c-terminal domain. 
          Length = 82

 Score = 35.3 bits (82), Expect = 0.011
 Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 2/53 (3%)

Query: 100 TIQEWNEGKIPLLFAHPASCGHGLNLQYGGNILVFFSLWWDLEEHQQMIERIG 152
            ++++N GKI +L A       GL+L  G ++++ + L W    + Q I R G
Sbjct: 29  ILEKFNNGKIKVLVA-TDVAERGLDLP-GVDLVIIYDLPWSPASYIQRIGRAG 79


>gnl|CDD|134340 PRK00650, PRK00650, 4-diphosphocytidyl-2-C-methyl-D-erythritol
           kinase; Provisional.
          Length = 288

 Score = 30.2 bits (68), Expect = 0.34
 Identities = 21/95 (22%), Positives = 36/95 (37%), Gaps = 5/95 (5%)

Query: 113 FAHPASCGHGLNLQYGGNIL--VFFSLWWDLEEHQQMIERIGVTRQRQAGFKRA---VFV 167
           +  P+ C    NL+Y  N L    F L  DL+E +  +E +        G   +   +FV
Sbjct: 179 YVQPSDCSSRKNLEYTQNDLEKPVFRLRLDLKEKKHWLESLWAELPVHVGLTGSGATLFV 238

Query: 168 YYLIAQNTIDELVLQRLRTKSTIQDLLLNALKKET 202
            Y            Q  R  +    LL + ++++ 
Sbjct: 239 RYPEILEKDPSYAAQIQRAITLSGGLLTSPIRRDP 273


>gnl|CDD|171518 PRK12463, PRK12463, chorismate synthase; Reviewed.
          Length = 390

 Score = 29.3 bits (65), Expect = 0.75
 Identities = 15/44 (34%), Positives = 23/44 (52%)

Query: 59  LEVIIEKANAAPIIVAYHFNSDLARLQKAFPQGRTLDKDPCTIQ 102
           L VI+E   A   + A H N +L R QK   +GR +  +  T++
Sbjct: 14  LTVILEGVPAGLTLAAEHINKELLRRQKGHGRGRRMQIETDTVE 57


>gnl|CDD|184796 PRK14701, PRK14701, reverse gyrase; Provisional.
          Length = 1638

 Score = 26.8 bits (59), Expect = 3.8
 Identities = 11/31 (35%), Positives = 18/31 (58%), Gaps = 2/31 (6%)

Query: 56  IKALEVIIEKANAAPIIVAYHFNSDLARLQK 86
           ++ +E   EKAN    +V YH  S+L + +K
Sbjct: 139 VEKIESFCEKANLDVRLVYYH--SNLRKKEK 167


>gnl|CDD|179519 PRK02983, lysS, lysyl-tRNA synthetase; Provisional.
          Length = 1094

 Score = 26.5 bits (59), Expect = 5.1
 Identities = 8/12 (66%), Positives = 10/12 (83%)

Query: 131 ILVFFSLWWDLE 142
           +L+FFS WW LE
Sbjct: 510 LLLFFSRWWQLE 521


>gnl|CDD|185588 PTZ00385, PTZ00385, lysyl-tRNA synthetase; Provisional.
          Length = 659

 Score = 26.5 bits (58), Expect = 5.4
 Identities = 14/34 (41%), Positives = 21/34 (61%), Gaps = 1/34 (2%)

Query: 2   KQYHKFQRELYCDLQGENIEAFNSASKTVKCLQL 35
           +QYH+FQ++L  D QG + EA       +K LQ+
Sbjct: 496 EQYHRFQQQL-VDRQGGDEEAMPLDETFLKSLQV 528


>gnl|CDD|130816 TIGR01755, flav_wrbA, NAD(P)H:quinone oxidoreductase, type IV.
           This model represents a protein, WrbA, related to and
           slightly larger than flavodoxin. It was just shown, in
           E. coli and Archaeoglobus fulgidus (and previously for
           some eukaryotic homologs) to act as fourth type of
           NAD(P)H:quinone oxidoreductase. In E. coli, this protein
           was earlier reported to be produced during stationary
           phase, bind to the trp repressor, and make trp operon
           repression more efficient. WrbA does not interact with
           the trp operator by itself. Members are found in species
           in which homologs of the E. coli trp operon repressor
           TrpR are not detected.
          Length = 197

 Score = 26.4 bits (58), Expect = 5.7
 Identities = 15/57 (26%), Positives = 18/57 (31%), Gaps = 3/57 (5%)

Query: 104 WNEGKIPLLFAHPASCGHGLNLQYGGNILVFFSLWWDLEEHQQMIERIGVTRQRQAG 160
           W  G    L     S       Q+GG      S W  L  H  +I  +    Q Q G
Sbjct: 98  WASGA---LVGKVGSVFTSTGTQHGGQESTILSTWTTLLHHGMIIVPLPYAAQEQMG 151


>gnl|CDD|131661 TIGR02612, mob_myst_A, mobile mystery protein A.  Members of this
           protein family are found in mobization-related contexts
           more often than not, including within a
           CRISPR-associated gene region in Geobacter
           sulfurreducens PCA, and on plasmids in Agrobacterium
           tumefaciens and Coxiella burnetii, always together with
           mobile mystery protein B, a member of the Fic protein
           family (pfam02661). This protein is encoded by the
           upstream member of the gene pair and belongs to a family
           of helix-turn-helix DNA binding proteins (pfam01381).
          Length = 150

 Score = 25.9 bits (57), Expect = 8.1
 Identities = 11/63 (17%), Positives = 24/63 (38%), Gaps = 20/63 (31%)

Query: 146 QMIERIGVTRQRQAGFKRA--------------------VFVYYLIAQNTIDELVLQRLR 185
           Q+  R+GVT QR    +++                     FVY  + + +++  +  + R
Sbjct: 43  QLAGRLGVTPQRVEALEKSELSGTVTLKTLRAAAEALDCTFVYAFVPKTSLEATIRAQAR 102

Query: 186 TKS 188
             +
Sbjct: 103 KVA 105


>gnl|CDD|180602 PRK06521, PRK06521, hydrogenase 4 subunit B; Validated.
          Length = 667

 Score = 25.6 bits (57), Expect = 9.1
 Identities = 8/20 (40%), Positives = 13/20 (65%)

Query: 153 VTRQRQAGFKRAVFVYYLIA 172
           +   R+A  +RA F+Y L+A
Sbjct: 154 IANHREAEIRRAGFLYLLMA 173


  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
   0.322    0.137    0.414 

Gapped
Lambda     K      H
   0.267   0.0631    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 3,398,662
Number of extensions: 215647
Number of successful extensions: 378
Number of sequences better than 10.0: 1
Number of HSP's gapped: 377
Number of HSP's successfully gapped: 18
Length of query: 205
Length of database: 5,994,473
Length adjustment: 89
Effective length of query: 116
Effective length of database: 4,071,361
Effective search space: 472277876
Effective search space used: 472277876
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 (21.9 bits)
S2: 55 (25.2 bits)