RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780996|ref|YP_003065409.1| hypothetical protein
CLIBASIA_04485 [Candidatus Liberibacter asiaticus str. psy62]
         (109 letters)



>gnl|CDD|172744 PRK14256, PRK14256, phosphate ABC transporter ATP-binding
          protein; Provisional.
          Length = 252

 Score = 31.1 bits (70), Expect = 0.056
 Identities = 20/61 (32%), Positives = 29/61 (47%), Gaps = 4/61 (6%)

Query: 11 SGCGKNPVWDSMKGCLNFSSYDDNSGNIDTDESDINT----AIAIRKDVARVLQVSYPLP 66
          SGCGK+ V  S+    +       +G I  D++DI       ++IR+ V  V Q   P P
Sbjct: 39 SGCGKSTVLRSINRMHDLVPSARVTGKILLDDTDIYDRGVDPVSIRRRVGMVFQKPNPFP 98

Query: 67 A 67
          A
Sbjct: 99 A 99


>gnl|CDD|168927 PRK07374, dnaE, DNA polymerase III subunit alpha; Validated.
          Length = 1170

 Score = 27.4 bits (61), Expect = 0.80
 Identities = 10/17 (58%), Positives = 13/17 (76%)

Query: 47  TAIAIRKDVARVLQVSY 63
           T+ A+ KDVARVL + Y
Sbjct: 445 TSKAVLKDVARVLDIPY 461


>gnl|CDD|172739 PRK14251, PRK14251, phosphate ABC transporter ATP-binding
          protein; Provisional.
          Length = 251

 Score = 27.3 bits (60), Expect = 1.0
 Identities = 20/64 (31%), Positives = 31/64 (48%), Gaps = 12/64 (18%)

Query: 11 SGCGKNPVWDSMKGCLNFSSYD-DN---SGNIDTDESDINTA----IAIRKDVARVLQVS 62
          SGCGK+    +   CLN  + D +N   +G I  +  +I  +    + +RK+V  V Q  
Sbjct: 39 SGCGKS----TFLRCLNRMNDDIENIKITGEIKFEGQNIYGSKMDLVELRKEVGMVFQQP 94

Query: 63 YPLP 66
           P P
Sbjct: 95 TPFP 98


>gnl|CDD|181257 PRK08155, PRK08155, acetolactate synthase catalytic subunit;
           Validated.
          Length = 564

 Score = 26.6 bits (59), Expect = 1.4
 Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 7/51 (13%)

Query: 38  IDTDESD---INTA-IAIRKDVARVLQVSYPLPAPQEITPRMGNRKTVELL 84
           +D D ++   I    +AI+ DV  VL    PL   Q   PR    + V  L
Sbjct: 308 VDIDRAELGKIKQPHVAIQADVDDVLAQLLPLVEAQ---PRAEWHQLVADL 355


>gnl|CDD|180192 PRK05673, dnaE, DNA polymerase III subunit alpha; Validated.
          Length = 1135

 Score = 26.2 bits (59), Expect = 1.7
 Identities = 8/14 (57%), Positives = 9/14 (64%), Gaps = 1/14 (7%)

Query: 50  AIRKDVARVLQVSY 63
            IR DV RVL + Y
Sbjct: 438 VIR-DVGRVLGMPY 450


>gnl|CDD|185341 PRK15444, pduC, propanediol dehydratase large subunit; Provisional.
          Length = 554

 Score = 26.2 bits (58), Expect = 2.1
 Identities = 20/69 (28%), Positives = 30/69 (43%), Gaps = 16/69 (23%)

Query: 7   YIFYSGCGKNPVWDSMKGCLNFSS--YDD----------NSGNIDTDESDINTAIAIRKD 54
           +IF SG    P +D+M    NF +  +DD          + G     E ++   IA+R  
Sbjct: 359 FIF-SGYSAVPNYDNMFAGSNFDAEDFDDYNVLQRDLKVDGGLRPVREEEV---IAVRNK 414

Query: 55  VARVLQVSY 63
            AR LQ  +
Sbjct: 415 AARALQAVF 423


>gnl|CDD|181933 PRK09532, PRK09532, DNA polymerase III subunit alpha; Reviewed.
          Length = 874

 Score = 25.9 bits (57), Expect = 2.4
 Identities = 10/17 (58%), Positives = 13/17 (76%)

Query: 47  TAIAIRKDVARVLQVSY 63
           T+ A+ KDVARVL + Y
Sbjct: 443 TSKAVLKDVARVLDIPY 459


>gnl|CDD|181373 PRK08308, PRK08308, acyl-CoA synthetase; Validated.
          Length = 414

 Score = 25.8 bits (57), Expect = 2.7
 Identities = 12/41 (29%), Positives = 20/41 (48%), Gaps = 11/41 (26%)

Query: 49  IAIRKDVARVLQVSYPLP-----------APQEITPRMGNR 78
           ++I  D+   L +  PLP           AP+EI  +MG++
Sbjct: 251 VSICPDMKSHLDLGNPLPHVSVSAGSDENAPEEIVVKMGDK 291


>gnl|CDD|161981 TIGR00656, asp_kin_monofn, aspartate kinase, monofunctional class. 
           The Lys-sensitive enzyme of Bacillus subtilis resembles
           the E. coli form but is an alpha 2/beta 2
           heterotetramer, where the beta subunit is translated
           from an in-phase alternative initiator at Met-246. The
           protein slr0657 from Synechocystis PCC6803 is extended
           by a duplication of the C-terminal region corresponding
           to the beta chain. Incorporation of a second copy of the
           C-terminal domain may be quite common in this subgroup
           of aspartokinases.
          Length = 401

 Score = 25.4 bits (56), Expect = 3.2
 Identities = 11/34 (32%), Positives = 17/34 (50%), Gaps = 3/34 (8%)

Query: 28  FSSYDDNSGNI---DTDESDINTAIAIRKDVARV 58
            SS+D   G +     +   +   IA+RK+V RV
Sbjct: 230 RSSFDPEEGTLITNSMENPPLVKGIALRKNVTRV 263


>gnl|CDD|183453 PRK12338, PRK12338, hypothetical protein; Provisional.
          Length = 319

 Score = 25.1 bits (55), Expect = 3.6
 Identities = 11/38 (28%), Positives = 19/38 (50%)

Query: 41  DESDINTAIAIRKDVARVLQVSYPLPAPQEITPRMGNR 78
           D+ D    I I++   R+  +SYP+P  ++   R  N 
Sbjct: 216 DDLDEVIEIIIKRHGGRITDISYPIPGFKDPLKREVNV 253


>gnl|CDD|167581 PRK03670, PRK03670, competence damage-inducible protein A;
           Provisional.
          Length = 252

 Score = 24.8 bits (54), Expect = 4.7
 Identities = 11/24 (45%), Positives = 16/24 (66%), Gaps = 2/24 (8%)

Query: 69  QEITPRMGNRKTVE--LLIEIDDQ 90
           +E+ PR+G RK V+   L EI D+
Sbjct: 170 KEVLPRLGERKFVQKKFLAEITDE 193


>gnl|CDD|162580 TIGR01884, cas_HTH, CRISPR locus-related DNA-binding protein.  Most
           but not all examples of this family are associated with
           CRISPR loci, a combination of DNA repeats and
           characteristic proteins encoded near the repeat cluster.
           The C-terminal region of this protein is homologous to
           DNA-binding helix-turn-helix domains with predicted
           transcriptional regulatory activity.
          Length = 203

 Score = 25.0 bits (55), Expect = 5.0
 Identities = 11/51 (21%), Positives = 19/51 (37%), Gaps = 7/51 (13%)

Query: 47  TAIAIRKDVARVLQVSYPLPAPQEITPRMGNRKTVELLIEIDDQKVWLLNV 97
            AI ++  V RV   S  L     +           LL  +  +++ +L V
Sbjct: 108 LAILVKTRVFRVYYESEELIDFILLDLVP-------LLAGLSREELKVLEV 151


>gnl|CDD|150276 pfam09547, Spore_IV_A, Stage IV sporulation protein A (spore_IV_A).
            SpoIVA is designated stage IV sporulation protein A. It
           acts in the mother cell compartment and plays a role in
           spore coat morphogenesis. A comparative genome analysis
           of all sequenced genomes of Firmicutes shows that the
           proteins are strictly conserved among the sub-set of
           endospore-forming species.
          Length = 492

 Score = 24.5 bits (54), Expect = 6.9
 Identities = 14/39 (35%), Positives = 20/39 (51%), Gaps = 7/39 (17%)

Query: 70  EITPRMGNRKTVELLI-------EIDDQKVWLLNVHLKS 101
           EI+P +G  K  E L+       E D +K+W  N+  KS
Sbjct: 410 EISPIIGTEKQSEELVKYLLEEFEEDPEKIWESNIFGKS 448


>gnl|CDD|148956 pfam07632, DUF1593, Protein of unknown function (DUF1593).  A
           family of proteins in Rhodopirellula baltica that are
           predicted to be secreted. Also, a member has been
           identified in Caulobacter crescentus. These proteins mat
           be related to pfam01156.
          Length = 261

 Score = 24.1 bits (53), Expect = 9.0
 Identities = 9/36 (25%), Positives = 17/36 (47%)

Query: 60  QVSYPLPAPQEITPRMGNRKTVELLIEIDDQKVWLL 95
              Y +P   E     G+   +E L++ D + +W+L
Sbjct: 85  NPDYGMPFVGEGKDTEGSELIIEALLDDDPRPLWIL 120


  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    0.417 

Gapped
Lambda     K      H
   0.267   0.0705    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,759,068
Number of extensions: 95483
Number of successful extensions: 188
Number of sequences better than 10.0: 1
Number of HSP's gapped: 188
Number of HSP's successfully gapped: 24
Length of query: 109
Length of database: 5,994,473
Length adjustment: 75
Effective length of query: 34
Effective length of database: 4,373,873
Effective search space: 148711682
Effective search space used: 148711682
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: 50 (23.1 bits)