RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780894|ref|YP_003065307.1| hypothetical protein
CLIBASIA_03955 [Candidatus Liberibacter asiaticus str. psy62]
         (103 letters)



>gnl|CDD|162740 TIGR02169, SMC_prok_A, chromosome segregation protein SMC,
           primarily archaeal type.  SMC (structural maintenance of
           chromosomes) proteins bind DNA and act in organizing and
           segregating chromosomes for partition. SMC proteins are
           found in bacteria, archaea, and eukaryotes. It is found
           in a single copy and is homodimeric in prokaryotes, but
           six paralogs (excluded from this family) are found in
           eukarotes, where SMC proteins are heterodimeric. This
           family represents the SMC protein of archaea and a few
           bacteria (Aquifex, Synechocystis, etc); the SMC of other
           bacteria is described by TIGR02168. The N- and
           C-terminal domains of this protein are well conserved,
           but the central hinge region is skewed in composition
           and highly divergent.
          Length = 1164

 Score = 28.5 bits (64), Expect = 0.42
 Identities = 21/98 (21%), Positives = 41/98 (41%), Gaps = 2/98 (2%)

Query: 2   RLQEQRTRLKEFRLNDERRQLQQLRATILEFRRIVADLEKQIAIEERQVGIYDKDHFA-Y 60
           +L+++  +LKE RL +    L  L   I   +  + +LE +I   E  +   ++      
Sbjct: 727 QLEQEEEKLKE-RLEELEEDLSSLEQEIENVKSELKELEARIEELEEDLHKLEEALNDLE 785

Query: 61  PILAKSARQRIDNLLLSIRDLLLRQESLESHLESESNS 98
             L+ S    I   L  + + + R E+    +E + N 
Sbjct: 786 ARLSHSRIPEIQAELSKLEEEVSRIEARLREIEQKLNR 823


>gnl|CDD|179437 PRK02509, PRK02509, hypothetical protein; Provisional.
          Length = 973

 Score = 27.7 bits (62), Expect = 0.66
 Identities = 21/67 (31%), Positives = 31/67 (46%), Gaps = 20/67 (29%)

Query: 3   LQEQRTRLKEFRLNDER------RQLQQLRATILEFRRIVADLEK-----------QIAI 45
           L   R  ++  RL D R      RQLQQ+R   L +R   AD+++            I+ 
Sbjct: 434 LAANRLTIRNIRLWDTRPLLETNRQLQQIR---LYYRFPDADIDRYTLKTENDDNRSIST 490

Query: 46  EERQVGI 52
           E++QV I
Sbjct: 491 EKQQVLI 497


>gnl|CDD|180128 PRK05560, PRK05560, DNA gyrase subunit A; Validated.
          Length = 805

 Score = 26.9 bits (61), Expect = 1.1
 Identities = 15/45 (33%), Positives = 26/45 (57%), Gaps = 4/45 (8%)

Query: 1   MRLQEQRTRLKEFRLNDERRQLQQLRATILEFRRIVADLEKQIAI 45
           MRLQ + T L+  ++ DE    ++L A I + + I+A  E+ + I
Sbjct: 422 MRLQ-RLTGLERDKIEDE---YKELLALIADLKDILASPERLLEI 462


>gnl|CDD|182460 PRK10437, PRK10437, carbonic anhydrase; Provisional.
          Length = 220

 Score = 26.8 bits (59), Expect = 1.3
 Identities = 11/30 (36%), Positives = 15/30 (50%)

Query: 71  IDNLLLSIRDLLLRQESLESHLESESNSDK 100
           I+N LL IRD+  +  SL   +  E   D 
Sbjct: 116 INNWLLHIRDIWFKHSSLLGEMPQERRLDT 145


>gnl|CDD|149682 pfam08702, Fib_alpha, Fibrinogen alpha/beta chain family.
           Fibrinogen is a protein involved in platelet aggregation
           and is essential for the coagulation of blood. This
           domain forms part of the central coiled coiled region of
           the protein which is formed from two sets of three
           non-identical chains (alpha, beta and gamma).
          Length = 146

 Score = 24.6 bits (54), Expect = 6.6
 Identities = 11/47 (23%), Positives = 22/47 (46%)

Query: 3   LQEQRTRLKEFRLNDERRQLQQLRATILEFRRIVADLEKQIAIEERQ 49
           L++    + E ++N +  Q++ L+  +   R  +  LE  I   ER 
Sbjct: 87  LRKMIEYILETKINTQESQIRVLQEVLRSNRSKIQRLEVDIDQLERT 133


>gnl|CDD|149487 pfam08440, Poty_PP, Potyviridae polyprotein.  This domain is found
           in polyproteins of the viral Potyviridae taxon.
          Length = 274

 Score = 24.1 bits (53), Expect = 7.5
 Identities = 8/26 (30%), Positives = 14/26 (53%)

Query: 22  LQQLRATILEFRRIVADLEKQIAIEE 47
           LQQ +A +LEF  +  D   +  + +
Sbjct: 216 LQQAKAQLLEFSNLNGDGSNEEILRD 241


>gnl|CDD|182846 PRK10929, PRK10929, putative mechanosensitive channel protein;
           Provisional.
          Length = 1109

 Score = 24.2 bits (53), Expect = 8.3
 Identities = 14/34 (41%), Positives = 19/34 (55%), Gaps = 2/34 (5%)

Query: 63  LAKSARQRIDNLLLSIRDLL--LRQESLESHLES 94
           LAK   Q++D  L ++R+ L   RQ   E  LES
Sbjct: 212 LAKKRSQQLDAYLQALRNQLNSQRQREAERALES 245


  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
   0.320    0.134    0.345 

Gapped
Lambda     K      H
   0.267   0.0730    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,639,825
Number of extensions: 99695
Number of successful extensions: 300
Number of sequences better than 10.0: 1
Number of HSP's gapped: 298
Number of HSP's successfully gapped: 68
Length of query: 103
Length of database: 5,994,473
Length adjustment: 70
Effective length of query: 33
Effective length of database: 4,481,913
Effective search space: 147903129
Effective search space used: 147903129
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: 50 (23.0 bits)