RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780513|ref|YP_003064926.1| hypothetical protein
CLIBASIA_02000 [Candidatus Liberibacter asiaticus str. psy62]
         (66 letters)



>gnl|CDD|180799 PRK07028, PRK07028, bifunctional hexulose-6-phosphate
           synthase/ribonuclease regulator; Validated.
          Length = 430

 Score = 25.8 bits (57), Expect = 2.6
 Identities = 12/24 (50%), Positives = 14/24 (58%), Gaps = 2/24 (8%)

Query: 32  AKSIKKYEDRIRSSIDKKTFLTLS 55
           A  +KK EDRIR  I +    TLS
Sbjct: 397 ALEVKKTEDRIREEIRRGR--TLS 418


>gnl|CDD|148132 pfam06333, Med13_C, Mediator complex subunit 13 C-terminal.
          Mediator is a large complex of up to 33 proteins that
          is conserved from plants through fungi to humans - the
          number and representation of individual subunits
          varying with species. It is arranged into four
          different sections, a core, a head, a tail and a
          kinase-activity part, and the number of subunits within
          each of these is what varies with species. Overall,
          Mediator regulates the transcriptional activity of RNA
          polymerase II but it would appear that each of the four
          different sections has a slightly different function.
          Med13 is part of the ancillary kinase module, together
          with Med12, CDK8 and CycC, which in yeast is implicated
          in transcriptional repression, though most of this
          activity is likely attributable to the CDK8 kinase. The
          large Med12 and Med13 proteins are required for
          specific developmental processes in Drosophila,
          zebrafish, and Caenorhabditis elegans but their
          biochemical functions are not understood.
          Length = 408

 Score = 25.8 bits (57), Expect = 2.9
 Identities = 13/51 (25%), Positives = 20/51 (39%), Gaps = 5/51 (9%)

Query: 12 FKCFLKNSRKKHITPSKDVVAK-----SIKKYEDRIRSSIDKKTFLTLSVY 57
          F+C+ K    K   P  ++V +      I      +  S D+   L L VY
Sbjct: 25 FRCYAKMLEAKPKLPLSELVLQIIPLDFIASPTSLVVPSQDEYLSLALEVY 75


>gnl|CDD|148590 pfam07065, D123, D123.  This family contains a number of eukaryotic
           D123 proteins approximately 330 residues long. It has
           been shown that mutated variants of D123 exhibit
           temperature-dependent differences in their degradation
           rate. D123 proteins are regulators of eIF2, the central
           regulator of translational initiation.
          Length = 297

 Score = 25.4 bits (56), Expect = 3.3
 Identities = 12/56 (21%), Positives = 27/56 (48%), Gaps = 8/56 (14%)

Query: 11  EFKCFLKNSRKKHITPSKDVVAKSIKKYEDRIRSSIDKKTFLTLSVYFENHLIRIF 66
           EF+CF+KN++   I+       + + + ++ I+ +I          +FE  ++  F
Sbjct: 163 EFRCFVKNNKLVGISQRDLNYYEYLAELKEDIKDAIQ--------EFFEEKILPHF 210


  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
   0.321    0.136    0.377 

Gapped
Lambda     K      H
   0.267   0.0642    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 988,895
Number of extensions: 46479
Number of successful extensions: 113
Number of sequences better than 10.0: 1
Number of HSP's gapped: 113
Number of HSP's successfully gapped: 11
Length of query: 66
Length of database: 5,994,473
Length adjustment: 37
Effective length of query: 29
Effective length of database: 5,194,977
Effective search space: 150654333
Effective search space used: 150654333
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: 50 (23.2 bits)