RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddA 
           21,609 sequences; 6,263,737 total letters

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

Query= 537021.9.peg.1078_1
         (62 letters)



>gnl|CDD|146059 pfam03237, Terminase_6, Terminase-like family.  This family
           represents a group of terminase proteins.
          Length = 380

 Score = 30.1 bits (68), Expect = 0.14
 Identities = 12/40 (30%), Positives = 14/40 (35%), Gaps = 3/40 (7%)

Query: 5   LECQEWLDEFHQYHR---CEGRVIKEKDDLICASRYALMM 41
             C    +E   YH     E   +   DD   A RYAL  
Sbjct: 340 AWCPASFEELEAYHTDGGNERSDVDGHDDAADALRYALNS 379


>gnl|CDD|72857 cd04717, BAH_polybromo, BAH, or Bromo Adjacent Homology domain, as
           present in polybromo and yeast RSC1/2. The human
           polybromo protein (BAF180) is a component of the SWI/SNF
           chromatin-remodeling complex PBAF. It is thought that
           polybromo participates in transcriptional regulation.
           Saccharomyces cerevisiae RSC1 and RSC2 are part of the
           15-subunit nucleosome remodeling RSC complex. BAH
           domains are found in a variety of proteins playing roles
           in transcriptional silencing and the remodeling of
           chromatin. It is assumed that in most or all of these
           instances the BAH domain mediates protein-protein
           interactions..
          Length = 121

 Score = 25.9 bits (57), Expect = 2.3
 Identities = 10/36 (27%), Positives = 15/36 (41%)

Query: 10  WLDEFHQYHRCEGRVIKEKDDLICASRYALMMKIFS 45
            + +   Y +     I E+D  +C SRY    K F 
Sbjct: 82  AVMDVKDYIKGRPTEISEEDVYVCESRYNESAKSFK 117


>gnl|CDD|33366 COG3564, COG3564, Uncharacterized protein conserved in bacteria
          [Function unknown].
          Length = 116

 Score = 25.3 bits (55), Expect = 3.5
 Identities = 15/51 (29%), Positives = 21/51 (41%), Gaps = 7/51 (13%)

Query: 14 FHQYHRC---EGRVIKEKDDLICASRYALMMKI----FSISKPGYSSWKYT 57
          FHQ   C      +   + D I      L+ +I      IS P Y +WK+T
Sbjct: 29 FHQSGGCCDGSSPMCYPRADFIVGDNDVLLGEIDGVPVYISGPQYEAWKHT 79


>gnl|CDD|30368 COG0018, ArgS, Arginyl-tRNA synthetase [Translation, ribosomal
           structure and biogenesis].
          Length = 577

 Score = 24.1 bits (52), Expect = 7.8
 Identities = 8/29 (27%), Positives = 17/29 (58%), Gaps = 3/29 (10%)

Query: 14  FHQ-YHRCEGRVIKEKDDLICASRYALMM 41
           F+  Y+ C   V+  +++ + A+R AL+ 
Sbjct: 530 FNSFYNAC--PVLGAENEELRAARLALVK 556


  Database: CddA
    Posted date:  Feb 4, 2011  9:38 PM
  Number of letters in database: 6,263,737
  Number of sequences in database:  21,609
  
Lambda     K      H
   0.324    0.138    0.447 

Gapped
Lambda     K      H
   0.267   0.0680    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 833,010
Number of extensions: 31090
Number of successful extensions: 76
Number of sequences better than 10.0: 1
Number of HSP's gapped: 76
Number of HSP's successfully gapped: 11
Length of query: 62
Length of database: 6,263,737
Length adjustment: 34
Effective length of query: 28
Effective length of database: 5,529,031
Effective search space: 154812868
Effective search space used: 154812868
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.5 bits)