RPS-BLAST 2.2.26 [Sep-21-2011]

Database: CDD.v3.10 
           44,354 sequences; 10,937,602 total letters

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

Query= psy13147
         (180 letters)



>gnl|CDD|205157 pfam12947, EGF_3, EGF domain.  This family includes a variety of
           EGF-like domain homologues. This family includes the
           C-terminal domain of the malaria parasite MSP1 protein.
          Length = 36

 Score = 29.8 bits (68), Expect = 0.074
 Identities = 12/26 (46%), Positives = 14/26 (53%)

Query: 128 CGSNAVCKHTNGIVTCECLPTYYGNG 153
           C  NA C +T G  TC C   Y G+G
Sbjct: 8   CHPNATCTNTGGSFTCTCKSGYTGDG 33


>gnl|CDD|216822 pfam01976, DUF116, Protein of unknown function DUF116.  This
          archaebacterial protein has no known function. The
          protein contains seven conserved cysteines and may also
          be an integral membrane protein.
          Length = 158

 Score = 27.2 bits (61), Expect = 3.7
 Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 2/33 (6%)

Query: 54 PECLCNSDCPFNMACLGQKCRDPCQGTCGVNAL 86
          P CL +SDCP  +   G  C++ C G C +  L
Sbjct: 48 PHCLRSSDCPAKLTPDGLNCKE-C-GKCDIGDL 78


>gnl|CDD|149159 pfam07925, RdRP_5, Reovirus RNA-dependent RNA polymerase lambda 3.
            The sequences in this family are similar to the reoviral
            minor core protein lambda 3, which functions as a
            RNA-dependent RNA polymerase within the protein capsid.
            It is organised into 3 domains. N- and C-terminal domains
            create a 'cage' that encloses a conserved central
            catalytic domain within a hollow centre; this catalytic
            domain is arranged to form 'fingers', 'palm' and 'thumb'
            subdomains. Unlike other RNA polymerases, like HIV
            reverse transcriptase and T7 RNA polymerase, lambda 3
            protein binds template and substrate with only localised
            rearrangements, and catalytic activity can occur with
            little structural change. However, the structure of the
            catalytic complex is similar to that of other polymerase
            catalytic complexes with known structure.
          Length = 1271

 Score = 27.2 bits (60), Expect = 5.6
 Identities = 14/52 (26%), Positives = 17/52 (32%), Gaps = 5/52 (9%)

Query: 24   PYSSCSVYSE-----HVAMCDPCSGPQAPWLPHCRPECLCNSDCPFNMACLG 70
             YSS S   E     HV + +       P +P        N D    M  LG
Sbjct: 1053 SYSSFSRLLELYLLVHVRLGEARPLAVDPRVPLVAGADPLNDDHWLKMTSLG 1104


  Database: CDD.v3.10
    Posted date:  Mar 20, 2013  7:55 AM
  Number of letters in database: 10,937,602
  Number of sequences in database:  44,354
  
Lambda     K      H
   0.322    0.139    0.517 

Gapped
Lambda     K      H
   0.267   0.0686    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,375,594
Number of extensions: 672288
Number of successful extensions: 569
Number of sequences better than 10.0: 1
Number of HSP's gapped: 560
Number of HSP's successfully gapped: 43
Length of query: 180
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 89
Effective length of database: 6,901,388
Effective search space: 614223532
Effective search space used: 614223532
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: 56 (25.4 bits)