RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy13556
         (127 letters)



>gnl|CDD|215712 pfam00093, VWC, von Willebrand factor type C domain.  The high
           cutoff was used to prevent overlap with pfam00094.
          Length = 57

 Score = 25.8 bits (57), Expect = 2.3
 Identities = 22/58 (37%), Positives = 25/58 (43%), Gaps = 6/58 (10%)

Query: 62  CEHNGKVYNNGEKLNSTLTPCQVCYCRGGALMCTHFTCFTRDDCQG---RTLPGTCCP 116
           C  NG VY NGE        C +C C  G ++C   TC    DC        PG CCP
Sbjct: 1   CVQNGVVYENGETWKPD--LCTICTCDDGKVLCDKITC-PPLDCPSPRLEIPPGECCP 55


>gnl|CDD|214564 smart00214, VWC, von Willebrand factor (vWF) type C domain. 
          Length = 59

 Score = 25.2 bits (55), Expect = 3.7
 Identities = 24/59 (40%), Positives = 29/59 (49%), Gaps = 6/59 (10%)

Query: 62  CEHNGKVYNNGEKLNSTLTPCQVCYCRGGAL-MCTHFTCFTRDDC---QGRTLPGTCCP 116
           C HNG+VYN+GE       PCQ+C C  G   +C    C    DC   +    PG CCP
Sbjct: 1   CVHNGRVYNDGETW--KPDPCQICTCLDGTTVLCDPVECPPPPDCPNPERVKPPGECCP 57



 Score = 24.8 bits (54), Expect = 5.9
 Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 4/41 (9%)

Query: 20 GPCEECRCTDGTVV-CSMMQCEIKPGC---QTIQRPNQCCP 56
           PC+ C C DGT V C  ++C   P C   + ++ P +CCP
Sbjct: 17 DPCQICTCLDGTTVLCDPVECPPPPDCPNPERVKPPGECCP 57


>gnl|CDD|215670 pfam00035, dsrm, Double-stranded RNA binding motif.  Sequences
          gathered for seed by HMM_iterative_training Putative
          motif shared by proteins that bind to dsRNA. At least
          some DSRM proteins seem to bind to specific RNA
          targets. Exemplified by Staufen, which is involved in
          localisation of at least five different mRNAs in the
          early Drosophila embryo. Also by interferon-induced
          protein kinase in humans, which is part of the cellular
          response to dsRNA.
          Length = 66

 Score = 25.0 bits (55), Expect = 5.3
 Identities = 9/33 (27%), Positives = 12/33 (36%), Gaps = 1/33 (3%)

Query: 42 KPGCQTIQRPNQ-CCPEFKCECEHNGKVYNNGE 73
          KP  + ++       P F      NGK Y  G 
Sbjct: 15 KPPYEYVEEEGPPHSPTFTVTVTVNGKKYGTGT 47


>gnl|CDD|183454 PRK12341, PRK12341, putative acyl-CoA dehydrogenase; Provisional.
          Length = 381

 Score = 25.8 bits (57), Expect = 7.1
 Identities = 13/40 (32%), Positives = 15/40 (37%), Gaps = 11/40 (27%)

Query: 65  NGKVYNNGEKLNSTLTPCQVCYCRGGALMCTHFTCFTRDD 104
           NGKVY NG+K   T           GA    +     RD 
Sbjct: 144 NGKVYLNGQKTFIT-----------GAKEYPYMLVLARDP 172


>gnl|CDD|238162 cd00260, Sialidase, Sialidases or neuraminidases function to bind
           and hydrolyze terminal sialic acid residues from various
           glycoconjugates as well as playing roles in
           pathogenesis, bacterial nutrition and cellular
           interactions. They have a six-bladed, beta-propeller
           fold with the non-viral sialidases containing 2-5
           Asp-box motifs (most commonly
           Ser/Thr-X-Asp-[X]-Gly-X-Thr- Trp/Phe).  This CD includes
           eubacterial, eukaryotic, and viral sialidases.
          Length = 351

 Score = 25.9 bits (57), Expect = 7.3
 Identities = 10/34 (29%), Positives = 13/34 (38%), Gaps = 3/34 (8%)

Query: 6   GGGVFRSGELVPRFGPCEECRCT---DGTVVCSM 36
            G  ++ GE V   G C EC      DG +    
Sbjct: 182 SGKTWKLGEGVNDAGGCSECSVVELSDGKLYMYT 215


  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
   0.326    0.143    0.528 

Gapped
Lambda     K      H
   0.267   0.0612    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,930,972
Number of extensions: 450721
Number of successful extensions: 475
Number of sequences better than 10.0: 1
Number of HSP's gapped: 468
Number of HSP's successfully gapped: 37
Length of query: 127
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 42
Effective length of database: 7,167,512
Effective search space: 301035504
Effective search space used: 301035504
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (24.4 bits)