RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy8719
         (33 letters)



>gnl|CDD|238034 cd00079, HELICc, Helicase superfamily c-terminal domain;
          associated with DEXDc-, DEAD-, and DEAH-box proteins,
          yeast initiation factor 4A, Ski2p, and Hepatitis C
          virus NS3 helicases; this domain is found in a wide
          variety of helicases and helicase related proteins; may
          not be an autonomously folding unit, but an integral
          part of the helicase; 4 helicase superfamilies at
          present according to the organization of their
          signature motifs; all helicases share the ability to
          unwind nucleic acid duplexes with a distinct
          directional polarity; they utilize the free energy from
          nucleoside triphosphate hydrolysis to fuel their
          translocation along DNA, unwinding the duplex in the
          process.
          Length = 131

 Score = 30.3 bits (69), Expect = 0.008
 Identities = 8/30 (26%), Positives = 12/30 (40%)

Query: 2  DRALIFCRTKLDCDNLERYLNSIDRRLIYY 31
           + LIFC +K   D L   L     ++   
Sbjct: 29 GKVLIFCPSKKMLDELAELLRKPGIKVAAL 58


>gnl|CDD|223587 COG0513, SrmB, Superfamily II DNA and RNA helicases [DNA
           replication, recombination, and repair / Transcription /
           Translation, ribosomal structure and biogenesis].
          Length = 513

 Score = 28.6 bits (64), Expect = 0.035
 Identities = 7/21 (33%), Positives = 10/21 (47%)

Query: 2   DRALIFCRTKLDCDNLERYLN 22
            R ++F RTK   + L   L 
Sbjct: 274 GRVIVFVRTKRLVEELAESLR 294


>gnl|CDD|236977 PRK11776, PRK11776, ATP-dependent RNA helicase DbpA; Provisional.
          Length = 460

 Score = 27.1 bits (61), Expect = 0.15
 Identities = 7/20 (35%), Positives = 12/20 (60%)

Query: 4   ALIFCRTKLDCDNLERYLNS 23
            ++FC TK +C  +   LN+
Sbjct: 245 CVVFCNTKKECQEVADALNA 264


>gnl|CDD|240324 PTZ00234, PTZ00234, variable surface protein Vir12; Provisional.
          Length = 433

 Score = 25.7 bits (56), Expect = 0.38
 Identities = 10/28 (35%), Positives = 17/28 (60%)

Query: 6   IFCRTKLDCDNLERYLNSIDRRLIYYFT 33
           +F + K  CD   +YL++I++  I Y T
Sbjct: 165 VFSQKKEKCDKYTKYLDNINKLYINYKT 192


>gnl|CDD|150553 pfam09893, DUF2120, Uncharacterized protein conserved in archaea
          (DUF2120).  This domain, found in various hypothetical
          archaeal proteins, has no known function.
          Length = 146

 Score = 25.9 bits (57), Expect = 0.39
 Identities = 9/21 (42%), Positives = 9/21 (42%)

Query: 8  CRTKLDCDNLERYLNSIDRRL 28
           RTKL  D     L SI   L
Sbjct: 34 SRTKLKPDEEVEKLESIKEYL 54


>gnl|CDD|240273 PTZ00110, PTZ00110, helicase; Provisional.
          Length = 545

 Score = 25.1 bits (55), Expect = 0.72
 Identities = 9/20 (45%), Positives = 11/20 (55%)

Query: 2   DRALIFCRTKLDCDNLERYL 21
           D+ LIF  TK   D L + L
Sbjct: 378 DKILIFVETKKGADFLTKEL 397


>gnl|CDD|235314 PRK04837, PRK04837, ATP-dependent RNA helicase RhlB; Provisional.
          Length = 423

 Score = 23.8 bits (52), Expect = 1.7
 Identities = 9/20 (45%), Positives = 13/20 (65%)

Query: 2   DRALIFCRTKLDCDNLERYL 21
           DRA+IF  TK  C+ +  +L
Sbjct: 256 DRAIIFANTKHRCEEIWGHL 275


  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
   0.337    0.150    0.473 

Gapped
Lambda     K      H
   0.267   0.0644    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 1,685,379
Number of extensions: 71039
Number of successful extensions: 189
Number of sequences better than 10.0: 1
Number of HSP's gapped: 189
Number of HSP's successfully gapped: 7
Length of query: 33
Length of database: 10,937,602
Length adjustment: 7
Effective length of query: 26
Effective length of database: 10,627,124
Effective search space: 276305224
Effective search space used: 276305224
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.7 bits)
S2: 53 (24.4 bits)