RPS-BLAST 2.2.26 [Sep-21-2011]

Database: pdb70 
           27,921 sequences; 6,701,793 total letters

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

Query= psy6945
         (61 letters)



>3ngq_A CCR4-NOT transcription complex subunit 6-like; alpha/beta sandwich
           fold, hydrolase; HET: 1PS; 1.80A {Homo sapiens} PDB:
           3ngo_A 3ngn_A
          Length = 398

 Score = 38.8 bits (89), Expect = 2e-05
 Identities = 29/64 (45%), Positives = 38/64 (59%), Gaps = 4/64 (6%)

Query: 1   VIEFLSTGRVTSDHQDFKDLPYKSVLNKICQNDK----SNDFTHSFKLASAYSEDIMPYT 56
           V+E+LS G V  +H+DFK+L Y   L     N K        TH F+L SAY  ++MPYT
Sbjct: 262 VVEYLSNGGVADNHKDFKELRYNECLMNFSCNGKNGSSEGRITHGFQLKSAYENNLMPYT 321

Query: 57  NYTY 60
           NYT+
Sbjct: 322 NYTF 325


>1bby_A RAP30; average structure transcription regulation, DNA- binding
          domain, transcription; NMR {Homo sapiens} SCOP:
          a.4.5.15 PDB: 2bby_A
          Length = 69

 Score = 23.6 bits (51), Expect = 3.0
 Identities = 5/28 (17%), Positives = 12/28 (42%)

Query: 23 KSVLNKICQNDKSNDFTHSFKLASAYSE 50
          K +L +I   +      ++++L   Y  
Sbjct: 40 KEILKEIGVQNVKGIHKNTWELKPEYRH 67


>2wjr_A Probable N-acetylneuraminic acid outer membrane C protein NANC;
           cell membrane, ION transport, transmembrane, porin,
           membrane transport; HET: EPE; 1.80A {Escherichia coli}
           PDB: 2wjq_A*
          Length = 214

 Score = 23.5 bits (50), Expect = 4.7
 Identities = 11/40 (27%), Positives = 16/40 (40%)

Query: 22  YKSVLNKICQNDKSNDFTHSFKLASAYSEDIMPYTNYTYV 61
           Y    +    N K     ++F L    + DI PY  Y Y+
Sbjct: 150 YSKQNDYRYANHKKWATENAFVLQYHMTPDITPYIEYDYL 189


  Database: pdb70
    Posted date:  Sep 4, 2012  3:40 AM
  Number of letters in database: 6,701,793
  Number of sequences in database:  27,921
  
Lambda     K      H
   0.317    0.132    0.384 

Gapped
Lambda     K      H
   0.267   0.0436    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 849,389
Number of extensions: 31591
Number of successful extensions: 53
Number of sequences better than 10.0: 1
Number of HSP's gapped: 53
Number of HSP's successfully gapped: 3
Length of query: 61
Length of database: 6,701,793
Length adjustment: 32
Effective length of query: 29
Effective length of database: 5,808,321
Effective search space: 168441309
Effective search space used: 168441309
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.2 bits)