BLASTP 2.2.26 [Sep-21-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 027687
         (220 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

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



>pdb|3FQM|A Chain A, Crystal Structure Of A Novel Dimeric Form Of Hcv Ns5a
          Domain I Protein
 pdb|3FQM|B Chain B, Crystal Structure Of A Novel Dimeric Form Of Hcv Ns5a
          Domain I Protein
 pdb|3FQQ|A Chain A, Crystal Structure Of A Novel Dimeric Form Of Hcv Ns5a
          Domain I Protein
 pdb|3FQQ|B Chain B, Crystal Structure Of A Novel Dimeric Form Of Hcv Ns5a
          Domain I Protein
          Length = 177

 Score = 26.9 bits (58), Expect = 8.6,   Method: Compositional matrix adjust.
 Identities = 14/38 (36%), Positives = 18/38 (47%)

Query: 28 RNPSQRSYNSIKCSNTSNNSTPVPAQPEDESFPSPYPN 65
          +N S R      CSNT + + P+ A       PSP PN
Sbjct: 38 KNGSMRIVGPRTCSNTWHGTFPINAYTTGPCTPSPAPN 75


>pdb|1ZH1|A Chain A, Structure Of The Zinc-Binding Domain Of Hcv Ns5a
 pdb|1ZH1|B Chain B, Structure Of The Zinc-Binding Domain Of Hcv Ns5a
          Length = 163

 Score = 26.9 bits (58), Expect = 9.3,   Method: Compositional matrix adjust.
 Identities = 14/38 (36%), Positives = 18/38 (47%)

Query: 28 RNPSQRSYNSIKCSNTSNNSTPVPAQPEDESFPSPYPN 65
          +N S R      CSNT + + P+ A       PSP PN
Sbjct: 33 KNGSMRIVGPRTCSNTWHGTFPINAYTTGPCTPSPAPN 70


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.314    0.128    0.358 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,411,822
Number of Sequences: 62578
Number of extensions: 188390
Number of successful extensions: 285
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 280
Number of HSP's gapped (non-prelim): 6
length of query: 220
length of database: 14,973,337
effective HSP length: 95
effective length of query: 125
effective length of database: 9,028,427
effective search space: 1128553375
effective search space used: 1128553375
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 49 (23.5 bits)