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= psy8882
         (204 letters)

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

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



>pdb|4FO9|A Chain A, Crystal Structure Of The E3 Sumo Ligase Pias2
          Length = 360

 Score = 65.1 bits (157), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 46/129 (35%), Positives = 66/129 (51%), Gaps = 18/129 (13%)

Query: 71  KFKVLPFFDMKHELIPISSLQPTNTSSRNQEVSFQFKLTNQQAAELGENREIIPGVRNDW 130
           + K LPF+D+   LI  +SL  ++   R QE  F F LT QQ  E+  +R+ +PG R D+
Sbjct: 19  QLKNLPFYDVLDVLIKPTSLVQSSIQ-RFQEKFFIFALTPQQVREICISRDFLPGGRRDY 77

Query: 131 HYQRTHCAIFSLILYPQVQLRIASLNTTTEQDDHYPPNLAIKVNQRAVQLPNPIP---SR 187
             Q              VQLR+    T+  Q+D+YP +L IKVN +   LP   P   + 
Sbjct: 78  TVQ--------------VQLRLCLAETSCPQEDNYPNSLCIKVNGKLFPLPGYAPPPKNG 123

Query: 188 VQNKEPIRP 196
           ++ K P RP
Sbjct: 124 IEQKRPGRP 132


  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
   0.317    0.133    0.404 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,461,270
Number of Sequences: 62578
Number of extensions: 198852
Number of successful extensions: 419
Number of sequences better than 100.0: 1
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 417
Number of HSP's gapped (non-prelim): 1
length of query: 204
length of database: 14,973,337
effective HSP length: 94
effective length of query: 110
effective length of database: 9,091,005
effective search space: 1000010550
effective search space used: 1000010550
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)