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= 043087
         (754 letters)

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

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



>pdb|2PF4|E Chain E, Crystal Structure Of The Full-Length Simian Virus 40 Small
           T Antigen Complexed With The Protein Phosphatase 2a
           Aalpha Subunit
 pdb|2PF4|F Chain F, Crystal Structure Of The Full-Length Simian Virus 40 Small
           T Antigen Complexed With The Protein Phosphatase 2a
           Aalpha Subunit
 pdb|2PF4|G Chain G, Crystal Structure Of The Full-Length Simian Virus 40 Small
           T Antigen Complexed With The Protein Phosphatase 2a
           Aalpha Subunit
 pdb|2PF4|H Chain H, Crystal Structure Of The Full-Length Simian Virus 40 Small
           T Antigen Complexed With The Protein Phosphatase 2a
           Aalpha Subunit
          Length = 174

 Score = 30.0 bits (66), Expect = 4.4,   Method: Composition-based stats.
 Identities = 10/27 (37%), Positives = 19/27 (70%)

Query: 473 KRRRKAKLLYNQLEDGGQYSDEEDYGG 499
           ++ +K   LY ++EDG +Y+ + D+GG
Sbjct: 50  EKMKKMNTLYKKMEDGVKYAHQPDFGG 76


>pdb|1GH6|A Chain A, Retinoblastoma Pocket Complexed With Sv40 Large T Antigen
          Length = 114

 Score = 30.0 bits (66), Expect = 4.4,   Method: Composition-based stats.
 Identities = 10/27 (37%), Positives = 19/27 (70%)

Query: 473 KRRRKAKLLYNQLEDGGQYSDEEDYGG 499
           ++ +K   LY ++EDG +Y+ + D+GG
Sbjct: 47  EKMKKMNTLYKKMEDGVKYAHQPDFGG 73


  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
   0.326    0.140    0.410 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,859,116
Number of Sequences: 62578
Number of extensions: 699322
Number of successful extensions: 2053
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 2051
Number of HSP's gapped (non-prelim): 4
length of query: 754
length of database: 14,973,337
effective HSP length: 106
effective length of query: 648
effective length of database: 8,340,069
effective search space: 5404364712
effective search space used: 5404364712
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (25.8 bits)