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= 042243
         (303 letters)

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

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



>pdb|1WDX|A Chain A, Yeast Bbc1 Sh3 Domain, Triclinic Crystal Form
 pdb|1WDX|B Chain B, Yeast Bbc1 Sh3 Domain, Triclinic Crystal Form
 pdb|1WDX|C Chain C, Yeast Bbc1 Sh3 Domain, Triclinic Crystal Form
 pdb|1WDX|D Chain D, Yeast Bbc1 Sh3 Domain, Triclinic Crystal Form
          Length = 69

 Score = 28.1 bits (61), Expect = 6.2,   Method: Composition-based stats.
 Identities = 9/22 (40%), Positives = 17/22 (77%)

Query: 123 YRCIARYGYRDIHKDDLEFEKD 144
           ++ +A++ Y+  ++DDL FEKD
Sbjct: 9   FKVVAQFPYKSDYEDDLNFEKD 30


>pdb|1TG0|A Chain A, 0.97-A Structure Of The Sh3 Domain Of Bbc1
 pdb|1ZUK|A Chain A, Yeast Bbc1 Sh3 Domain Complexed With A Peptide From Las17
 pdb|1ZUK|B Chain B, Yeast Bbc1 Sh3 Domain Complexed With A Peptide From Las17
          Length = 68

 Score = 28.1 bits (61), Expect = 6.3,   Method: Composition-based stats.
 Identities = 9/22 (40%), Positives = 17/22 (77%)

Query: 123 YRCIARYGYRDIHKDDLEFEKD 144
           ++ +A++ Y+  ++DDL FEKD
Sbjct: 8   FKVVAQFPYKSDYEDDLNFEKD 29


  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
   0.324    0.142    0.431 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,085,394
Number of Sequences: 62578
Number of extensions: 380302
Number of successful extensions: 1131
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1129
Number of HSP's gapped (non-prelim): 3
length of query: 303
length of database: 14,973,337
effective HSP length: 98
effective length of query: 205
effective length of database: 8,840,693
effective search space: 1812342065
effective search space used: 1812342065
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 51 (24.3 bits)