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= psy15613
         (219 letters)

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

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



>pdb|3VNY|A Chain A, Crystal Structure Of Beta-Glucuronidase From
           Acidobacterium Capsulatum
 pdb|3VNZ|A Chain A, Crystal Structure Of Beta-Glucuronidase From
           Acidobacterium Capsulatum In Complex With D-Glucuronic
           Acid
 pdb|3VO0|A Chain A, Crystal Structure Of Beta-Glucuronidase From
           Acidobacterium Capsulatum Covalent-Bonded With
           2-Deoxy-2-Fluoro-D-Glucuronic Acid
          Length = 488

 Score = 33.1 bits (74), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 18/35 (51%), Positives = 23/35 (65%), Gaps = 2/35 (5%)

Query: 100 NLPFLCSGETGSCVGGGVEGLTDTFAASFLWIDKL 134
            LPF  + ET SC  GG +G++DTFAA+ LW   L
Sbjct: 280 GLPFRLT-ETNSCYQGGKQGVSDTFAAA-LWAGDL 312


>pdb|1QOF|A Chain A, Ferredoxin Mutation Q70k
 pdb|1QOF|B Chain B, Ferredoxin Mutation Q70k
          Length = 98

 Score = 31.2 bits (69), Expect = 0.52,   Method: Compositional matrix adjust.
 Identities = 23/69 (33%), Positives = 34/69 (49%), Gaps = 5/69 (7%)

Query: 70  KVDLIN---GSFHLIIIRCQIHLITCLLDSEWLNLPFLC-SGETGSCVGGGVEGLTDTFA 125
           KV LIN   G+ H I +    +++    + +  +LPF C +G   +C G  V G  D   
Sbjct: 4   KVTLINEAEGTKHEIEVPDDEYILD-AAEEQGYDLPFSCRAGACSTCAGKLVSGTVDQSD 62

Query: 126 ASFLWIDKL 134
            SFL  DK+
Sbjct: 63  QSFLDDDKI 71


>pdb|1QOB|A Chain A, Ferredoxin Mutation D62k
 pdb|1QOB|B Chain B, Ferredoxin Mutation D62k
          Length = 98

 Score = 30.0 bits (66), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 22/69 (31%), Positives = 34/69 (49%), Gaps = 5/69 (7%)

Query: 70  KVDLIN---GSFHLIIIRCQIHLITCLLDSEWLNLPFLC-SGETGSCVGGGVEGLTDTFA 125
           KV LIN   G+ H I +    +++    + +  +LPF C +G   +C G  V G  D   
Sbjct: 4   KVTLINEAEGTKHEIEVPDDEYILD-AAEEQGYDLPFSCRAGACSTCAGKLVSGTVDQSK 62

Query: 126 ASFLWIDKL 134
            SFL  D++
Sbjct: 63  QSFLDDDQI 71


>pdb|1EG3|A Chain A, Structure Of A Dystrophin Ww Domain Fragment In Complex
           With A Beta-Dystroglycan Peptide
 pdb|1EG4|A Chain A, Structure Of A Dystrophin Ww Domain Fragment In Complex
           With A Beta-Dystroglycan Peptide
          Length = 261

 Score = 28.5 bits (62), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 19/54 (35%), Positives = 24/54 (44%), Gaps = 10/54 (18%)

Query: 133 KLGLAARLGVSVV---VRQSLEFGNYS-------LLDWNTLEPNPDWWLSVLYK 176
           +LG  A  G S +   VR   +F N          LDW  LEP    WL VL++
Sbjct: 202 QLGEVASFGGSNIEPSVRSCFQFANNKPEIEAALFLDWMRLEPQSMVWLPVLHR 255


  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
   0.323    0.140    0.451 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,125,805
Number of Sequences: 62578
Number of extensions: 289753
Number of successful extensions: 410
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 408
Number of HSP's gapped (non-prelim): 6
length of query: 219
length of database: 14,973,337
effective HSP length: 95
effective length of query: 124
effective length of database: 9,028,427
effective search space: 1119524948
effective search space used: 1119524948
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)