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= 032114
         (147 letters)

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

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



>pdb|3B96|A Chain A, Structural Basis For Substrate Fatty-Acyl Chain
           Specificity: Crystal Structure Of Human Very-Long-Chain
           Acyl-Coa Dehydrogenase
          Length = 587

 Score = 26.9 bits (58), Expect = 4.4,   Method: Composition-based stats.
 Identities = 15/43 (34%), Positives = 20/43 (46%)

Query: 79  GVKDSAENRGELLMGDRIENSPYRFKTYTNETDIFFCKTDPLS 121
           G   S   +G LL G + +   Y  K  + ET   FC T+P S
Sbjct: 111 GAHQSIGFKGILLFGTKAQKEKYLPKLASGETVAAFCLTEPSS 153


>pdb|2UXW|A Chain A, Crystal Structure Of Human Very Long Chain Acyl-coa
           Dehydrogenase (acadvl)
          Length = 607

 Score = 26.9 bits (58), Expect = 4.4,   Method: Composition-based stats.
 Identities = 15/43 (34%), Positives = 20/43 (46%)

Query: 79  GVKDSAENRGELLMGDRIENSPYRFKTYTNETDIFFCKTDPLS 121
           G   S   +G LL G + +   Y  K  + ET   FC T+P S
Sbjct: 131 GAHQSIGFKGILLFGTKAQKEKYLPKLASGETVAAFCLTEPSS 173


>pdb|2J43|A Chain A, Alpha-Glucan Recognition By Family 41 Carbohydrate-Binding
           Modules From Streptococcal Virulence Factors
 pdb|2J43|B Chain B, Alpha-Glucan Recognition By Family 41 Carbohydrate-Binding
           Modules From Streptococcal Virulence Factors
          Length = 219

 Score = 26.2 bits (56), Expect = 6.2,   Method: Compositional matrix adjust.
 Identities = 30/101 (29%), Positives = 42/101 (41%), Gaps = 20/101 (19%)

Query: 35  YLRDNYPHKHVVSDPLSVKVNSITSIDTKMPFSYYSLSFCKPQEG---------VKDSAE 85
           YLR NY ++    D L+V     T  D K P + +        +G         +K+ A 
Sbjct: 113 YLRINYHNQSGHYDNLAV----WTFKDVKTPTTDWPNGLDLSHKGHYGAYVDVPLKEGAN 168

Query: 86  NRGELLM-----GDRIENSP--YRFKTYTNETDIFFCKTDP 119
             G L++     GD I+  P  Y FK   N T +F   TDP
Sbjct: 169 EIGFLILDKSKTGDAIKVQPKDYLFKELDNHTQVFVKDTDP 209


  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
   0.327    0.142    0.445 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,505,530
Number of Sequences: 62578
Number of extensions: 166827
Number of successful extensions: 427
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 423
Number of HSP's gapped (non-prelim): 8
length of query: 147
length of database: 14,973,337
effective HSP length: 90
effective length of query: 57
effective length of database: 9,341,317
effective search space: 532455069
effective search space used: 532455069
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 47 (22.7 bits)