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= 008957
         (547 letters)

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

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



>pdb|1WD3|A Chain A, Crystal Structure Of Arabinofuranosidase
 pdb|1WD4|A Chain A, Crystal Structure Of Arabinofuranosidase Complexed With
           Arabinose
          Length = 482

 Score = 28.9 bits (63), Expect = 6.8,   Method: Compositional matrix adjust.
 Identities = 19/57 (33%), Positives = 32/57 (56%), Gaps = 3/57 (5%)

Query: 83  AIASNGVNGSQRTCDDKGICTSGSGIQGDFKLNNFQDGVLSSAFMVGLLVASPIFAS 139
            I  +  NG+Q T   +G+ TSG     D   N+ Q+ ++++ ++VG LV+ P F S
Sbjct: 276 GIGGDNSNGAQGTFY-EGVMTSG--YPSDDTENSVQENIVAAKYVVGSLVSGPSFTS 329


>pdb|2D43|A Chain A, Crystal Structure Of Arabinofuranosidase Complexed With
           Arabinotriose
 pdb|2D44|A Chain A, Crystal Structure Of Arabinofuranosidase Complexed With
           Arabinofuranosyl-alpha-1,2-xylobiose
          Length = 482

 Score = 28.9 bits (63), Expect = 6.8,   Method: Compositional matrix adjust.
 Identities = 19/57 (33%), Positives = 32/57 (56%), Gaps = 3/57 (5%)

Query: 83  AIASNGVNGSQRTCDDKGICTSGSGIQGDFKLNNFQDGVLSSAFMVGLLVASPIFAS 139
            I  +  NG+Q T   +G+ TSG     D   N+ Q+ ++++ ++VG LV+ P F S
Sbjct: 276 GIGGDNSNGAQGTFY-EGVMTSG--YPSDDTENSVQENIVAAKYVVGSLVSGPSFTS 329


  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
   0.322    0.135    0.408 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,835,661
Number of Sequences: 62578
Number of extensions: 509211
Number of successful extensions: 955
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 955
Number of HSP's gapped (non-prelim): 3
length of query: 547
length of database: 14,973,337
effective HSP length: 104
effective length of query: 443
effective length of database: 8,465,225
effective search space: 3750094675
effective search space used: 3750094675
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.4 bits)