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= 041577
         (237 letters)

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

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



>pdb|1XBD|A Chain A, Internal Xylan Binding Domain From Cellulomonas Fimi
           Xylanase D, Nmr, 5 Structures
 pdb|2XBD|A Chain A, Internal Xylan Binding Domain From Cellulomonas Fimi
           Xylanase D, Nmr, Minimized Average Structure
          Length = 87

 Score = 27.7 bits (60), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 13/35 (37%), Positives = 17/35 (48%)

Query: 109 LDQKLEGGQTLQVKPNSNPCGSDQKTATPPAGSGE 143
           ++  L G QT+Q   N+N  GS       P GSG 
Sbjct: 31  VNLALNGSQTIQASWNANVTGSGSTRTVTPNGSGN 65


>pdb|1E5B|A Chain A, Internal Xylan Binding Domain From C. Fimi Xyn10a, R262g
           Mutant
 pdb|1E5C|A Chain A, Internal Xylan Binding Domain From C. Fimi Xyn10a, R262g
           Mutant
          Length = 87

 Score = 27.3 bits (59), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 13/35 (37%), Positives = 17/35 (48%)

Query: 109 LDQKLEGGQTLQVKPNSNPCGSDQKTATPPAGSGE 143
           ++  L G QT+Q   N+N  GS       P GSG 
Sbjct: 31  VNLALNGSQTIQASWNANVTGSGSTRTVTPNGSGN 65


  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
   0.304    0.122    0.345 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,150,856
Number of Sequences: 62578
Number of extensions: 275795
Number of successful extensions: 365
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 358
Number of HSP's gapped (non-prelim): 16
length of query: 237
length of database: 14,973,337
effective HSP length: 96
effective length of query: 141
effective length of database: 8,965,849
effective search space: 1264184709
effective search space used: 1264184709
T: 11
A: 40
X1: 16 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.9 bits)
S2: 50 (23.9 bits)