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= 015568
         (404 letters)

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

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



>pdb|1R8L|A Chain A, The Structure Of Endo-Beta-1,4-Galactanase From Bacillus
           Licheniformis
 pdb|1R8L|B Chain B, The Structure Of Endo-Beta-1,4-Galactanase From Bacillus
           Licheniformis
 pdb|1UR0|A Chain A, The Structure Of Endo-Beta-1,4-Galactanase From Bacillus
           Licheniformis In Complex With Two Oligosaccharide
           Products.
 pdb|1UR0|B Chain B, The Structure Of Endo-Beta-1,4-Galactanase From Bacillus
           Licheniformis In Complex With Two Oligosaccharide
           Products.
 pdb|1UR4|A Chain A, The Structure Of Endo-Beta-1,4-Galactanase From Bacillus
           Licheniformis In Complex With Two Oligosaccharide
           Products.
 pdb|1UR4|B Chain B, The Structure Of Endo-Beta-1,4-Galactanase From Bacillus
           Licheniformis In Complex With Two Oligosaccharide
           Products.
 pdb|2CCR|A Chain A, Structure Of Beta-1,4-Galactanase
 pdb|2CCR|B Chain B, Structure Of Beta-1,4-Galactanase
 pdb|2J74|A Chain A, Structure Of Beta-1,4-Galactanase
 pdb|2J74|B Chain B, Structure Of Beta-1,4-Galactanase
          Length = 399

 Score = 29.6 bits (65), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 12/28 (42%), Positives = 17/28 (60%), Gaps = 1/28 (3%)

Query: 128 YDPRPFGRWFSGATVTEEKPLD-KGKPI 154
           YDP   G+WF G+ V  +   D KG+P+
Sbjct: 355 YDPEDAGKWFGGSAVDNQALFDFKGRPL 382


>pdb|2GFT|A Chain A, Crystal Structure Of The E263a Nucleophile Mutant Of
           Bacillus Licheniformis Endo-beta-1,4-galactanase In
           Complex With Galactotriose
 pdb|2GFT|B Chain B, Crystal Structure Of The E263a Nucleophile Mutant Of
           Bacillus Licheniformis Endo-beta-1,4-galactanase In
           Complex With Galactotriose
          Length = 399

 Score = 29.6 bits (65), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 12/28 (42%), Positives = 17/28 (60%), Gaps = 1/28 (3%)

Query: 128 YDPRPFGRWFSGATVTEEKPLD-KGKPI 154
           YDP   G+WF G+ V  +   D KG+P+
Sbjct: 355 YDPEDAGKWFGGSAVDNQALFDFKGRPL 382


>pdb|4GMN|A Chain A, Structural Basis Of Rpl5 Recognition By Syo1
          Length = 676

 Score = 29.3 bits (64), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 33/65 (50%), Gaps = 6/65 (9%)

Query: 345 FGSADPSSKT----GLASVIQELEVTRPLTLSERAVAVALAISL-DNDYFSRHGGWGIPF 399
             S D  S+T     +A+++Q+ +  R L L E+ V + L  +L DN+  SR  GW I  
Sbjct: 43  LKSPDAKSRTTAAGAIANIVQDAKC-RKLLLREQVVHIVLTETLTDNNIDSRAAGWEILK 101

Query: 400 VAVGE 404
           V   E
Sbjct: 102 VLAQE 106


>pdb|4GMO|A Chain A, Crystal Structure Of Syo1
          Length = 684

 Score = 28.9 bits (63), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 33/65 (50%), Gaps = 6/65 (9%)

Query: 345 FGSADPSSKT----GLASVIQELEVTRPLTLSERAVAVALAISL-DNDYFSRHGGWGIPF 399
             S D  S+T     +A+++Q+ +  R L L E+ V + L  +L DN+  SR  GW I  
Sbjct: 43  LKSPDAKSRTTAAGAIANIVQDAKC-RKLLLREQVVHIVLTETLTDNNIDSRAAGWEILK 101

Query: 400 VAVGE 404
           V   E
Sbjct: 102 VLAQE 106


  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
   0.321    0.139    0.425 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,571,346
Number of Sequences: 62578
Number of extensions: 455503
Number of successful extensions: 844
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 842
Number of HSP's gapped (non-prelim): 7
length of query: 404
length of database: 14,973,337
effective HSP length: 101
effective length of query: 303
effective length of database: 8,652,959
effective search space: 2621846577
effective search space used: 2621846577
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: 53 (25.0 bits)