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= 025484
         (252 letters)

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

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



>pdb|4A4A|A Chain A, Cpgh89 (E483q, E601q), From Clostridium Perfringens, In
           Complex With Its Substrate Glcnac-Alpha-1,4-Galactose
          Length = 914

 Score = 28.1 bits (61), Expect = 4.4,   Method: Composition-based stats.
 Identities = 23/77 (29%), Positives = 34/77 (44%), Gaps = 10/77 (12%)

Query: 116 TKTEWAKLRAATKSGFALTGVATLGQVGPHVGKADVGESEDDYMFRIALPGVKRD----D 171
           ++T WA       S  A     TL ++   VG+    E +D ++F I      RD    +
Sbjct: 171 SETPWATEYEKFNSDSAYANEKTLNEIKNLVGRVIGREFKDKFIFEI------RDQLNGN 224

Query: 172 DEFSCTVDPTGKILIKG 188
           D F  +    GK+LIKG
Sbjct: 225 DVFEVSDSGDGKVLIKG 241


>pdb|2VC9|A Chain A, Family 89 Glycoside Hydrolase From Clostridium Perfringens
           In Complex With 2-Acetamido-1,2-Dideoxynojirmycin
 pdb|2VCA|A Chain A, Family 89 Glycoside Hydrolase From Clostridium Perfringens
           In Complex With Beta-N-Acetyl-D-Glucosamine
 pdb|2VCB|A Chain A, Family 89 Glycoside Hydrolase From Clostridium Perfringens
           In Complex With Pugnac
 pdb|2VCC|A Chain A, Family 89 Glycoside Hydrolase From Clostridium Perfringens
          Length = 891

 Score = 28.1 bits (61), Expect = 4.5,   Method: Composition-based stats.
 Identities = 23/77 (29%), Positives = 34/77 (44%), Gaps = 10/77 (12%)

Query: 116 TKTEWAKLRAATKSGFALTGVATLGQVGPHVGKADVGESEDDYMFRIALPGVKRD----D 171
           ++T WA       S  A     TL ++   VG+    E +D ++F I      RD    +
Sbjct: 148 SETPWATEYEKFNSDSAYANEKTLNEIKNLVGRVIGREFKDKFIFEI------RDQLNGN 201

Query: 172 DEFSCTVDPTGKILIKG 188
           D F  +    GK+LIKG
Sbjct: 202 DVFEVSDSGDGKVLIKG 218


  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
   0.312    0.132    0.379 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,744,320
Number of Sequences: 62578
Number of extensions: 307248
Number of successful extensions: 434
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: 434
Number of HSP's gapped (non-prelim): 3
length of query: 252
length of database: 14,973,337
effective HSP length: 97
effective length of query: 155
effective length of database: 8,903,271
effective search space: 1380007005
effective search space used: 1380007005
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 50 (23.9 bits)