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= 029146
         (198 letters)

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

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



>pdb|4GVI|A Chain A, Crystal Structure Of Mutant (D248n) Salmonella Typhimurium
           Family 3 Glycoside Hydrolase (Nagz) In Complex With
           Glcnac-1,6-Anhmurnac
 pdb|4GVI|B Chain B, Crystal Structure Of Mutant (D248n) Salmonella Typhimurium
           Family 3 Glycoside Hydrolase (Nagz) In Complex With
           Glcnac-1,6-Anhmurnac
          Length = 349

 Score = 30.0 bits (66), Expect = 0.77,   Method: Compositional matrix adjust.
 Identities = 14/33 (42%), Positives = 20/33 (60%), Gaps = 1/33 (3%)

Query: 18  LTCVCFKRKGTYERICINLTPQQAERLRRLKHR 50
           +  VC  RKG    +  NL+P +AER+ RL H+
Sbjct: 275 MILVCNNRKGAVS-VLDNLSPIKAERVTRLYHK 306


>pdb|4GVF|A Chain A, Crystal Structure Of Salmonella Typhimurium Family 3
           Glycoside Hydrolase (nagz) Bound To Glcnac
 pdb|4GVF|B Chain B, Crystal Structure Of Salmonella Typhimurium Family 3
           Glycoside Hydrolase (nagz) Bound To Glcnac
 pdb|4GVG|A Chain A, Crystal Structure Of Salmonella Typhimurium Family 3
           Glycoside Hydrolase (Nagz)
 pdb|4GVG|B Chain B, Crystal Structure Of Salmonella Typhimurium Family 3
           Glycoside Hydrolase (Nagz)
 pdb|4GVH|A Chain A, Crystal Structure Of Salmonella Typhimurium Family 3
           Glycoside Hydrolase (Nagz) Covalently Bound To
           5-Fluoro-Glcnac.
 pdb|4GVH|B Chain B, Crystal Structure Of Salmonella Typhimurium Family 3
           Glycoside Hydrolase (Nagz) Covalently Bound To
           5-Fluoro-Glcnac
          Length = 349

 Score = 30.0 bits (66), Expect = 0.78,   Method: Compositional matrix adjust.
 Identities = 14/33 (42%), Positives = 20/33 (60%), Gaps = 1/33 (3%)

Query: 18  LTCVCFKRKGTYERICINLTPQQAERLRRLKHR 50
           +  VC  RKG    +  NL+P +AER+ RL H+
Sbjct: 275 MILVCNNRKGAVS-VLDNLSPIKAERVTRLYHK 306


>pdb|3ALF|A Chain A, Crystal Structure Of Class V Chitinase From Nicotiana
           Tobaccum
          Length = 353

 Score = 28.1 bits (61), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 3/59 (5%)

Query: 117 KTFSTSFQRLLRKQG--GKRADWEYPFAVAGV-NITFMLMQMLDLEATKPRTFVRSVFL 172
           K+F  S  RL R+ G  G   DWEYP + A + N+  +L +      T+ R   R+  L
Sbjct: 93  KSFIDSSIRLARQLGFHGLDLDWEYPLSAADMTNLGTLLNEWRTAINTEARNSGRAALL 151


  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    0.139    0.455 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,037,323
Number of Sequences: 62578
Number of extensions: 231675
Number of successful extensions: 674
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 651
Number of HSP's gapped (non-prelim): 27
length of query: 198
length of database: 14,973,337
effective HSP length: 94
effective length of query: 104
effective length of database: 9,091,005
effective search space: 945464520
effective search space used: 945464520
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: 49 (23.5 bits)