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= psy11724
         (355 letters)

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

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



>pdb|3N89|A Chain A, Kh Domains
 pdb|3N89|B Chain B, Kh Domains
          Length = 376

 Score = 30.4 bits (67), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 16/45 (35%), Positives = 26/45 (57%), Gaps = 4/45 (8%)

Query: 46  PLQLCFKIKPKDASNPSWISP---GIIVFNVEICVKLTPESTFDP 87
           P+ +CF IK  D + PS +S     +I+    I +K+TP S ++P
Sbjct: 260 PISMCFNIKNTDMAEPSRVSDRNIHMIIDESGIILKMTP-SVYEP 303


>pdb|2WYH|A Chain A, Structure Of The Streptococcus Pyogenes Family Gh38 Alpha-
           Mannosidase
 pdb|2WYH|B Chain B, Structure Of The Streptococcus Pyogenes Family Gh38 Alpha-
           Mannosidase
 pdb|2WYI|A Chain A, Structure Of The Streptococcus Pyogenes Family Gh38 Alpha-
           Mannosidase Complexed With Swainsonine
 pdb|2WYI|B Chain B, Structure Of The Streptococcus Pyogenes Family Gh38 Alpha-
           Mannosidase Complexed With Swainsonine
          Length = 923

 Score = 28.9 bits (63), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 12/37 (32%), Positives = 21/37 (56%)

Query: 257 KHHFGQGLITYANEEVVNWVTTLADSFRVADDMGKLR 293
           K+HFGQ       +E   ++  L+ SF++ D  G++R
Sbjct: 448 KYHFGQRFPKEVYQEAQEYLARLSQSFQIIDTSGQVR 484


  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
   0.326    0.142    0.448 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,703,755
Number of Sequences: 62578
Number of extensions: 447756
Number of successful extensions: 1083
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1080
Number of HSP's gapped (non-prelim): 4
length of query: 355
length of database: 14,973,337
effective HSP length: 100
effective length of query: 255
effective length of database: 8,715,537
effective search space: 2222461935
effective search space used: 2222461935
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.6 bits)