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= psy13113
         (286 letters)

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

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



>pdb|4GZI|A Chain A, Active-site Mutant Of Potato Endo-1,3-beta-glucanase In
           Complex With Laminaratriose
 pdb|4GZJ|A Chain A, Active-site Mutant Of Potato Endo-1,3-beta-glucanase In
           Complex With Laminaratriose And Laminaratetrose
          Length = 323

 Score = 30.4 bits (67), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 11/34 (32%), Positives = 18/34 (52%)

Query: 121 VQVIGGPNLEIYDVVASWPGSTHDSRIFQNSRVY 154
            + +GG N+EI    + WP   H +   +N+R Y
Sbjct: 222 TEKLGGQNIEIIVSASGWPSEGHPAATLKNARTY 255


>pdb|1N8Y|C Chain C, Crystal Structure Of The Extracellular Region Of Rat Her2
          Length = 608

 Score = 29.6 bits (65), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 8/42 (19%)

Query: 132 YDVVASWPGSTHDSRIFQNSRVYSRFDRREIRGLLLGDIGYA 173
           Y  +++WP S  D  +FQN R+        IRG +L D  Y+
Sbjct: 388 YLYISAWPDSLRDLSVFQNLRI--------IRGRILHDGAYS 421


>pdb|3UR7|A Chain A, Higher-density Crystal Structure Of Potato
           Endo-1,3-beta-glucanase
 pdb|3UR7|B Chain B, Higher-density Crystal Structure Of Potato
           Endo-1,3-beta-glucanase
 pdb|3UR8|A Chain A, Lower-density Crystal Structure Of Potato
           Endo-1,3-beta-glucanase
 pdb|3UR8|B Chain B, Lower-density Crystal Structure Of Potato
           Endo-1,3-beta-glucanase
          Length = 323

 Score = 29.6 bits (65), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 11/34 (32%), Positives = 18/34 (52%)

Query: 121 VQVIGGPNLEIYDVVASWPGSTHDSRIFQNSRVY 154
            + +GG N+EI    + WP   H +   +N+R Y
Sbjct: 222 TEKLGGQNIEIIVSESGWPSEGHPAATLKNARTY 255


  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
   0.323    0.138    0.420 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,339,891
Number of Sequences: 62578
Number of extensions: 341107
Number of successful extensions: 669
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 666
Number of HSP's gapped (non-prelim): 5
length of query: 286
length of database: 14,973,337
effective HSP length: 98
effective length of query: 188
effective length of database: 8,840,693
effective search space: 1662050284
effective search space used: 1662050284
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 51 (24.3 bits)