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= psy7405
         (87 letters)

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

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



>pdb|1LLW|A Chain A, Structural Studies On The Synchronization Of Catalytic
           Centers In Glutamate Synthase: Complex With
           2-Oxoglutarate
 pdb|1LLZ|A Chain A, Structural Studies On The Synchronization Of Catalytic
           Centers In Glutamate Synthase: Reduced Enzyme
 pdb|1LM1|A Chain A, Structural Studies On The Synchronization Of Catalytic
           Centers In Glutamate Synthase: Native Enzyme
 pdb|1OFD|A Chain A, Glutamate Synthase From Synechocystis Sp In Complex With
           2-Oxoglutarate At 2.0 Angstrom Resolution
 pdb|1OFD|B Chain B, Glutamate Synthase From Synechocystis Sp In Complex With
           2-Oxoglutarate At 2.0 Angstrom Resolution
 pdb|1OFE|A Chain A, Glutamate Synthase From Synechocystis Sp In Complex With
           2-Oxoglutarate And L-Don At 2.45 Angstrom Resolution
 pdb|1OFE|B Chain B, Glutamate Synthase From Synechocystis Sp In Complex With
           2-Oxoglutarate And L-Don At 2.45 Angstrom Resolution
          Length = 1520

 Score = 34.3 bits (77), Expect = 0.020,   Method: Composition-based stats.
 Identities = 14/50 (28%), Positives = 27/50 (54%)

Query: 20  FISEYPTYPSFKSIYDDPVNPHERINIPGYRYLPISRETYGISPRNIQPH 69
           F+ + P+       Y + V   E++ + G+R +P++ +  GI  +N QPH
Sbjct: 78  FLPQEPSAREVARAYVEEVVRLEKLTVLGWREVPVNSDVLGIQAKNNQPH 127


>pdb|3IZ3|D Chain D, Cryoem Structure Of Cytoplasmic Polyhedrosis Virus
 pdb|3IZ3|E Chain E, Cryoem Structure Of Cytoplasmic Polyhedrosis Virus
          Length = 291

 Score = 26.2 bits (56), Expect = 4.3,   Method: Composition-based stats.
 Identities = 11/29 (37%), Positives = 18/29 (62%), Gaps = 2/29 (6%)

Query: 45 NIPGYRYL--PISRETYGISPRNIQPHHY 71
          N+PG  Y+   I++  +GIS +N+  H Y
Sbjct: 61 NVPGNVYIEDAITQALFGISAQNVNAHGY 89


>pdb|3IZX|D Chain D, 3.1 Angstrom Cryoem Structure Of Cytoplasmic
          Polyhedrosis Virus
 pdb|3IZX|E Chain E, 3.1 Angstrom Cryoem Structure Of Cytoplasmic
          Polyhedrosis Virus
          Length = 448

 Score = 25.8 bits (55), Expect = 5.6,   Method: Composition-based stats.
 Identities = 11/29 (37%), Positives = 18/29 (62%), Gaps = 2/29 (6%)

Query: 45 NIPGYRYL--PISRETYGISPRNIQPHHY 71
          N+PG  Y+   I++  +GIS +N+  H Y
Sbjct: 61 NVPGNVYIEDAITQALFGISAQNVNAHGY 89


>pdb|3J17|D Chain D, Structure Of A Transcribing Cypovirus By Cryo-Electron
          Microscopy
 pdb|3J17|E Chain E, Structure Of A Transcribing Cypovirus By Cryo-Electron
          Microscopy
          Length = 448

 Score = 25.8 bits (55), Expect = 6.2,   Method: Composition-based stats.
 Identities = 11/29 (37%), Positives = 18/29 (62%), Gaps = 2/29 (6%)

Query: 45 NIPGYRYL--PISRETYGISPRNIQPHHY 71
          N+PG  Y+   I++  +GIS +N+  H Y
Sbjct: 61 NVPGNVYIEDAITQALFGISAQNVNAHGY 89


  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    0.147    0.505 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,812,885
Number of Sequences: 62578
Number of extensions: 155160
Number of successful extensions: 265
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 261
Number of HSP's gapped (non-prelim): 9
length of query: 87
length of database: 14,973,337
effective HSP length: 55
effective length of query: 32
effective length of database: 11,531,547
effective search space: 369009504
effective search space used: 369009504
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)