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= psy8555
         (127 letters)

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

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



>pdb|1QFX|A Chain A, Ph 2.5 Acid Phosphatase From Aspergillus Niger
 pdb|1QFX|B Chain B, Ph 2.5 Acid Phosphatase From Aspergillus Niger
          Length = 460

 Score = 26.9 bits (58), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 14/32 (43%), Positives = 16/32 (50%)

Query: 96  NIQTRGPPYYLPLLNFIWFLLKVIETYTVTLN 127
           N  T GP Y  PL N+   L K +  YT T N
Sbjct: 392 NDCTSGPGYSCPLANYTSILNKNLPDYTTTCN 423


>pdb|2YFQ|A Chain A, Crystal Structure Of Glutamate Dehydrogenase From
           Peptoniphilus Asaccharolyticus
 pdb|2YFQ|B Chain B, Crystal Structure Of Glutamate Dehydrogenase From
           Peptoniphilus Asaccharolyticus
          Length = 421

 Score = 25.4 bits (54), Expect = 7.8,   Method: Composition-based stats.
 Identities = 14/39 (35%), Positives = 19/39 (48%)

Query: 42  PAAPAGGLFGTEYDLNLSIDIDLNGSWTVVLQYLCLQNK 80
           P  P G    TE  +NL+ DI  N    +V  Y  +QN+
Sbjct: 325 PTTPEGDKVLTERGINLTPDILTNSGGVLVSYYEWVQNQ 363


  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    0.140    0.440 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,069,242
Number of Sequences: 62578
Number of extensions: 157702
Number of successful extensions: 198
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 194
Number of HSP's gapped (non-prelim): 4
length of query: 127
length of database: 14,973,337
effective HSP length: 87
effective length of query: 40
effective length of database: 9,529,051
effective search space: 381162040
effective search space used: 381162040
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)