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= 045581
         (107 letters)

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

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



>pdb|2YEV|A Chain A, Structure Of Caa3-Type Cytochrome Oxidase
 pdb|2YEV|D Chain D, Structure Of Caa3-Type Cytochrome Oxidase
          Length = 791

 Score = 26.2 bits (56), Expect = 4.4,   Method: Composition-based stats.
 Identities = 19/46 (41%), Positives = 21/46 (45%), Gaps = 4/46 (8%)

Query: 2   FMILSCSIAVGTNLSQFICIGRFTAVTFQVLGHMKTILVLVLGFIF 47
           F   +  IAV T +  F  IG       Q    MKT L  VLGFIF
Sbjct: 314 FAFFTALIAVPTGVKLFNIIGTLWGGKLQ----MKTPLYWVLGFIF 355


>pdb|1V9L|A Chain A, L-Glutamate Dehydrogenase From Pyrobaculum Islandicum
           Complexed With Nad
 pdb|1V9L|B Chain B, L-Glutamate Dehydrogenase From Pyrobaculum Islandicum
           Complexed With Nad
 pdb|1V9L|C Chain C, L-Glutamate Dehydrogenase From Pyrobaculum Islandicum
           Complexed With Nad
 pdb|1V9L|D Chain D, L-Glutamate Dehydrogenase From Pyrobaculum Islandicum
           Complexed With Nad
 pdb|1V9L|E Chain E, L-Glutamate Dehydrogenase From Pyrobaculum Islandicum
           Complexed With Nad
 pdb|1V9L|F Chain F, L-Glutamate Dehydrogenase From Pyrobaculum Islandicum
           Complexed With Nad
          Length = 421

 Score = 26.2 bits (56), Expect = 5.5,   Method: Composition-based stats.
 Identities = 14/38 (36%), Positives = 24/38 (63%), Gaps = 1/38 (2%)

Query: 21  IGRFTAVTFQVLGHMKTILVLVLGFIFFGKEGLNMQVI 58
           +GR+TA   + +G  K I V  +  + + KEGLN+++I
Sbjct: 221 VGRWTAYWLEKMG-AKVIAVSDINGVAYRKEGLNVELI 257


  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
   0.325    0.139    0.403 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,784,806
Number of Sequences: 62578
Number of extensions: 90309
Number of successful extensions: 223
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 223
Number of HSP's gapped (non-prelim): 2
length of query: 107
length of database: 14,973,337
effective HSP length: 72
effective length of query: 35
effective length of database: 10,467,721
effective search space: 366370235
effective search space used: 366370235
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: 45 (21.9 bits)