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= 008018
         (581 letters)

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

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



>pdb|1FRI|A Chain A, Azotobacter Vinelandii Ferredoxin I: Alteration Of
           Individual Surface Charges And The [4fe-4s] Cluster
           Reduction Potential
          Length = 106

 Score = 32.0 bits (71), Expect = 1.0,   Method: Composition-based stats.
 Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 6/44 (13%)

Query: 63  ASIIADSGGTCTVSDCVALCSNPSVPLANCTTSDPAYRVVQPDE 106
           A ++ D+   C  +DCV +C        NC    P + V+ PDE
Sbjct: 1   AFVVTDNCIKCKYTDCVEVCP------VNCFYEGPNFLVIHPDE 38


>pdb|1BUC|A Chain A, Three-Dimensional Structure Of Butyryl-Coa Dehydrogenase
           From Megasphaera Elsdenii
 pdb|1BUC|B Chain B, Three-Dimensional Structure Of Butyryl-Coa Dehydrogenase
           From Megasphaera Elsdenii
          Length = 383

 Score = 30.4 bits (67), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 14/31 (45%), Positives = 20/31 (64%)

Query: 55  MAYILAVNASIIADSGGTCTVSDCVALCSNP 85
           ++YILAV      D+G   T+S  V+LC+NP
Sbjct: 70  LSYILAVEELAKYDAGVAITLSATVSLCANP 100


  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
   0.322    0.137    0.412 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,607,967
Number of Sequences: 62578
Number of extensions: 591554
Number of successful extensions: 979
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: 976
Number of HSP's gapped (non-prelim): 5
length of query: 581
length of database: 14,973,337
effective HSP length: 104
effective length of query: 477
effective length of database: 8,465,225
effective search space: 4037912325
effective search space used: 4037912325
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: 54 (25.4 bits)