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= 001946
         (992 letters)

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

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



>pdb|1FWX|A Chain A, Crystal Structure Of Nitrous Oxide Reductase From P.
           Denitrificans
 pdb|1FWX|B Chain B, Crystal Structure Of Nitrous Oxide Reductase From P.
           Denitrificans
 pdb|1FWX|C Chain C, Crystal Structure Of Nitrous Oxide Reductase From P.
           Denitrificans
 pdb|1FWX|D Chain D, Crystal Structure Of Nitrous Oxide Reductase From P.
           Denitrificans
          Length = 595

 Score = 29.6 bits (65), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 34/116 (29%), Positives = 50/116 (43%), Gaps = 10/116 (8%)

Query: 740 WIFSRIVESIWWQTLTPHMQSAAERVMDRDIGSCSRKNLERTSSSGDQEQIN-FSLDHWK 798
           W FS    S    TL P M +AAE  MD  I   +   +E+  ++GD +++N   +   +
Sbjct: 208 WAFSTSYNSEKGMTL-PEM-TAAE--MDH-IVVFNIAEIEKAIAAGDYQELNGVKVVDGR 262

Query: 799 KAFKDACERLCPVRARGHECGCLP----LLARLIMEQCVARLDVAMFNAILRESAD 850
           K       R  P+    H C   P    L     +   V  LDV  F+A+  E+AD
Sbjct: 263 KEASSLFTRYIPIANNPHGCNMAPDKKHLCVAGKLSPTVTVLDVTRFDAVFYENAD 318


  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
   0.313    0.129    0.373 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 26,115,849
Number of Sequences: 62578
Number of extensions: 1002904
Number of successful extensions: 1818
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1817
Number of HSP's gapped (non-prelim): 2
length of query: 992
length of database: 14,973,337
effective HSP length: 108
effective length of query: 884
effective length of database: 8,214,913
effective search space: 7261983092
effective search space used: 7261983092
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 56 (26.2 bits)