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= 042273
         (100 letters)

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

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



>pdb|1FRV|A Chain A, Crystal Structure Of The Oxidized Form Of Ni-Fe
           Hydrogenase
 pdb|1FRV|C Chain C, Crystal Structure Of The Oxidized Form Of Ni-Fe
           Hydrogenase
          Length = 264

 Score = 25.4 bits (54), Expect = 8.5,   Method: Compositional matrix adjust.
 Identities = 18/75 (24%), Positives = 36/75 (48%), Gaps = 4/75 (5%)

Query: 6   IFVILSQIEPLTEQQI-LGICGLQQSTQEAEDALSQGLEALNQSI--LDTIASDSLSCPP 62
           ++ I +++ P  +  I +G C      Q A+   + G   +N+++  L   A +   CPP
Sbjct: 92  MYDICAEVAPKAKAVIAIGTCATYGGVQAAKPNPT-GTVGVNEALGKLGVKAINIAGCPP 150

Query: 63  NMANYMGQMAVAMNK 77
           N  N++G +   + K
Sbjct: 151 NPMNFVGTVVHLLTK 165


>pdb|2FRV|S Chain S, Crystal Structure Of The Oxidized Form Of Ni-Fe
           Hydrogenase
 pdb|2FRV|A Chain A, Crystal Structure Of The Oxidized Form Of Ni-Fe
           Hydrogenase
 pdb|2FRV|C Chain C, Crystal Structure Of The Oxidized Form Of Ni-Fe
           Hydrogenase
 pdb|2FRV|E Chain E, Crystal Structure Of The Oxidized Form Of Ni-Fe
           Hydrogenase
 pdb|2FRV|G Chain G, Crystal Structure Of The Oxidized Form Of Ni-Fe
           Hydrogenase
 pdb|2FRV|I Chain I, Crystal Structure Of The Oxidized Form Of Ni-Fe
           Hydrogenase
 pdb|1YQ9|A Chain A, Structure Of The Unready Oxidized Form Of [nife]
           Hydrogenase
 pdb|1YQ9|B Chain B, Structure Of The Unready Oxidized Form Of [nife]
           Hydrogenase
          Length = 264

 Score = 25.4 bits (54), Expect = 8.8,   Method: Compositional matrix adjust.
 Identities = 18/75 (24%), Positives = 36/75 (48%), Gaps = 4/75 (5%)

Query: 6   IFVILSQIEPLTEQQI-LGICGLQQSTQEAEDALSQGLEALNQSI--LDTIASDSLSCPP 62
           ++ I +++ P  +  I +G C      Q A+   + G   +N+++  L   A +   CPP
Sbjct: 92  MYDICAEVAPKAKAVIAIGTCATYGGVQAAKPNPT-GTVGVNEALGKLGVKAINIAGCPP 150

Query: 63  NMANYMGQMAVAMNK 77
           N  N++G +   + K
Sbjct: 151 NPMNFVGTVVHLLTK 165


  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
   0.318    0.129    0.363 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,271,097
Number of Sequences: 62578
Number of extensions: 60976
Number of successful extensions: 189
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 188
Number of HSP's gapped (non-prelim): 4
length of query: 100
length of database: 14,973,337
effective HSP length: 66
effective length of query: 34
effective length of database: 10,843,189
effective search space: 368668426
effective search space used: 368668426
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)