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= 011208
         (491 letters)

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

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



>pdb|3P4R|A Chain A, Crystal Structure Of Menaquinol:fumarate Oxidoreductase In
           Complex With Glutarate
 pdb|3P4R|M Chain M, Crystal Structure Of Menaquinol:fumarate Oxidoreductase In
           Complex With Glutarate
 pdb|3P4P|A Chain A, Crystal Structure Of Menaquinol:fumarate Oxidoreductase In
           Complex With Fumarate
 pdb|3P4P|M Chain M, Crystal Structure Of Menaquinol:fumarate Oxidoreductase In
           Complex With Fumarate
 pdb|3P4Q|A Chain A, Crystal Structure Of Menaquinol:oxidoreductase In Complex
           With Oxaloacetate
 pdb|3P4Q|M Chain M, Crystal Structure Of Menaquinol:oxidoreductase In Complex
           With Oxaloacetate
 pdb|3P4S|A Chain A, Crystal Structure Of Menaquinol:fumarate Oxidoreductase In
           Complex With A 3-Nitropropionate Adduct
 pdb|3P4S|M Chain M, Crystal Structure Of Menaquinol:fumarate Oxidoreductase In
           Complex With A 3-Nitropropionate Adduct
          Length = 577

 Score = 32.3 bits (72), Expect = 0.65,   Method: Compositional matrix adjust.
 Identities = 24/62 (38%), Positives = 31/62 (50%), Gaps = 2/62 (3%)

Query: 380 AVSRLNSMGYGSA--CGSNSNLDQVTAGRAAAESKNEEGLFPSNGNLRSIQREAALNKFR 437
           AV   +S+G   A   GSNS  + V  GR A E   E      NGN  +I+ +AA  + R
Sbjct: 377 AVGECSSVGLHGANRLGSNSLAELVVFGRLAGEQATERAATAGNGNEAAIEAQAAGVEQR 436

Query: 438 LK 439
           LK
Sbjct: 437 LK 438


>pdb|3CIR|A Chain A, E. Coli Quinol Fumarate Reductase Frda T234a Mutation
 pdb|3CIR|M Chain M, E. Coli Quinol Fumarate Reductase Frda T234a Mutation
          Length = 602

 Score = 32.3 bits (72), Expect = 0.68,   Method: Compositional matrix adjust.
 Identities = 24/62 (38%), Positives = 31/62 (50%), Gaps = 2/62 (3%)

Query: 380 AVSRLNSMGYGSA--CGSNSNLDQVTAGRAAAESKNEEGLFPSNGNLRSIQREAALNKFR 437
           AV   +S+G   A   GSNS  + V  GR A E   E      NGN  +I+ +AA  + R
Sbjct: 377 AVGECSSVGLHGANRLGSNSLAELVVFGRLAGEQATERAATAGNGNEAAIEAQAAGVEQR 436

Query: 438 LK 439
           LK
Sbjct: 437 LK 438


>pdb|2B76|A Chain A, E. Coli Quinol Fumarate Reductase Frda E49q Mutation
 pdb|2B76|M Chain M, E. Coli Quinol Fumarate Reductase Frda E49q Mutation
          Length = 602

 Score = 32.3 bits (72), Expect = 0.68,   Method: Compositional matrix adjust.
 Identities = 24/62 (38%), Positives = 31/62 (50%), Gaps = 2/62 (3%)

Query: 380 AVSRLNSMGYGSA--CGSNSNLDQVTAGRAAAESKNEEGLFPSNGNLRSIQREAALNKFR 437
           AV   +S+G   A   GSNS  + V  GR A E   E      NGN  +I+ +AA  + R
Sbjct: 377 AVGECSSVGLHGANRLGSNSLAELVVFGRLAGEQATERAATAGNGNEAAIEAQAAGVEQR 436

Query: 438 LK 439
           LK
Sbjct: 437 LK 438


>pdb|1KF6|A Chain A, E. Coli Quinol-Fumarate Reductase With Bound Inhibitor
           Hqno
 pdb|1KF6|M Chain M, E. Coli Quinol-Fumarate Reductase With Bound Inhibitor
           Hqno
 pdb|1KFY|A Chain A, Quinol-fumarate Reductase With Quinol Inhibitor
           2-[1-(4-chloro- Phenyl)-ethyl]-4,6-dinitro-phenol
 pdb|1KFY|M Chain M, Quinol-fumarate Reductase With Quinol Inhibitor
           2-[1-(4-chloro- Phenyl)-ethyl]-4,6-dinitro-phenol
 pdb|1L0V|A Chain A, Quinol-Fumarate Reductase With Menaquinol Molecules
 pdb|1L0V|M Chain M, Quinol-Fumarate Reductase With Menaquinol Molecules
          Length = 602

 Score = 32.0 bits (71), Expect = 0.70,   Method: Compositional matrix adjust.
 Identities = 24/62 (38%), Positives = 31/62 (50%), Gaps = 2/62 (3%)

Query: 380 AVSRLNSMGYGSA--CGSNSNLDQVTAGRAAAESKNEEGLFPSNGNLRSIQREAALNKFR 437
           AV   +S+G   A   GSNS  + V  GR A E   E      NGN  +I+ +AA  + R
Sbjct: 377 AVGECSSVGLHGANRLGSNSLAELVVFGRLAGEQATERAATAGNGNEAAIEAQAAGVEQR 436

Query: 438 LK 439
           LK
Sbjct: 437 LK 438


  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
   0.310    0.124    0.351 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,588,054
Number of Sequences: 62578
Number of extensions: 527236
Number of successful extensions: 969
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 965
Number of HSP's gapped (non-prelim): 11
length of query: 491
length of database: 14,973,337
effective HSP length: 103
effective length of query: 388
effective length of database: 8,527,803
effective search space: 3308787564
effective search space used: 3308787564
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 53 (25.0 bits)