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= 003294
         (833 letters)

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

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



>pdb|1MRO|B Chain B, Methyl-Coenzyme M Reductase
 pdb|1MRO|E Chain E, Methyl-Coenzyme M Reductase
 pdb|1HBM|B Chain B, Methyl-Coenzyme M Reductase Enzyme Product Complex
 pdb|1HBM|E Chain E, Methyl-Coenzyme M Reductase Enzyme Product Complex
 pdb|1HBN|B Chain B, Methyl-Coenzyme M Reductase
 pdb|1HBN|E Chain E, Methyl-Coenzyme M Reductase
 pdb|1HBO|B Chain B, Methyl-Coenzyme M Reductase Mcr-Red1-Silent
 pdb|1HBO|E Chain E, Methyl-Coenzyme M Reductase Mcr-Red1-Silent
 pdb|1HBU|B Chain B, Methyl-Coenzyme M Reductase In The Mcr-Red1-Silent State
           In Complex With Coenzyme M
 pdb|1HBU|E Chain E, Methyl-Coenzyme M Reductase In The Mcr-Red1-Silent State
           In Complex With Coenzyme M
 pdb|3M1V|B Chain B, Structural Insight Into Methyl-Coenzyme M Reductase
           Chemistry Using Coenzyme B Analogues
 pdb|3M1V|E Chain E, Structural Insight Into Methyl-Coenzyme M Reductase
           Chemistry Using Coenzyme B Analogues
 pdb|3M2R|B Chain B, Structural Insight Into Methyl-Coenzyme M Reductase
           Chemistry Using Coenzyme B Analogues
 pdb|3M2R|E Chain E, Structural Insight Into Methyl-Coenzyme M Reductase
           Chemistry Using Coenzyme B Analogues
 pdb|3M2U|B Chain B, Structural Insight Into Methyl-Coenzyme M Reductase
           Chemistry Using Coenzyme B Analogues
 pdb|3M2U|E Chain E, Structural Insight Into Methyl-Coenzyme M Reductase
           Chemistry Using Coenzyme B Analogues
 pdb|3M2V|B Chain B, Structural Insight Into Methyl-Coenzyme M Reductase
           Chemistry Using Coenzyme B Analogues
 pdb|3M2V|E Chain E, Structural Insight Into Methyl-Coenzyme M Reductase
           Chemistry Using Coenzyme B Analogues
 pdb|3M30|B Chain B, Structural Insight Into Methyl-Coenzyme M Reductase
           Chemistry Using Coenzyme B Analogues
 pdb|3M30|E Chain E, Structural Insight Into Methyl-Coenzyme M Reductase
           Chemistry Using Coenzyme B Analogues
 pdb|3M32|B Chain B, Structural Insight Into Methyl-Coenzyme M Reductase
           Chemistry Using Coenzyme B Analogues
 pdb|3M32|E Chain E, Structural Insight Into Methyl-Coenzyme M Reductase
           Chemistry Using Coenzyme B Analogues
          Length = 442

 Score = 29.3 bits (64), Expect = 8.6,   Method: Compositional matrix adjust.
 Identities = 14/41 (34%), Positives = 25/41 (60%), Gaps = 2/41 (4%)

Query: 184 CKLA--ELGMALLADPESNIKSLKEMLQIARDDNPSISKLG 222
           CK+   EL + ++ + ES   + KEM+Q+  DD+ ++  LG
Sbjct: 66  CKIMGRELDLDIVGNAESIAAAAKEMIQVTEDDDTNVELLG 106


>pdb|3POT|B Chain B, Structural Analysis Of A Ni(Iii)-Methyl Species In
           Methyl-Coenzyme M Reductase From Methanothermobacter
           Marburgensis
 pdb|3POT|E Chain E, Structural Analysis Of A Ni(Iii)-Methyl Species In
           Methyl-Coenzyme M Reductase From Methanothermobacter
           Marburgensis
          Length = 443

 Score = 29.3 bits (64), Expect = 8.7,   Method: Compositional matrix adjust.
 Identities = 14/41 (34%), Positives = 25/41 (60%), Gaps = 2/41 (4%)

Query: 184 CKLA--ELGMALLADPESNIKSLKEMLQIARDDNPSISKLG 222
           CK+   EL + ++ + ES   + KEM+Q+  DD+ ++  LG
Sbjct: 67  CKIMGRELDLDIVGNAESIAAAAKEMIQVTEDDDTNVELLG 107


  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    0.133    0.370 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,865,086
Number of Sequences: 62578
Number of extensions: 665673
Number of successful extensions: 1370
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1368
Number of HSP's gapped (non-prelim): 4
length of query: 833
length of database: 14,973,337
effective HSP length: 107
effective length of query: 726
effective length of database: 8,277,491
effective search space: 6009458466
effective search space used: 6009458466
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: 56 (26.2 bits)