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= 038314
         (565 letters)

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

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



>pdb|3POT|C Chain C, Structural Analysis Of A Ni(Iii)-Methyl Species In
           Methyl-Coenzyme M Reductase From Methanothermobacter
           Marburgensis
 pdb|3POT|F Chain F, Structural Analysis Of A Ni(Iii)-Methyl Species In
           Methyl-Coenzyme M Reductase From Methanothermobacter
           Marburgensis
          Length = 249

 Score = 28.9 bits (63), Expect = 7.3,   Method: Compositional matrix adjust.
 Identities = 22/84 (26%), Positives = 36/84 (42%), Gaps = 14/84 (16%)

Query: 218 KSSQGQQDSCTRTTELHKGDNVDGVQGSSTNLGACQGPVMPAEEHPNMAFKHSNGVSHDP 277
           K +Q +++ C    EL K   +     S  ++    G   P EE+P++         H P
Sbjct: 10  KVAQNRRNFCNPEYELEKLREI-----SDEDVVKILGHRAPGEEYPSV---------HPP 55

Query: 278 AHELDKPENQCRERPTSADTSSQG 301
             E+D+PE+  RE     D +  G
Sbjct: 56  LEEMDEPEDAIREMVEPIDGAKAG 79


>pdb|1MRO|C Chain C, Methyl-Coenzyme M Reductase
 pdb|1MRO|F Chain F, Methyl-Coenzyme M Reductase
          Length = 247

 Score = 28.9 bits (63), Expect = 7.5,   Method: Compositional matrix adjust.
 Identities = 22/84 (26%), Positives = 36/84 (42%), Gaps = 14/84 (16%)

Query: 218 KSSQGQQDSCTRTTELHKGDNVDGVQGSSTNLGACQGPVMPAEEHPNMAFKHSNGVSHDP 277
           K +Q +++ C    EL K   +     S  ++    G   P EE+P++         H P
Sbjct: 9   KVAQNRRNFCNPEYELEKLREI-----SDEDVVKILGHRAPGEEYPSV---------HPP 54

Query: 278 AHELDKPENQCRERPTSADTSSQG 301
             E+D+PE+  RE     D +  G
Sbjct: 55  LEEMDEPEDAIREMVEPIDGAKAG 78


>pdb|1HBM|C Chain C, Methyl-Coenzyme M Reductase Enzyme Product Complex
 pdb|1HBM|F Chain F, Methyl-Coenzyme M Reductase Enzyme Product Complex
 pdb|1HBN|C Chain C, Methyl-Coenzyme M Reductase
 pdb|1HBN|F Chain F, Methyl-Coenzyme M Reductase
 pdb|1HBO|C Chain C, Methyl-Coenzyme M Reductase Mcr-Red1-Silent
 pdb|1HBO|F Chain F, Methyl-Coenzyme M Reductase Mcr-Red1-Silent
 pdb|1HBU|C Chain C, Methyl-Coenzyme M Reductase In The Mcr-Red1-Silent State
           In Complex With Coenzyme M
 pdb|1HBU|F Chain F, Methyl-Coenzyme M Reductase In The Mcr-Red1-Silent State
           In Complex With Coenzyme M
 pdb|3M1V|C Chain C, Structural Insight Into Methyl-Coenzyme M Reductase
           Chemistry Using Coenzyme B Analogues
 pdb|3M1V|F Chain F, Structural Insight Into Methyl-Coenzyme M Reductase
           Chemistry Using Coenzyme B Analogues
 pdb|3M2R|C Chain C, Structural Insight Into Methyl-Coenzyme M Reductase
           Chemistry Using Coenzyme B Analogues
 pdb|3M2R|F Chain F, Structural Insight Into Methyl-Coenzyme M Reductase
           Chemistry Using Coenzyme B Analogues
 pdb|3M2U|C Chain C, Structural Insight Into Methyl-Coenzyme M Reductase
           Chemistry Using Coenzyme B Analogues
 pdb|3M2U|F Chain F, Structural Insight Into Methyl-Coenzyme M Reductase
           Chemistry Using Coenzyme B Analogues
 pdb|3M2V|C Chain C, Structural Insight Into Methyl-Coenzyme M Reductase
           Chemistry Using Coenzyme B Analogues
 pdb|3M2V|F Chain F, Structural Insight Into Methyl-Coenzyme M Reductase
           Chemistry Using Coenzyme B Analogues
 pdb|3M30|C Chain C, Structural Insight Into Methyl-Coenzyme M Reductase
           Chemistry Using Coenzyme B Analogues
 pdb|3M30|F Chain F, Structural Insight Into Methyl-Coenzyme M Reductase
           Chemistry Using Coenzyme B Analogues
 pdb|3M32|C Chain C, Structural Insight Into Methyl-Coenzyme M Reductase
           Chemistry Using Coenzyme B Analogues
 pdb|3M32|F Chain F, Structural Insight Into Methyl-Coenzyme M Reductase
           Chemistry Using Coenzyme B Analogues
          Length = 248

 Score = 28.9 bits (63), Expect = 7.9,   Method: Compositional matrix adjust.
 Identities = 22/84 (26%), Positives = 36/84 (42%), Gaps = 14/84 (16%)

Query: 218 KSSQGQQDSCTRTTELHKGDNVDGVQGSSTNLGACQGPVMPAEEHPNMAFKHSNGVSHDP 277
           K +Q +++ C    EL K   +     S  ++    G   P EE+P++         H P
Sbjct: 9   KVAQNRRNFCNPEYELEKLREI-----SDEDVVKILGHRAPGEEYPSV---------HPP 54

Query: 278 AHELDKPENQCRERPTSADTSSQG 301
             E+D+PE+  RE     D +  G
Sbjct: 55  LEEMDEPEDAIREMVEPIDGAKAG 78


  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    0.374 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,808,714
Number of Sequences: 62578
Number of extensions: 567442
Number of successful extensions: 690
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 673
Number of HSP's gapped (non-prelim): 24
length of query: 565
length of database: 14,973,337
effective HSP length: 104
effective length of query: 461
effective length of database: 8,465,225
effective search space: 3902468725
effective search space used: 3902468725
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: 54 (25.4 bits)