› 1e6v

X-ray diffraction
2.7Å resolution

Methyl-coenzyme M reductase from Methanopyrus kandleri

Released:
DOI: 10.2210/pdb1e6v/pdb
PDB entry 1e6v coloured by chain, front view.
PDB entry 1e6v coloured by chain, side view.
PDB entry 1e6v coloured by chain, top view.
Source organism: Methanopyrus kandleri
Primary publication:
Comparison of three methyl-coenzyme M reductases from phylogenetically distant organisms: unusual amino acid modification, conservation and adaptation.
Grabarse W, Mahlert F, Shima S, Thauer RK, Ermler U
J Mol Biol 303 329-44 (2000)
PMID: 11023796

Function and Biology Details

Reaction catalysed: 
Methyl-CoM + CoB = CoM-S-S-CoB + methane
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-175404 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Methyl-coenzyme M reductase I subunit alpha Chains: A, D
Molecule details ›
Chains: A, D
Length: 553 amino acids
Theoretical weight: 61.4 KDa
Source organism: Methanopyrus kandleri
UniProt:
  • Canonical: Q49605 (Residues: 1-553; Coverage: 100%)
Gene names: MK0655, mcrA
Sequence domains:
Structure domains:
Methyl-coenzyme M reductase subunit beta Chains: B, E
Molecule details ›
Chains: B, E
Length: 443 amino acids
Theoretical weight: 48.21 KDa
Source organism: Methanopyrus kandleri
UniProt:
  • Canonical: Q49601 (Residues: 1-444; Coverage: 100%)
Gene names: HA336_02680, mcrB
Sequence domains:
Structure domains:
Methyl-coenzyme M reductase subunit gamma Chains: C, F
Molecule details ›
Chains: C, F
Length: 258 amino acids
Theoretical weight: 30.11 KDa
Source organism: Methanopyrus kandleri
UniProt:
  • Canonical: Q49604 (Residues: 1-258; Coverage: 100%)
Gene name: mcrG
Sequence domains: Methyl-coenzyme M reductase gamma subunit
Structure domains: Methyl-coenzyme M reductase, gamma subunit

Ligands and Environments


Cofactor: Ligand F43 2 x F43

Cofactor: Ligand COM 2 x COM

Cofactor: Ligand TP7 2 x TP7
No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: EMBL/DESY, HAMBURG BEAMLINE BW7B
Spacegroup: P212121
Unit cell:
a: 80.519Å b: 115.74Å c: 268.51Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.239 0.239 0.278

Quick links

Citations

14 review citations

Nickel uptake and utilization by microorganisms.
Mulrooney et al. (2003)
13 more

9 mentions without citation

A Structural View of Alkyl-Coenzyme M Reductases, the First Step of Alkane Anaerobic Oxidation Catalyzed by Archaea.
Lemaire et al. (2022)
8 more