› 6mde

X-ray diffraction
2.1Å resolution

Mevalonate kinase from Methanosarcina mazei with mevalonate bound

Released:
DOI: 10.2210/pdb6mde/pdb
PDB entry 6mde coloured by chain, front view.
PDB entry 6mde coloured by chain, side view.
PDB entry 6mde coloured by chain, top view.
Source organism: Methanosarcina mazei
Primary publication:
Structural insight into substrate and product binding in an archaeal mevalonate kinase.
Miller BR, Kung Y
PLoS One 13 e0208419 (2018)
PMID: 30521590

Function and Biology Details

Reaction catalysed: 
ATP + (R)-mevalonate = ADP + (R)-5-phosphomevalonate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-185813 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Mevalonate kinase Chains: A, B
Molecule details ›
Chains: A, B
Length: 303 amino acids
Theoretical weight: 31.64 KDa
Source organism: Methanosarcina mazei
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8PW39 (Residues: 1-301; Coverage: 100%)
Gene names: MM_1762, mvk
Sequence domains:
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand MEV 2 x MEV
Ligand K 2 x K
Ligand GOL 14 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-E
Spacegroup: P212121
Unit cell:
a: 54.05Å b: 59.33Å c: 191.1Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.198 0.196 0.25
Expression system: Escherichia coli

Quick links

Citations

2 mentions without citation

Uncovering the chemistry of C-C bond formation in C-nucleoside biosynthesis: crystal structure of a C-glycoside synthase/PRPP complex.
Gao et al. (2020)
1 more