› 4yt5

X-ray diffraction
1.9Å resolution

HmdII from Methanocaldococcus jannaschii with bound methylene-tetrahydromethanopterin

Released:
DOI: 10.2210/pdb4yt5/pdb
Model geometry
Fit model/data
PDB entry 4yt5 coloured by chain, front view.
PDB entry 4yt5 coloured by chain, side view.
PDB entry 4yt5 coloured by chain, top view.
Source organism: Methanocaldococcus jannaschii DSM 2661
Primary publication:
Towards a functional identification of catalytically inactive [Fe]-hydrogenase paralogs.
Fujishiro T, Ataka K, Ermler U, Shima S
FEBS J 282 3412-23 (2015)
PMID: 26094576

Function and Biology Details

Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-176685 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
H(2)-forming methylenetetrahydromethanopterin dehydrogenase-related protein MJ1338 Chains: A, B
Molecule details ›
Chains: A, B
Length: 375 amino acids
Theoretical weight: 41.18 KDa
Source organism: Methanocaldococcus jannaschii DSM 2661
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q58734 (Residues: 1-353; Coverage: 100%)
Gene name: MJ1338
Sequence domains:
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand PGE 1 x PGE
Ligand H4M 2 x H4M
1 modified residue:
Ligand MSE 22 x MSE

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: SLS BEAMLINE X10SA
Spacegroup: P212121
Unit cell:
a: 53Å b: 78.03Å c: 153.92Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.182 0.18 0.209
Expression system: Escherichia coli BL21(DE3)

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Citations

1 review citation

Heterologous Hydrogenase Overproduction Systems for Biotechnology-An Overview.
Fan et al. (2020)

1 mention without citation

Towards a functional identification of catalytically inactive [Fe]-hydrogenase paralogs.
Fujishiro et al. (2015)