› 6c4l

X-ray diffraction
2Å resolution

Yersinopine dehydrogenase (YpODH) - Apo

Released:
DOI: 10.2210/pdb6c4l/pdb
PDB entry 6c4l coloured by chain, front view.
PDB entry 6c4l coloured by chain, side view.
PDB entry 6c4l coloured by chain, top view.
Source organism: Yersinia pestis
Primary publication:
Staphylopine, pseudopaline, and yersinopine dehydrogenases: A structural and kinetic analysis of a new functional class of opine dehydrogenase.
McFarlane JS, Davis CL, Lamb AL
J Biol Chem 293 8009-8019 (2018)
PMID: 29618515

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-183997 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Yersinopine synthase Chain: C
Molecule details ›
Chain: C
Length: 474 amino acids
Theoretical weight: 53.12 KDa
Source organism: Yersinia pestis
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8CKU7 (Residues: 1-456; Coverage: 100%)
Gene names: YP_1249, y2835
Sequence domains: Staphylopine dehydrogenase

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL9-2
Spacegroup: C2221
Unit cell:
a: 97.902Å b: 124.125Å c: 87.981Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.202 0.2 0.245
Expression system: Escherichia coli

Quick links

Citations

4 review citations

Heavy Metal Removal by Bioaccumulation Using Genetically Engineered Microorganisms.
Diep et al. (2018)
3 more

1 mention without citation

Staphylopine, pseudopaline, and yersinopine dehydrogenases: A structural and kinetic analysis of a new functional class of opine dehydrogenase.
McFarlane et al. (2018)