› 5cuz

X-ray diffraction
2.31Å resolution

Crystal structure of SeMet-substituted N-terminal truncated human B12-chaperone CblD (108-296)

Released:
DOI: 10.2210/pdb5cuz/pdb
PDB entry 5cuz coloured by chain, front view.
PDB entry 5cuz coloured by chain, side view.
PDB entry 5cuz coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structure of Human B12 Trafficking Protein CblD Reveals Molecular Mimicry and Identifies a New Subfamily of Nitro-FMN Reductases.
Yamada K, Gherasim C, Banerjee R, Koutmos M
J Biol Chem 290 29155-66 (2015)
PMID: 26364851

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-190580 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Cobalamin trafficking protein CblD Chain: A
Molecule details ›
Chain: A
Length: 192 amino acids
Theoretical weight: 22.07 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q9H3L0 (Residues: 108-296; Coverage: 64%)
Gene names: C2orf25, CL25022, HSPC161, MMADHC, My011
Sequence domains: Methylmalonic aciduria and homocystinuria type D protein

Ligands and Environments

No bound ligands
1 modified residue:
Ligand MSE 5 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 23-ID-B
Spacegroup: I222
Unit cell:
a: 65.341Å b: 66.226Å c: 71.885Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.211 0.208 0.263
Expression system: Escherichia coli BL21

Quick links

Citations

6 review citations

Influences of the Gut Microbiota on DNA Methylation and Histone Modification.
Ye et al. (2017)
5 more

1 mention without citation

Structure of Human B12 Trafficking Protein CblD Reveals Molecular Mimicry and Identifies a New Subfamily of Nitro-FMN Reductases.
Yamada et al. (2015)