› 5jfy

X-ray diffraction
2.1Å resolution

Crystal structure of a plant cytidine deaminase

Released:
DOI: 10.2210/pdb5jfy/pdb
PDB entry 5jfy coloured by chain, front view.
PDB entry 5jfy coloured by chain, side view.
PDB entry 5jfy coloured by chain, top view.
Source organism: Brassica oleracea var. capitata
Entry authors: Taylor MW, Lee JE

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-124746 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
CMP/dCMP-type deaminase domain-containing protein Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 139 amino acids
Theoretical weight: 14.87 KDa
Source organism: Brassica oleracea var. capitata
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: H2EMX8 (Residues: 19-153; Coverage: 73%)
Sequence domains: Cytidine and deoxycytidylate deaminase zinc-binding region

Ligands and Environments

5 bound ligands:
Ligand CL 4 x CL
Ligand ZN 4 x ZN
Ligand ACT 4 x ACT
Ligand HEZ 2 x HEZ
Ligand GOL 3 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: CLSI BEAMLINE 08ID-1
Spacegroup: P43212
Unit cell:
a: 99.808Å b: 99.808Å c: 143.061Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.182 0.181 0.214
Expression system: Escherichia coli BL21(DE3)

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