› 8vll

X-ray diffraction
1.67Å resolution

Crystal structure of the yeast cytosine deaminase (yCD) M100W mutant

Released:
DOI: 10.2210/pdb8vll/pdb
PDB entry 8vll coloured by chain, front view.
PDB entry 8vll coloured by chain, side view.
PDB entry 8vll coloured by chain, top view.
Source organism: Saccharomyces cerevisiae
Primary publication:
Compensatory mutations potentiate constructive neutral evolution by gene duplication.
Després PC, Dubé AK, Picard MÈ, Grenier J, Shi R, Landry CR
Science 385 770-775 (2024)
PMID: 39146405

Function and Biology Details

Reaction catalysed: 
Cytosine + H(2)O = uracil + NH(3)
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-171310 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Cytosine deaminase Chains: A, B
Molecule details ›
Chains: A, B
Length: 161 amino acids
Theoretical weight: 17.87 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: Q12178 (Residues: 1-158; Coverage: 100%)
Gene names: FCY1, YP9499.17, YPR062W
Sequence domains: Cytidine and deoxycytidylate deaminase zinc-binding region

Ligands and Environments

3 bound ligands:
Ligand ZN 2 x ZN
Ligand PO4 1 x PO4
Ligand EDO 8 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: CLSI BEAMLINE 08ID-1
Spacegroup: P212121
Unit cell:
a: 46.839Å b: 73.07Å c: 92.82Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.159 0.158 0.179
Expression system: Escherichia coli

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