› 2eud

X-ray diffraction
2.3Å resolution

Structures of Yeast Ribonucleotide Reductase I complexed with Ligands and Subunit Peptides

Released:
DOI: 10.2210/pdb2eud/pdb
PDB entry 2eud coloured by chain, front view.
PDB entry 2eud coloured by chain, side view.
PDB entry 2eud coloured by chain, top view.
Source organism: Saccharomyces cerevisiae
Primary publication:
Structures of eukaryotic ribonucleotide reductase I define gemcitabine diphosphate binding and subunit assembly.
Xu H, Faber C, Uchiki T, Racca J, Dealwis C
Proc Natl Acad Sci U S A 103 4028-33 (2006)
PMID: 16537480

Function and Biology Details

Reaction catalysed: 
2'-deoxyribonucleoside diphosphate + thioredoxin disulfide + H(2)O = ribonucleoside diphosphate + thioredoxin
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-539802 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ribonucleoside-diphosphate reductase large chain 1 Chain: A
Molecule details ›
Chain: A
Length: 888 amino acids
Theoretical weight: 99.67 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: P21524 (Residues: 1-888; Coverage: 100%)
Gene names: CRT7, RIR1, RNR1, SDS12, YER070W
Sequence domains:
Structure domains: Anaerobic Ribonucleotide-triphosphate Reductase Large Chain

Ligands and Environments

3 bound ligands:
Ligand MG 1 x MG
Ligand ANP 1 x ANP
Ligand GCQ 1 x GCQ
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RUH3R
Spacegroup: P21212
Unit cell:
a: 107.578Å b: 117.216Å c: 63.99Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.21 0.204 0.24
Expression system: Escherichia coli

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Citations

8 review citations

The resurgence of covalent drugs.
Singh et al. (2011)
7 more

3 mentions without citation

Structures of eukaryotic ribonucleotide reductase I define gemcitabine diphosphate binding and subunit assembly.
Xu et al. (2006)
2 more