› 3paw

X-ray diffraction
6.61Å resolution

Low resolution X-ray crystal structure of Yeast Rnr1p with dATP bound in the A-site

Released:
DOI: 10.2210/pdb3paw/pdb
PDB entry 3paw coloured by chain, front view.
PDB entry 3paw coloured by chain, side view.
PDB entry 3paw coloured by chain, top view.
Source organism: Saccharomyces cerevisiae
Primary publication:
Structural basis for allosteric regulation of human ribonucleotide reductase by nucleotide-induced oligomerization.
Fairman JW, Wijerathna SR, Ahmad MF, Xu H, Nakano R, Jha S, Prendergast J, Welin RM, Flodin S, Roos A, Nordlund P, Li Z, Walz T, Dealwis CG
Nat Struct Mol Biol 18 316-22 (2011)
PMID: 21336276

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-149283 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ribonucleoside-diphosphate reductase large chain 1 Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
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:

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 14-ID-B
Spacegroup: P63
Unit cell:
a: 166.509Å b: 166.509Å c: 381.697Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.393 0.391 0.442
Expression system: Escherichia coli

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Citations

23 review citations

DNA building blocks: keeping control of manufacture.
Hofer et al. (2012)
22 more

6 mentions without citation

Inhibitors of the Cancer Target Ribonucleotide Reductase, Past and Present.
Huff et al. (2022)
5 more