› 3lgb

X-ray diffraction
1.54Å resolution

Crystal Structure of the Fe-S Domain of the yeast DNA primase

Released:
DOI: 10.2210/pdb3lgb/pdb
PDB entry 3lgb coloured by chain, front view.
PDB entry 3lgb coloured by chain, side view.
PDB entry 3lgb coloured by chain, top view.
Source organism: Saccharomyces cerevisiae
Primary publication:
Shared active site architecture between the large subunit of eukaryotic primase and DNA photolyase.
Sauguet L, Klinge S, Perera RL, Maman JD, Pellegrini L
PLoS One 5 e10083 (2010)
PMID: 20404922

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-148983 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
DNA primase large subunit Chains: A, B
Molecule details ›
Chains: A, B
Length: 194 amino acids
Theoretical weight: 22.94 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: P20457 (Residues: 317-512; Coverage: 37%)
Gene names: PRI2, YKL045W, YKL258
Sequence domains: Eukaryotic and archaeal DNA primase, large subunit

Ligands and Environments

4 bound ligands:
Ligand SF4 2 x SF4
Ligand EPE 2 x EPE
Ligand ZN 2 x ZN
Ligand GOL 1 x GOL
1 modified residue:
Ligand MSE 10 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06DA
Spacegroup: P61
Unit cell:
a: 86.57Å b: 86.57Å c: 141.48Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.155 0.154 0.164
Expression system: Escherichia coli

Quick links

Citations

5 review citations

The cryptochromes: blue light photoreceptors in plants and animals.
Chaves et al. (2011)
4 more

9 mentions without citation

Crystal structure of a prokaryotic (6-4) photolyase with an Fe-S cluster and a 6,7-dimethyl-8-ribityllumazine antenna chromophore.
Zhang et al. (2013)
8 more