› 4q0z

X-ray diffraction
2.4Å resolution

The catalytic core of Rad2 in complex with DNA substrate (complex III)

Released:
DOI: 10.2210/pdb4q0z/pdb
PDB entry 4q0z coloured by chain, front view.
PDB entry 4q0z coloured by chain, side view.
PDB entry 4q0z coloured by chain, top view.
Source organism: Saccharomyces cerevisiae S288C
Primary publication:
Crystal structure of the catalytic core of Rad2: insights into the mechanism of substrate binding.
Miętus M, Nowak E, Jaciuk M, Kustosz P, Studnicka J, Nowotny M
Nucleic Acids Res 42 10762-75 (2014)
PMID: 25120270

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-118001 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
DNA repair protein RAD2 Chains: A, B, E, F
Molecule details ›
Chains: A, B, E, F
Length: 365 amino acids
Theoretical weight: 42.19 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P07276 (Residues: 2-986; Coverage: 35%)
Gene names: RAD2, YGR258C
Sequence domains:
DNA (5'-D(*TP*GP*CP*TP*CP*CP*CP*TP*TP*GP*TP*CP*TP*CP*AP*GP*T)-3') Chains: C, G
Molecule details ›
Chains: C, G
Length: 17 nucleotides
Theoretical weight: 5.12 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Not provided
DNA (5'-D(*TP*CP*TP*GP*AP*GP*AP*CP*AP*AP*GP*GP*GP*AP*GP*CP*T)-3') Chains: D, H
Molecule details ›
Chains: D, H
Length: 17 nucleotides
Theoretical weight: 5.28 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand CA 4 x CA
Ligand K 4 x K
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: BESSY BEAMLINE 14.2
Spacegroup: P21
Unit cell:
a: 110.278Å b: 86.039Å c: 134.44Å
α: 90° β: 110.95° γ: 90°
R-values:
R R work R free
0.181 0.178 0.236
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

5 review citations

XPA: A key scaffold for human nucleotide excision repair.
Sugitani et al. (2016)
4 more

2 mentions without citation

Exploring NS3/4A, NS5A and NS5B proteins to design conserved subunit multi-epitope vaccine against HCV utilizing immunoinformatics approaches.
Ikram et al. (2018)
1 more