› 4gle

X-ray diffraction
2.7Å resolution

SacUVDE in complex with 6-4PP-containing DNA

Released:
DOI: 10.2210/pdb4gle/pdb
PDB entry 4gle coloured by chain, front view.
PDB entry 4gle coloured by chain, side view.
PDB entry 4gle coloured by chain, top view.
Source organism: Sulfolobus acidocaldarius
Primary publication:
UV damage endonuclease employs a novel dual-dinucleotide flipping mechanism to recognize different DNA lesions.
Meulenbroek EM, Peron Cane C, Jala I, Iwai S, Moolenaar GF, Goosen N, Pannu NS
Nucleic Acids Res 41 1363-71 (2013)
PMID: 23221644

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-117549 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
UV damage endonuclease Chain: A
Molecule details ›
Chain: A
Length: 310 amino acids
Theoretical weight: 35.7 KDa
Source organism: Sulfolobus acidocaldarius
Expression system: Escherichia coli
UniProt:
  • Canonical: Q4J9T1 (Residues: 1-289; Coverage: 100%)
Gene names: Saci_1096, uvdE
Sequence domains: UV-endonuclease UvdE
Structure domains: Divalent-metal-dependent TIM barrel enzymes
5'-D(*CP*GP*TP*CP*GP*TP*CP*AP*AP*GP*GP*AP*CP*GP*C)-3' Chain: B
Molecule details ›
Chain: B
Length: 15 nucleotides
Theoretical weight: 4.59 KDa
Source organism: Sulfolobus acidocaldarius
Expression system: Not provided
5'-D(*GP*CP*GP*TP*CP*CP*(64T)P*(5PY)P*GP*AP*CP*GP*AP*CP*G)-3' Chain: C
Molecule details ›
Chain: C
Length: 15 nucleotides
Theoretical weight: 4.59 KDa
Source organism: Sulfolobus acidocaldarius
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand SO4 2 x SO4
2 modified residues:
Ligand 64T 1 x 64T
Ligand 5PY 1 x 5PY

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-1
Spacegroup: C2221
Unit cell:
a: 57.2Å b: 112.51Å c: 153.85Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.195 0.191 0.262
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

3 review citations

The cutting edges in DNA repair, licensing, and fidelity: DNA and RNA repair nucleases sculpt DNA to measure twice, cut once.
Tsutakawa et al. (2014)
2 more

2 mentions without citation

UV damage endonuclease employs a novel dual-dinucleotide flipping mechanism to recognize different DNA lesions.
Meulenbroek et al. (2013)
1 more