› 1q3u

X-ray diffraction
2.9Å resolution

Crystal structure of a wild-type Cre recombinase-loxP synapse: pre-cleavage complex

Released:
DOI: 10.2210/pdb1q3u/pdb
PDB entry 1q3u coloured by chain, front view.
PDB entry 1q3u coloured by chain, side view.
PDB entry 1q3u coloured by chain, top view.
Source organism: Punavirus P1
Primary publication:
Crystal structure of a wild-type Cre recombinase-loxP synapse reveals a novel spacer conformation suggesting an alternative mechanism for DNA cleavage activation.
Ennifar E, Meyer JE, Buchholz F, Stewart AF, Suck D
Nucleic Acids Res 31 5449-60 (2003)
PMID: 12954782

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero octamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-114421 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Recombinase cre Chains: A, B, E, F
Molecule details ›
Chains: A, B, E, F
Length: 347 amino acids
Theoretical weight: 39.07 KDa
Source organism: Escherichia virus P1
Expression system: Escherichia coli
UniProt:
  • Canonical: P06956 (Residues: 1-343; Coverage: 100%)
Gene name: cre
Sequence domains: Phage integrase family
Structure domains:
loxP DNA Chains: C, G
Molecule details ›
Chains: C, G
Length: 37 nucleotides
Theoretical weight: 11.36 KDa
Source organism: Punavirus P1
Expression system: Not provided
loxP DNA Chains: D, H
Molecule details ›
Chains: D, H
Length: 37 nucleotides
Theoretical weight: 11.39 KDa
Source organism: Punavirus P1
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand IOD 2 x IOD
Ligand MG 10 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID29
Spacegroup: P212121
Unit cell:
a: 107.991Å b: 161.064Å c: 196.003Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.223 0.223 0.244
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

1 review citation

Mechanisms of site-specific recombination.
Grindley et al. (2006)
30 other articles

7 mentions without citation

Transposase-DNA Complex Structures Reveal Mechanisms for Conjugative Transposition of Antibiotic Resistance.
Rubio-Cosials et al. (2018)
6 more