› 5fdk

X-ray diffraction
3.21Å resolution

Crystal structure of RecU(D88N) in complex with palindromic DNA duplex

Released:
DOI: 10.2210/pdb5fdk/pdb
PDB entry 5fdk coloured by chain, front view.
PDB entry 5fdk coloured by chain, side view.
PDB entry 5fdk coloured by chain, top view.
Source organisms:
Primary publication:
Structural insights into dynamics of RecU-HJ complex formation elucidates key role of NTR and stalk region toward formation of reactive state.
Khavnekar S, Dantu SC, Sedelnikova S, Ayora S, Rafferty J, Kale A
Nucleic Acids Res 45 975-986 (2017)
PMID: 27903910

Function and Biology Details

Reaction catalysed: 
Endonucleolytic cleavage at a junction such as a reciprocal single-stranded crossover between two homologous DNA duplexes (Holliday junction)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-118670 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
Holliday junction resolvase RecU Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 199 amino acids
Theoretical weight: 23.41 KDa
Source organism: Bacillus subtilis
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P39792 (Residues: 1-199; Coverage: 97%)
Gene names: BSU22310, prfA, recU, yppB
Sequence domains: Recombination protein U
Structure domains: Trna Endonuclease; Chain: A, domain 1
palindromic DNA Chains: E, F, G, H
Molecule details ›
Chains: E, F, G, H
Length: 12 nucleotides
Theoretical weight: 3.66 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I02
Spacegroup: R32
Unit cell:
a: 144.447Å b: 144.447Å c: 310.343Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.26 0.256 0.329
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

4 citation in other articles

RecA Regulation by RecU and DprA During Bacillus subtilis Natural Plasmid Transformation.
Serrano et al. (2018)
3 more

1 mention without citation

Structural insights into dynamics of RecU-HJ complex formation elucidates key role of NTR and stalk region toward formation of reactive state.
Khavnekar et al. (2017)