› 3gp8

X-ray diffraction
2.5Å resolution

Crystal structure of the binary complex of RecD2 with DNA

Released:
DOI: 10.2210/pdb3gp8/pdb
PDB entry 3gp8 coloured by chain, front view.
PDB entry 3gp8 coloured by chain, side view.
PDB entry 3gp8 coloured by chain, top view.
Source organism: Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539
Primary publication:
Mechanistic basis of 5'-3' translocation in SF1B helicases.
Saikrishnan K, Powell B, Cook NJ, Webb MR, Wigley DB
Cell 137 849-59 (2009)
PMID: 19490894

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-116321 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
ATP-dependent RecD2 DNA helicase Chain: A
Molecule details ›
Chain: A
Length: 574 amino acids
Theoretical weight: 61.47 KDa
Source organism: Deinococcus radiodurans R1
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9RT63 (Residues: 151-715; Coverage: 79%)
Gene names: DR_1902, recD2
Sequence domains:
Structure domains:
5'-D(*TP*TP*TP*TP*TP*T*TP*TP*TP*TP*TP*TP*TP*T)-3' Chain: X
Molecule details ›
Chain: X
Length: 14 nucleotides
Theoretical weight: 4.21 KDa
Source organism: Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539
Expression system: Not provided

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-007
Spacegroup: P212121
Unit cell:
a: 54.14Å b: 90.32Å c: 142.18Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.23 0.228 0.268
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

21 review citations

SF1 and SF2 helicases: family matters.
Fairman-Williams et al. (2010)
20 more

4 mentions without citation

Structural basis for the regulatory function of a complex zinc-binding domain in a replicative arterivirus helicase resembling a nonsense-mediated mRNA decay helicase.
Deng et al. (2014)
3 more