› 4pso

X-ray diffraction
2.9Å resolution

Crystal structure of apeThermo-DBP-RP2 bound to ssDNA dT10

Released:
DOI: 10.2210/pdb4pso/pdb
PDB entry 4pso coloured by chain, front view.
PDB entry 4pso coloured by chain, side view.
PDB entry 4pso coloured by chain, top view.
Source organism: Aeropyrum pernix K1
Primary publication:
Entrapment of DNA in an intersubunit tunnel system of a single-stranded DNA-binding protein.
Ghalei H, von Moeller H, Eppers D, Sohmen D, Wilson DN, Loll B, Wahl MC
Nucleic Acids Res 42 6698-708 (2014)
PMID: 24744237

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-117983 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
Thermo-DBP-RP2-like C-terminal domain-containing protein Chains: A, B, C, D, F, G, H, I
Molecule details ›
Chains: A, B, C, D, F, G, H, I
Length: 237 amino acids
Theoretical weight: 26.63 KDa
Source organism: Aeropyrum pernix K1
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9YAS7 (Residues: 2-234; Coverage: 100%)
Gene name: APE_1866.1
Sequence domains:
polydeoxyribonucleotide Chains: E, L, X, Z
Molecule details ›
Chains: E, L, X, Z
Length: 10 nucleotides
Theoretical weight: 3 KDa
Source organism: Aeropyrum pernix K1
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand PO4 1 x PO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: BESSY BEAMLINE 14.2
Spacegroup: P212121
Unit cell:
a: 120.488Å b: 190.277Å c: 89.786Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.269 0.267 0.309
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

1 review citation

Single-Stranded DNA-Binding Proteins in the Archaea.
Taib et al. (2021)
8 other articles

3 mentions without citation

Structure of Csd3 from Helicobacter pylori, a cell shape-determining metallopeptidase.
An et al. (2015)
2 more