› 5dac

X-ray diffraction
2.5Å resolution

ATP-gamma-S bound Rad50 from Chaetomium thermophilum in complex with DNA

Released:
DOI: 10.2210/pdb5dac/pdb
PDB entry 5dac coloured by chain, front view.
PDB entry 5dac coloured by chain, side view.
PDB entry 5dac coloured by chain, top view.
Source organism: Thermochaetoides thermophila DSM 1495
Primary publication:
Structural mechanism of ATP-dependent DNA binding and DNA end bridging by eukaryotic Rad50.
Seifert FU, Lammens K, Stoehr G, Kessler B, Hopfner KP
EMBO J 35 759-72 (2016)
PMID: 26896444

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-118549 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
DNA repair protein RAD50 Chains: A, B
Molecule details ›
Chains: A, B
Length: 449 amino acids
Theoretical weight: 50.36 KDa
Source organism: Thermochaetoides thermophila DSM 1495
Expression system: Escherichia coli
UniProt:
  • Canonical: G0SHW7 (Residues: 1-224, 233-1315; Coverage: 34%)
Gene names: CTHT_0073630, RAD50
Sequence domains:
DNA (5'-D(P*CP*CP*CP*CP*CP*CP*CP*CP*CP*CP*CP*CP*CP*CP*C)-3') Chain: C
Molecule details ›
Chain: C
Length: 15 nucleotides
Theoretical weight: 4.29 KDa
DNA (5'-D(P*GP*GP*GP*GP*GP*GP*GP*GP*GP*GP*GP*GP*GP*GP*G)-3') Chain: D
Molecule details ›
Chain: D
Length: 15 nucleotides
Theoretical weight: 4.89 KDa

Ligands and Environments

3 bound ligands:
Ligand MG 2 x MG
Ligand AGS 2 x AGS
Ligand AES 2 x AES
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06SA
Spacegroup: P212121
Unit cell:
a: 92.312Å b: 97.078Å c: 115.012Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.212 0.21 0.246
Expression system: Escherichia coli

Quick links

Citations

19 review citations

The MRE11-RAD50-NBS1 Complex Conducts the Orchestration of Damage Signaling and Outcomes to Stress in DNA Replication and Repair.
Syed et al. (2018)
18 more

10 mentions without citation

Functional and structural insights into the MRX/MRN complex, a key player in recognition and repair of DNA double-strand breaks.
Tisi et al. (2020)
9 more