› 5nw5

X-ray diffraction
6.5Å resolution

Crystal structure of the Rif1 N-terminal domain (RIF1-NTD) from Saccharomyces cerevisiae in complex with DNA

Released:
DOI: 10.2210/pdb5nw5/pdb
PDB entry 5nw5 coloured by chain, front view.
PDB entry 5nw5 coloured by chain, side view.
PDB entry 5nw5 coloured by chain, top view.
Source organisms:
Primary publication:
Rif1 maintains telomeres and mediates DNA repair by encasing DNA ends.
Mattarocci S, Reinert JK, Bunker RD, Fontana GA, Shi T, Klein D, Cavadini S, Faty M, Shyian M, Hafner L, Shore D, Thomä NH, Rass U
Nat Struct Mol Biol 24 588-595 (2017)
PMID: 28604726

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-119074 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Telomere length regulator protein RIF1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 1226 amino acids
Theoretical weight: 140.78 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P29539 (Residues: 100-1321; Coverage: 64%)
Gene names: RIF1, YBR1743, YBR275C
Sequence domains: Rap1-interacting factor 1 N terminal
DNA (60-MER) Chain: C
Molecule details ›
Chain: C
Length: 30 nucleotides
Theoretical weight: 9.35 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (30-MER) Chain: D
Molecule details ›
Chain: D
Length: 30 nucleotides
Theoretical weight: 9.08 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: SLS BEAMLINE X06DA
Spacegroup: P212121
Unit cell:
a: 92.14Å b: 169.8Å c: 390.16Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.254 0.253 0.276
Expression systems:
  • Trichoplusia ni
  • Not provided

Quick links

Citations

2 review citations

Shepherding DNA ends: Rif1 protects telomeres and chromosome breaks.
Fontana et al. (2018)
1 more

2 mentions without citation

Rif1 regulates telomere length through conserved HEAT repeats.
Shubin et al. (2021)
1 more