› 2jmj

Solution NMR

NMR solution structure of the PHD domain from the yeast YNG1 protein in complex with H3(1-9)K4me3 peptide

Released:
DOI: 10.2210/pdb2jmj/pdb
PDB entry 2jmj coloured by chain, ensemble of 20 models, front view.
PDB entry 2jmj coloured by chain, ensemble of 20 models, side view.
PDB entry 2jmj coloured by chain, ensemble of 20 models, top view.
Source organisms:
Primary publication:
Yng1 PHD finger binding to H3 trimethylated at K4 promotes NuA3 HAT activity at K14 of H3 and transcription at a subset of targeted ORFs.
Taverna SD, Ilin S, Rogers RS, Tanny JC, Lavender H, Li H, Baker L, Boyle J, Blair LP, Chait BT, Patel DJ, Aitchison JD, Tackett AJ, Allis CD
Mol Cell 24 785-796 (2006)
PMID: 17157260

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-158413 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Protein YNG1 Chain: A
Molecule details ›
Chain: A
Length: 90 amino acids
Theoretical weight: 10.27 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: Q08465 (Residues: 141-219; Coverage: 36%)
Gene names: YNG1, YOR064C, YOR29-15
Structure domains: Zinc/RING finger domain, C3HC4 (zinc finger)
Histone H3 Chain: P
Molecule details ›
Chain: P
Length: 9 amino acids
Theoretical weight: 1.11 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Not provided
UniProt:
  • Canonical: P61830 (Residues: 2-10; Coverage: 7%)
Gene names: HHT1, HHT2, N2749, SIN2, YBR010W, YBR0201, YNL031C

Ligands and Environments

1 bound ligand:
Ligand ZN 2 x ZN
1 modified residue:
Ligand M3L 1 x M3L

Experiments and Validation Details

Entry percentile scores
Refinement method: torsion angle dynamics
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

69 review citations

Regulation of chromatin by histone modifications.
Bannister et al. (2011)
68 more

3 mentions without citation

The PHD finger: a versatile epigenome reader.
Sanchez et al. (2011)
2 more