› 5tbn

Solution NMR

Solution NMR structure of PHF20 PHD domain in complex with a histone H3K4me2 peptide

Released:
DOI: 10.2210/pdb5tbn/pdb
PDB entry 5tbn coloured by chain, ensemble of 20 models, front view.
PDB entry 5tbn coloured by chain, ensemble of 20 models, side view.
PDB entry 5tbn coloured by chain, ensemble of 20 models, top view.
Source organism: Homo sapiens
Primary publication:
PHF20 Readers Link Methylation of Histone H3K4 and p53 with H4K16 Acetylation.
Klein BJ, Wang X, Cui G, Yuan C, Botuyan MV, Lin K, Lu Y, Wang X, Zhao Y, Bruns CJ, Mer G, Shi X, Kutateladze TG
Cell Rep 17 1158-1170 (2016)
PMID: 27760318

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-159441 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
PHD finger protein 20 Chain: A
Molecule details ›
Chain: A
Length: 57 amino acids
Theoretical weight: 6.83 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9BVI0 (Residues: 646-699; Coverage: 5%)
Gene names: C20orf104, GLEA2, HCA58, NZF, PHF20, TZP
Sequence domains: PhD finger domain
Structure domains: Zinc/RING finger domain, C3HC4 (zinc finger)
Histone H3.1 Chain: C
Molecule details ›
Chain: C
Length: 12 amino acids
Theoretical weight: 1.28 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: P68431 (Residues: 2-12; Coverage: 8%)
Gene names: H3C1, H3C10, H3C11, H3C12, H3C2, H3C3, H3C4, H3C6, H3C7, H3C8, H3FA, H3FB, H3FC HIST1H3C, H3FD, H3FF, H3FH, H3FI, H3FJ, H3FK, H3FL, HIST1H3A, HIST1H3B, HIST1H3D, HIST1H3E, HIST1H3F, HIST1H3G, HIST1H3H, HIST1H3I, HIST1H3J

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
Chemical shift assignment: 91%
Refinement method: simulated annealing
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

6 review citations

The language of chromatin modification in human cancers.
Zhao et al. (2021)
5 more

3 mentions without citation

PHF20 Readers Link Methylation of Histone H3K4 and p53 with H4K16 Acetylation.
Klein et al. (2016)
2 more