› 5vnb

X-ray diffraction
2.4Å resolution

YEATS in complex with histone H3

Released:
DOI: 10.2210/pdb5vnb/pdb
PDB entry 5vnb coloured by chain, front view.
PDB entry 5vnb coloured by chain, side view.
PDB entry 5vnb coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
GAS41 Recognizes Diacetylated Histone H3 through a Bivalent Binding Mode.
Cho HJ, Li H, Linhares BM, Kim E, Ndoj J, Miao H, Grembecka J, Cierpicki T
ACS Chem Biol 13 2739-2746 (2018)
PMID: 30071723

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
monomeric (preferred)
hetero dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-131952 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
YEATS domain-containing protein 4 Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 148 amino acids
Theoretical weight: 17.33 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O95619 (Residues: 1-148; Coverage: 65%)
Gene names: GAS41, YEATS4
Sequence domains: YEATS family
Histone H3.1 Chain: K
Molecule details ›
Chain: K
Length: 10 amino acids
Theoretical weight: 1.09 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: P68431 (Residues: 22-31; Coverage: 7%)
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

2 bound ligands:
Ligand EDO 7 x EDO
Ligand SO4 5 x SO4
1 modified residue:
Ligand ALY 2 x ALY

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 21-ID-F
Spacegroup: P212121
Unit cell:
a: 70.79Å b: 80.305Å c: 121.663Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.189 0.186 0.248
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

10 review citations

The histone variant H2A.Z in gene regulation.
Giaimo et al. (2019)
9 more

2 mentions without citation

GAS41 Recognizes Diacetylated Histone H3 through a Bivalent Binding Mode.
Cho et al. (2018)
1 more