› 5hjd

X-ray diffraction
2.81Å resolution

AF9 YEATS in complex with histone H3 Crotonylation at K18

Released:
DOI: 10.2210/pdb5hjd/pdb
PDB entry 5hjd coloured by chain, front view.
PDB entry 5hjd coloured by chain, side view.
PDB entry 5hjd coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Molecular Coupling of Histone Crotonylation and Active Transcription by AF9 YEATS Domain.
Li Y, Sabari BR, Panchenko T, Wen H, Zhao D, Guan H, Wan L, Huang H, Tang Z, Zhao Y, Roeder RG, Shi X, Allis CD, Li H
Mol Cell 62 181-193 (2016)
PMID: 27105114

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero octamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-545062 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Protein AF-9 Chains: A, C, E, G, K, N, Q, T
Molecule details ›
Chains: A, C, E, G, K, N, Q, T
Length: 140 amino acids
Theoretical weight: 16.55 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P42568 (Residues: 1-138; Coverage: 24%)
Gene names: AF9, MLLT3, YEATS3
Sequence domains: YEATS family
Structure domains: YEATS domain
Histone H3.1 Chains: B, D, F, H, I, J, L, M
Molecule details ›
Chains: B, D, F, H, I, J, L, M
Length: 7 amino acids
Theoretical weight: 910 Da
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: P68431 (Residues: 15-21; Coverage: 5%)
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 CU 4 x CU
Ligand SO4 14 x SO4
1 modified residue:
Ligand KCR 8 x KCR

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U
Spacegroup: P21
Unit cell:
a: 91.264Å b: 101.573Å c: 102.076Å
α: 90° β: 103.06° γ: 90°
R-values:
R R work R free
0.243 0.242 0.273
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

60 review citations

Metabolic regulation of gene expression through histone acylations.
Sabari et al. (2017)
59 more

3 mentions without citation

Structure, function and inhibition of critical protein-protein interactions involving mixed lineage leukemia 1 and its fusion oncoproteins.
Li et al. (2021)
2 more