PDBe 5wyi

X-ray diffraction
2Å resolution

The Yaf9 YEATS domain Recognizing H3K122suc Peptide

Released:
Entry authors: Wang Y, Hao Q

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Yaf9 Chain: A
Molecule details ›
Chain: A
Length: 165 amino acids
Theoretical weight: 18.98 KDa
Source organism: Saccharomyces cerevisiae RM11-1a
Expression system: Escherichia coli-Pichia pastoris shuttle vector pPpARG4
UniProt:
  • Canonical: NEW B3LNW5 (Residues: 8-169; Coverage: 72%)
Gene name: SCRG_03242
Sequence domains: YEATS family
Yaf9 Chains: B, C
Molecule details ›
Chains: B, C
Length: 164 amino acids
Theoretical weight: 18.92 KDa
Source organism: Saccharomyces cerevisiae RM11-1a
Expression system: Escherichia coli-Pichia pastoris shuttle vector pPpARG4
UniProt:
  • Canonical: NEW B3LNW5 (Residues: 8-169; Coverage: 72%)
Gene name: SCRG_03242
Sequence domains: YEATS family
Histone H3.1 Chain: E
Molecule details ›
Chain: E
Length: 8 amino acids
Theoretical weight: 958 Da
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: NEW P68431 (Residues: 120-127; Coverage: 6%)
Gene names: H3FA, H3FB, H3FC, H3FD, H3FF, H3FH, H3FI, H3FJ, H3FK, H3FL, HIST1H3A, HIST1H3B, HIST1H3C, HIST1H3D, HIST1H3E, HIST1H3F, HIST1H3G, HIST1H3H, HIST1H3I, HIST1H3J

Ligands and Environments

2 bound ligands:

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U
Spacegroup: P3
Unit cell:
a: 136.932Å b: 136.932Å c: 26.168Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.203 0.201 0.226
Expression systems:
  • Escherichia coli-Pichia pastoris shuttle vector pPpARG4
  • Not provided