› 5yps

X-ray diffraction
2.1Å resolution

The structural basis of histone chaperoneVps75

Released:
DOI: 10.2210/pdb5yps/pdb
PDB entry 5yps coloured by chain, front view.
PDB entry 5yps coloured by chain, side view.
PDB entry 5yps coloured by chain, top view.
Source organism: Pneumocystis carinii B80
Primary publication:
Structural basis for the acetylation of histone H3K9 and H3K27 mediated by the histone chaperone Vps75 in Pneumocystis carinii.
Chen Y, Zhang Y, Ye H, Dou Y, Lu D, Li X, Limper AH, Han J, Su D
OpenAccess logo Signal Transduct Target Ther 4 14
PMID: 31098304

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-494902 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Vacuolar protein sorting-associated protein 75 Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 250 amino acids
Theoretical weight: 29.37 KDa
Source organism: Pneumocystis carinii B80
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A0W4ZF97 (Residues: 1-250; Coverage: 100%)
Gene name: T552_02523
Sequence domains: Nucleosome assembly protein (NAP)

Ligands and Environments

5 bound ligands:
Ligand CA 12 x CA
Ligand 1PE 19 x 1PE
Ligand PEG 6 x PEG
Ligand GOL 13 x GOL
Ligand PGE 1 x PGE
1 modified residue:
Ligand MSE 18 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL19U1
Spacegroup: P21212
Unit cell:
a: 141.672Å b: 76.404Å c: 130.448Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.188 0.186 0.236
Expression system: Escherichia coli

Quick links

Citations

1 review citation

Structural comparisons reveal diverse binding modes between nucleosome assembly proteins and histones.
Gill et al. (2022)
2 other articles

1 mention without citation

Structural basis for the acetylation of histone H3K9 and H3K27 mediated by the histone chaperone Vps75 in Pneumocystis carinii.
Chen et al. (2019)