5jh5

X-ray diffraction
2.55Å resolution

Structural Basis for the Hierarchical Assembly of the Core of PRC1.1

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
PDBe Complex ID:
PDB-CPX-159040 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
Lysine-specific demethylase 2B Chain: A
Molecule details ›
Chain: A
Length: 281 amino acids
Theoretical weight: 32.49 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8NHM5 (Residues: 1059-1336; Coverage: 21%)
  • Best match: Q8NHM5-3 (Residues: 1047-1326)
Gene names: CXXC2, FBL10, FBXL10, JHDM1B, KDM2B, NDY1, PCCX2
Sequence domains: F-box-like
S-phase kinase-associated protein 1 Chain: B
Molecule details ›
Chain: B
Length: 162 amino acids
Theoretical weight: 18.69 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P63208 (Residues: 2-163; Coverage: 99%)
Gene names: EMC19, OCP2, SKP1, SKP1A, TCEB1L
Sequence domains:
Structure domains: Potassium Channel Kv1.1; Chain A
Polycomb group RING finger protein 1 Chain: C
Molecule details ›
Chain: C
Length: 109 amino acids
Theoretical weight: 13.21 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9BSM1 (Residues: 150-255; Coverage: 41%)
Gene names: NSPC1, PCGF1, RNF68
Sequence domains: RAWUL domain RING finger- and WD40-associated ubiquitin-like
Structure domains: Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1
BCL-6 corepressor-like protein 1 Chain: D
Molecule details ›
Chain: D
Length: 122 amino acids
Theoretical weight: 14.16 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q5H9F3 (Residues: 1668-1785; Coverage: 7%)
Gene name: BCORL1
Sequence domains: BCORL-PCGF1-binding domain

Ligands and Environments

No bound ligands
1 modified residue:

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 4.2.2
Spacegroup: P212121
Unit cell:
a: 70.049Å b: 73.796Å c: 123.014Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.211 0.206 0.257
Expression system: Escherichia coli