› 2vpe

X-ray diffraction
1.7Å resolution

Decoding of methylated histone H3 tail by the Pygo-BCL9 Wnt signaling complex

Released:
DOI: 10.2210/pdb2vpe/pdb
PDB entry 2vpe coloured by chain, front view.
PDB entry 2vpe coloured by chain, side view.
PDB entry 2vpe coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Decoding of methylated histone H3 tail by the Pygo-BCL9 Wnt signaling complex.
Fiedler M, Sánchez-Barrena MJ, Nekrasov M, Mieszczanek J, Rybin V, Müller J, Evans P, Bienz M
Mol Cell 30 507-18 (2008)
PMID: 18498752

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-126330 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Pygopus homolog 1 Chains: A, C
Molecule details ›
Chains: A, C
Length: 63 amino acids
Theoretical weight: 6.76 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q9Y3Y4 (Residues: 340-398; Coverage: 14%)
Gene name: PYGO1
Sequence domains: PHD-finger
Structure domains: Zinc/RING finger domain, C3HC4 (zinc finger)
B-cell CLL/lymphoma 9 protein Chains: B, D
Molecule details ›
Chains: B, D
Length: 32 amino acids
Theoretical weight: 3.44 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: O00512 (Residues: 176-205; Coverage: 2%)
Gene name: BCL9
HISTONE H3 TAIL Chains: P, R
Molecule details ›
Chains: P, R
Length: 7 amino acids
Theoretical weight: 804 Da
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand GOL 1 x GOL
Ligand ZN 4 x ZN
1 modified residue:
Ligand MLY 2 x MLY

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I03
Spacegroup: P4212
Unit cell:
a: 105.72Å b: 105.72Å c: 51.43Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.195 0.193 0.23
Expression systems:
  • Escherichia coli BL21
  • Not provided

Quick links

Citations

37 review citations

Wnt/beta-catenin signaling: components, mechanisms, and diseases.
MacDonald et al. (2009)
36 more

6 mentions without citation

Readout of epigenetic modifications.
Patel et al. (2013)
5 more