Crystal structure of the human PYGO2 phd finger in complex with the B9L HD1 domain

Structure

x-ray diffraction · 2 distinct chains · 38% helix, 15% strand (DSSP).

Ligands and binding sites

• ZN · Zinc ion · metal · 4 copies · chains A, C
• GOL · Glycerol · additive · 2 copies · chains A, C
• PEG · Di(hydroxyethyl)ether · additive · chains C

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Interfaces

1 interface between chains.

• A–C · 376 Ų buried · 5 hydrogen bonds · protein-protein

Compared structures

• 2XB1 · Crystal structure of the human Pygo2 PHD finger in complex with the B9L HD1 domain · the same entry in another collection · chain A against A, TM-score 1.00
• Q9BRQ0 · AlphaFold monomer V2.0 prediction for pygopus homolog 2 (Q9BRQ0) · a predicted model of the same protein · chain C against A, TM-score 0.65
• Q86UU0 · AlphaFold monomer V2.0 prediction for B-cell CLL/LYMPHOMA 9-like protein (Q86UU0) · a predicted model of the same protein · chain C against A, TM-score 0.25

Analyse

• Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
• Every structure of UniProt Q9BRQ0
• Every structure of UniProt Q86UU0
• Elsewhere: RCSB PDB 2XB1 · PDBe 2XB1 · UniProt Q9BRQ0 · UniProt Q86UU0