Crystal structure of an arabidopsis WD40 domain in complex with a transcription factor

Structure

x-ray diffraction · 2 distinct chains · 4% helix, 48% strand (DSSP).

Ligands and binding sites

• ACE · Acetyl group · ligand · chains A, B
• SO4 · Sulfate ion · ion · 2 copies · chains A
• GOL · Glycerol · additive · 3 copies · chains A

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

Pockets

1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Interfaces

1 interface between chains.

• A–B · 672 Ų buried · 8 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 modified, 1 covalent (oxidation, covalent ligand).

Compared structures

• 6QTO · Crystal structure of an Arabidopsis WD40 domain in complex with a transcription factor · the same entry in another collection · chain A against A, TM-score 1.00
• P43254 · AlphaFold monomer V2.0 prediction for E3 ubiquitin-protein ligase COP1 (P43254) · a predicted model of the same protein · chain A against A, TM-score 0.98
• O24646 · AlphaFold monomer V2.0 prediction for transcription factor HY5 (O24646) · a predicted model of the same protein · chain B against A, TM-score 0.42

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 P43254
• Every structure of UniProt O24646
• Elsewhere: RCSB PDB 6QTO · PDBe 6QTO · UniProt P43254 · UniProt O24646