Crystal structure of the BCL6 btb domain in complex with the NCOR1 bbd corepressor peptide

Structure

x-ray diffraction · 4 distinct chains · 44% helix, 19% strand (DSSP).

Ligands and binding sites

• NA · Sodium ion · metal · 2 copies · chains A, B
• EDO · 1,2-ethanediol · additive · chains A, B

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

Pockets

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

Interfaces

5 interfaces between chains.

• A–B · 1753 Ų buried · 27 hydrogen bonds · protein-protein
• A–C · 819 Ų buried · 18 hydrogen bonds · protein-protein
• B–D · 787 Ų buried · 15 hydrogen bonds · protein-protein
• B–C · 411 Ų buried · 3 hydrogen bonds · protein-protein
• A–D · 407 Ų buried · 3 hydrogen bonds · protein-protein

Compared structures

• 6XYX · Crystal structure of the BCL6 BTB domain in complex with the NCoR1 BBD corepressor peptide · the same entry in another collection · chain C against C, TM-score 1.00
• P41182 · AlphaFold monomer V2.0 prediction for B-cell lymphoma 6 protein (P41182) · a predicted model of the same protein · chain B against A, TM-score 0.31
• O75376 · AlphaFold monomer V2.0 prediction for nuclear receptor corepressor 1 (O75376) · a predicted model of the same protein · chain D 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 P41182
• Every structure of UniProt O75376
• Elsewhere: RCSB PDB 6XYX · PDBe 6XYX · UniProt P41182 · UniProt O75376