MolNFT v1 · #58939 · protein

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

3BIM · B-cell lymphoma 6 protein: “Crystal structure of the BCL6 btb domain dimer in complex with the bcor bbd corepressor peptide”. X-ray diffraction, 9 pockets (best druggability 0.79). MolNFT v1 #58939 on GenesisL1: 3D structure…

PDB: 3BIM
Type: protein
Length: 1,121 residues
Chains: 16
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: B-cell lymphoma 6 protein; BCL-6 corepressor
UniProt: P41182, Q6W2J9
Pockets: 9 · best druggability 0.79

Structure

x-ray diffraction · 8 distinct chains · 47% helix, 17% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, C	B-cell lymphoma 6 protein	protein	125	50% helix, 17% strand	P41182
I, J, K, M, O, P	BCL-6 corepressor	protein	17	0% helix, 24% strand	Q6W2J9
B, D	B-cell lymphoma 6 protein	protein	124	48% helix, 18% strand	P41182
L, N	BCL-6 corepressor	protein	16	0% helix, 25% strand	Q6W2J9
E	B-cell lymphoma 6 protein	protein	123	47% helix, 16% strand	P41182
F	B-cell lymphoma 6 protein	protein	122	50% helix, 16% strand	P41182
G	B-cell lymphoma 6 protein	protein	122	51% helix, 17% strand	P41182
H	B-cell lymphoma 6 protein	protein	122	49% helix, 17% strand	P41182

Pockets

9 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1190	0.79	0.81	85	empty
2	192	0.58	0.80	30	empty
3	245	0.55	0.77	27	empty
4	222	0.54	0.78	28	empty
5	228	0.52	0.76	30	empty

Interfaces

33 interfaces between chains.

A–B · 2066 Å² buried · 28 hydrogen bonds · protein-protein
C–D · 2046 Å² buried · 27 hydrogen bonds · protein-protein
E–F · 1965 Å² buried · 30 hydrogen bonds · protein-protein
G–H · 1936 Å² buried · 30 hydrogen bonds · protein-protein
I–B · 712 Å² buried · 15 hydrogen bonds · protein-protein

Compared structures

3BIM · Crystal structure of the BCL6 BTB domain dimer in complex with the BCOR BBD corepressor… · the same entry in another collection · chain F against F, TM-score 1.00

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 Q6W2J9
Elsewhere: RCSB PDB 3BIM · PDBe 3BIM · UniProt P41182 · UniProt Q6W2J9

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.