Research workbench

Crystal structure of an NCOR1BBD2-BCL6BTB chimera in complex with the NCOR1 BBD1 corepressor peptide

Analyse Crystal structure of an NCOR1BBD2-BCL6BTB chimera in complex with the NCOR1… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6ZBU
Type: protein
Length: 883 residues
Chains: 12
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Nuclear receptor corepressor 1,B-cell lymphoma 6 protein; Nuclear receptor corepressor 1
UniProt: O75376, P41182
Ligands: SO4
Pockets: 11 · best druggability 0.73

Structure

x-ray diffraction · 7 distinct chains · 47% helix, 19% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Nuclear receptor corepressor 1,B-cell lymphoma 6 protein	protein	133	51% helix, 17% strand	O75376, P41182
B	Nuclear receptor corepressor 1,B-cell lymphoma 6 protein	protein	134	49% helix, 19% strand	O75376, P41182
C, G, K	Nuclear receptor corepressor 1	protein	15	0% helix, 27% strand	O75376
D, L, H	Nuclear receptor corepressor 1	protein	16	0% helix, 25% strand	O75376
E, I	Nuclear receptor corepressor 1,B-cell lymphoma 6 protein	protein	130	48% helix, 18% strand	O75376, P41182
F	Nuclear receptor corepressor 1,B-cell lymphoma 6 protein	protein	131	50% helix, 19% strand	O75376, P41182
J	Nuclear receptor corepressor 1,B-cell lymphoma 6 protein	protein	132	46% helix, 17% strand	O75376, P41182

Ligands and binding sites

SO4 · Sulfate ion · ion · 28 copies · chains A, B, C, D, E, H, F, I, G, L, J, K
GOL · Glycerol · additive · 4 copies · chains A, B, C, D, I

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1101	0.73	0.77	74	SO4
2	130	0.48	0.78	16	empty
3	80	0.39	0.78	15	empty
4	101	0.39	0.76	17	empty
5	68	0.39	0.78	17	empty

Interfaces

23 interfaces between chains.

A–B · 2460 Å² buried · 32 hydrogen bonds · protein-protein
I–J · 2338 Å² buried · 36 hydrogen bonds · protein-protein
E–F · 2337 Å² buried · 30 hydrogen bonds · protein-protein
A–D · 871 Å² buried · 15 hydrogen bonds · protein-protein
E–H · 868 Å² buried · 16 hydrogen bonds · protein-protein

Compared structures

6ZBU · Crystal structure of an NCoR1BBD2-BCL6BTB chimera in complex with the NcoR1 BBD1… · the same entry in another collection · chain D against D, 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 O75376
Every structure of UniProt P41182
Elsewhere: RCSB PDB 6ZBU · PDBe 6ZBU · UniProt O75376 · UniProt P41182

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