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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: 6XXS
Type: protein
Length: 578 residues
Chains: 8
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: B-cell lymphoma 6 protein; Nuclear receptor corepressor 1
UniProt: P41182, O75376
Pockets: 6 · best druggability 0.70

Structure

x-ray diffraction · 6 distinct chains · 46% helix, 17% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	B-cell lymphoma 6 protein	protein	130	48% helix, 17% strand	P41182
B	B-cell lymphoma 6 protein	protein	131	47% helix, 17% strand	P41182
C, G	Nuclear receptor corepressor 1	protein	17	0% helix, 29% strand	O75376
D, H	Nuclear receptor corepressor 1	protein	16	0% helix, 31% strand	O75376
E	B-cell lymphoma 6 protein	protein	122	53% helix, 17% strand	P41182
F	B-cell lymphoma 6 protein	protein	129	50% helix, 16% strand	P41182

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	465	0.70	0.80	43	empty
2	418	0.61	0.77	42	empty
3	102	0.38	0.75	18	empty
4	77	0.32	0.75	19	empty
5	59	0.28	0.74	16	empty

Interfaces

14 interfaces between chains.

A–B · 2354 Å² buried · 34 hydrogen bonds · protein-protein
E–F · 2228 Å² buried · 24 hydrogen bonds · protein-protein
A–D · 867 Å² buried · 16 hydrogen bonds · protein-protein
B–C · 865 Å² buried · 15 hydrogen bonds · protein-protein
G–F · 860 Å² buried · 15 hydrogen bonds · protein-protein

Compared structures

6XXS · Crystal structure of an NCoR1BBD2-BCL6BTB chimera in complex with the NcoR1 BBD1… · the same entry in another collection · chain A against A, 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 E against A, TM-score 0.33

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 6XXS · PDBe 6XXS · UniProt P41182 · UniProt O75376

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