Research workbench

Histone fold heterodimer of the chromatin accessibility complex

Analyse Histone fold heterodimer of the chromatin accessibility complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2BYK
Type: protein
Length: 319 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Chrac-16; Chrac-14
UniProt: Q9V452, Q9V444
Ligands: SO4
Pockets: 2 · best druggability 0.66

Structure

x-ray diffraction · 4 distinct chains · 65% helix, 3% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Chrac-16	protein	72	54% helix, 3% strand	Q9V452
B	Chrac-14	protein	89	70% helix, 2% strand	Q9V444
C	Chrac-16	protein	66	65% helix, 3% strand	Q9V452
D	Chrac-14	protein	92	68% helix, 2% strand	Q9V444

Ligands and binding sites

SO4 · Sulfate ion · ion · 3 copies · chains A, B, C, D

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

Pockets

2 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	291	0.66	0.82	46	empty
2	290	0.57	0.77	42	empty

Interfaces

6 interfaces between chains.

C–D · 1845 Å² buried · 9 hydrogen bonds · protein-protein
A–B · 1762 Å² buried · 9 hydrogen bonds · protein-protein
A–C · 525 Å² buried · 8 hydrogen bonds · protein-protein
B–D · 447 Å² buried · 3 hydrogen bonds · protein-protein
A–D · 426 Å² buried · 0 hydrogen bonds · protein-protein

Compared structures

2BYK · Histone fold heterodimer of the Chromatin Accessibility Complex · the same entry in another collection · chain D against D, TM-score 1.00
Q9V444 · AlphaFold monomer V2.0 prediction for DNA polymerase epsilon subunit 3 (Q9V444) · a predicted model of the same protein · chain B against A, TM-score 0.98
Q9V452 · AlphaFold monomer V2.0 prediction for chromatin accessibility complex 16KD protein… · a predicted model of the same protein · chain C against A, TM-score 0.89

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 Q9V452
Every structure of UniProt Q9V444
Elsewhere: RCSB PDB 2BYK · PDBe 2BYK · UniProt Q9V452 · UniProt Q9V444

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