4R8P

Crystal structure of the Ring1B/Bmi1/UbcH5c PRC1 ubiquitylation module bound to the nucleosome core particle

Exp. Method X-ray
Resolution, Å 3.2846
Release Date 2014-11-05
Update Date 2023-09-20
Authors McGinty, R.K., Henrici, R.C., Tan, S.
Publication PMID: 25355358
doi 10.1038/nature13890
RCSB PDB 4R8P
Core histones in Nucleosome-like particles:
Side Chain HistoneDB Variant Taxa UID
H3 Proximal A canonical H3 Xenopus laevis P84233
Distal E canonical H3 Xenopus laevis P84233
H4 Proximal B canonical H4 Xenopus laevis P62799
Distal F canonical H4 Xenopus laevis P62799
H2A Proximal C canonical H2A Xenopus laevis P06897
Distal G canonical H2A Xenopus laevis P06897
H2B Proximal D canonical H2B Xenopus laevis P02281
Distal H canonical H2B Xenopus laevis P02281
Other proteins:
Chain Name UID
K Polycomb complex protein BMI-1 P35226
L E3 ubiquitin-protein ligase RING2, Ubiquitin-conjugating enzyme E2 D3 Q99496
M Polycomb complex protein BMI-1 P35226
N E3 ubiquitin-protein ligase RING2, Ubiquitin-conjugating enzyme E2 D3 Q99496
DNA:
Chain Variant Length
I 601 144
J 601 145

H3

H4

H2A

H2B

DNA

Other


Aligned nucleosome coordinates

Nucleosome reference frame definition

DNA relative twist and local base step parameters

Sequence on X-axis is numbered relative to the dyad base pair.

Atomic contacts between nucleosomal entities.


Hover the mouse cursor on the barplot to show contact information. Oncogenic mutations of non-histone proteins in contact are highlighted.