6VEN

Yeast COMPASS in complex with a ubiquitinated nucleosome

Exp. Method EM
Resolution, Å 3.37
Release Date 2020-01-15
Update Date 2020-01-22
Authors Worden, E.J., Zhang, X., Wolberger, C.
Publication PMID: 31922488
doi 10.7554/eLife.53199
RCSB PDB 6VEN
EMDB EMD-21157
Q-score 0.449
Core histones in Nucleosome-like particles:
Side Chain HistoneDB Variant Taxa UID
H3 Proximal E canonical H3 Xenopus laevis P84233
Distal A canonical H3 Xenopus laevis P84233
H4 Proximal F canonical H4 Xenopus laevis P62799
Distal B canonical H4 Xenopus laevis P62799
H2A Proximal G canonical H2A Xenopus laevis P06897
Distal C canonical H2A Xenopus laevis P06897
H2B Proximal H canonical H2B Xenopus laevis P02281
Distal D canonical H2B Xenopus laevis P02281
Other proteins:
Chain Name UID
K Ubiquitin P0CG48
L COMPASS component SWD3 P38123
M COMPASS component SWD1 P39706
N Histone-lysine N-methyltransferase, H3 lysine-4 specific P38827
O COMPASS component BRE2 P43132
P COMPASS component SDC1 Q03323
Q COMPASS component SDC1 Q03323
R COMPASS component SPP1 Q03012
DNA:
Chain Variant Length
I 601 146
J 601 146

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.