8WG5

Cryo-EM structure of USP16 bound to H2AK119Ub nucleosome

Exp. Method EM
Resolution, Å 3.05
Release Date 2023-12-27
Update Date 2023-12-27
Authors Ai, H.S., He, Z.Z., Deng, Z.H., Liu, L.
Publication PMID:
doi
RCSB PDB 8WG5
EMDB EMD-37503
Q-score 0.306
Core histones in Nucleosome-like particles:
Side Chain HistoneDB Variant Taxa UID
H3 Proximal E canonical H3 Homo sapiens P68431
Distal A canonical H3 Homo sapiens P68431
H4 Proximal F canonical H4 Homo sapiens P62805
Distal B canonical H4 Homo sapiens P62805
H2A Proximal G canonical H2A Homo sapiens P04908
Distal C canonical H2A Homo sapiens P04908
H2B Proximal H canonical H2B Homo sapiens O60814
Distal D canonical H2B Homo sapiens O60814
Other proteins:
Chain Name UID
M Ubiquitin carboxyl-terminal hydrolase 16 Q9Y5T5
U Ubiquitin B P0CG47
DNA:
Chain Variant Length
I 601 147
J 601 147

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.