6VZ4

Cryo-EM structure of Sth1-Arp7-Arp9-Rtt102 bound to the nucleosome in ADP Beryllium Fluoride state

Exp. Method EM
Resolution, Å 3.9
Release Date 2020-12-02
Update Date 2024-03-06
Authors Baker, R.W., Reimer, J.M., Carman, P.J., Turegun, B., Arakawa, T., Dominguez, R., Leschziner, A.E.
Publication PMID: 33288924
doi 10.1038/s41594-020-00528-8
RCSB PDB 6VZ4
EMDB EMD-21484
Core histones in Nucleosome-like particles:
Side Chain HistoneDB Variant Taxa UID
H3 Proximal E canonical H3 Xenopus laevis Q92133
Distal A canonical H3 Xenopus laevis Q92133
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 Nuclear protein STH1/NPS1 P32597
L Actin-related protein 7 Q12406
M Actin-like protein ARP9 Q05123
N Regulator of Ty1 transposition protein 102 P53330
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.