6I84

Structure of transcribing RNA polymerase II-nucleosome complex

Exp. Method EM
Resolution, Å 4.4
Release Date 2019-01-02
Update Date 2019-12-18
Authors Farnung, L., Vos, S.M., Cramer, P.
Publication PMID: 30575770
doi 10.1038/s41467-018-07870-y
RCSB PDB 6I84
EMDB EMD-4429
Q-score 0.241
Core histones in Nucleosome-like particles:
Side Chain HistoneDB Variant Taxa UID
H3 Proximal M canonical H3 Xenopus laevis P84233
Distal S canonical H3 Xenopus laevis P84233
H4 Proximal O canonical H4 Xenopus laevis P62799
Distal U canonical H4 Xenopus laevis P62799
H2A Proximal Q canonical H2A Xenopus laevis P06897
Distal V canonical H2A Xenopus laevis P06897
H2B Proximal R canonical H2B Xenopus laevis P02281
Distal W canonical H2B Xenopus laevis P02281
Other proteins:
Chain Name UID
A DNA-directed RNA polymerase II subunit RPB1 P04050
B DNA-directed RNA polymerase II subunit RPB2 P08518
C DNA-directed RNA polymerase II subunit RPB3 P16370
D DNA-directed RNA polymerase II subunit RPB4 P20433
E DNA-directed RNA polymerases I, II, and III subunit RPABC1 P20434
F DNA-directed RNA polymerases I, II, and III subunit RPABC2 P20435
G DNA-directed RNA polymerase II subunit RPB7 P34087
H DNA-directed RNA polymerases I, II, and III subunit RPABC3 P20436
I DNA-directed RNA polymerase II subunit RPB9 P27999
J DNA-directed RNA polymerases I, II, and III subunit RPABC5 P22139
K DNA-directed RNA polymerase II subunit RPB11 P38902
L DNA-directed RNA polymerases I, II, and III subunit RPABC4 P40422
DNA:
Chain Variant Length
N 601 158
T 601 169

H3

H4

H2A

H2B

DNA

Other


Chain Bfactor Q-score Local Resolution

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.