9EH2

RNA polymerase II-DSIF-SPT6-PAF1c-TFIIS-IWS1-SETD2-FACT nucleosome upstream

Exp. Method EM
Resolution, Å 3.1
Release Date 2024-12-18
Update Date 2025-02-12
Authors Markert, J.W., Soffers, J.H., Farnung, L.
doi 10.1126/science.adn6319
Publication PMID: 39666822
Related structures
RCSB PDB 9EH2
EMDB EMD-48044
Q-score 0.252
Core histones in Nucleosome-like particles:
Side Chain HistoneDB Variant Taxa UID
H3 Proximal e canonical H3 Xenopus laevis A0A310TTQ1
Distal a canonical H3 Xenopus laevis A0A310TTQ1
H4 Proximal f canonical H4 Xenopus laevis P62799
Distal b canonical H4 Xenopus laevis P62799
H2A Proximal g canonical H2A Xenopus laevis P06897
H2B Proximal h canonical H2B Xenopus laevis P02281
Other proteins:
Chain Name UID
A DNA-directed RNA polymerase subunit A0A7M4DUC2
B DNA-directed RNA polymerase subunit beta A0A0B8RVL1
C DNA-directed RNA polymerase II subunit RPB3 I3LCH3
D RNA polymerase Rpb4/RPC9 core domain-containing protein A0A8D0KES4
E DNA-directed RNA polymerase II subunit E I3LSI7
F DNA-directed RNA polymerases I, II, and III subunit RPABC2 A0A4X1VEK9
G DNA-directed RNA polymerase II subunit RPB7 A0A4X1VKG7
H DNA-directed RNA polymerases I, II, and III subunit RPABC3 A0A8D1AQR7
I DNA-directed RNA polymerase II subunit RPB9 P60899
J DNA-directed RNA polymerases I, II, and III subunit RPABC5 A0A8W4F9W9
K RNA polymerase II subunit J A0A8D0TE17
L RNA polymerase II subunit K A0A4X1TRS6
M Transcription elongation factor SPT6 Q7KZ85
O Protein IWS1 homolog Q96ST2
Q RNA polymerase-associated protein CTR9 homolog Q6PD62
R RNA polymerase-associated protein RTF1 homolog Q92541
S Transcription elongation factor A protein 1 P23193
U RNA polymerase-associated protein LEO1 Q8WVC0
V RNA polymerase II-associated factor 1 homolog Q8N7H5
W WDR61 Q9GZS3
X Parafibromin Q6P1J9
Y Transcription elongation factor SPT4 P63272
Z Transcription elongation factor SPT5 O00267
l Histone-lysine N-methyltransferase SETD2 Q9BYW2
x FACT complex subunit SPT16 Q9Y5B9
y FACT complex subunit SSRP1 Q08945
DNA:
Chain Variant Length
N 601_modified 54
T None 65

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.