7ZSA

Yeast RNA polymerase II transcription pre-initiation complex with the +1 nucleosome and NTP (complex B)

Exp. Method EM
Resolution, Å 4
Release Date 2022-11-16
Update Date 2023-03-01
Authors Wang, H., Schilbach, S., Ninov, M., Urlaub, H., Cramer, P.
Publication PMID: 36411341
doi 10.1038/s41594-022-00865-w
RCSB PDB 7ZSA
EMDB EMD-14928
Q-score 0.342
Core histones in Nucleosome-like particles:
Side Chain HistoneDB Variant Taxa UID
H3 Proximal a canonical H3 Xenopus laevis P84233
Distal e canonical H3 Xenopus laevis P84233
H4 Proximal b canonical H4 Xenopus laevis P62799
Distal f canonical H4 Xenopus laevis P62799
H2A Proximal c canonical H2A Xenopus laevis P06897
Distal g canonical H2A Xenopus laevis P06897
H2B Proximal d canonical H2B Xenopus laevis P02281
Distal h canonical H2B Xenopus laevis P02281
Other proteins:
Chain Name UID
0 General transcription and DNA repair factor IIH helicase subunit XPD P06839
1 General transcription and DNA repair factor IIH subunit TFB1 P32776
2 General transcription and DNA repair factor IIH subunit TFB2 Q02939
3 RNA polymerase II transcription factor B subunit 3 Q03290
4 General transcription and DNA repair factor IIH subunit TFB4 Q12004
5 General transcription and DNA repair factor IIH subunit TFB5 Q3E7C1
6 General transcription and DNA repair factor IIH subunit SSL1 Q04673
7 General transcription and DNA repair factor IIH helicase subunit XPB Q00578
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
M Transcription initiation factor IIB P29055
O TATA-box-binding protein P13393
Q Transcription initiation factor IIF subunit alpha P41895
R Transcription initiation factor IIF subunit beta P41896
U Transcription initiation factor IIA large subunit P32773
V Transcription initiation factor IIA subunit 2 P32774
W Transcription initiation factor IIE subunit alpha P36100
X Transcription initiation factor IIE subunit beta P36145
DNA:
Chain Variant Length
N 601 209
T 601 209

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.