EMD-16337

Single-particle
3.2 Å
EMD-16337 Deposition: 14/12/2022
Map released: 03/05/2023
Last modified: 14/06/2023
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links

EMD-16337

Proximal +1 nucleosome focused map

EMD-16337

Single-particle
3.2 Å
EMD-16337 Deposition: 14/12/2022
Map released: 03/05/2023
Last modified: 14/06/2023
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Sample Organism: Xenopus laevis, unidentified adenovirus
Sample: RNA polymerase II core pre-initiation complex with the proximal +1 nucleosome

Deposition Authors: Abril-Garrido J, Dienemann C, Grabbe F, Velychko T, Lidschreiber M, Wang H , Cramer P
Structural basis of transcription reduction by a promoter-proximal +1 nucleosome.
Abril-Garrido J, Dienemann C, Grabbe F, Velychko T, Lidschreiber M, Wang H , Cramer P
(2023) Mol Cell , 83 , 1798 - 1809.e7
PUBMED: 37148879
DOI: doi:10.1016/j.molcel.2023.04.011
ISSN: 1097-2765
ASTM: MOCEFL
Abstract:
At active human genes, the +1 nucleosome is located downstream of the RNA polymerase II (RNA Pol II) pre-initiation complex (PIC). However, at inactive genes, the +1 nucleosome is found further upstream, at a promoter-proximal location. Here, we establish a model system to show that a promoter-proximal +1 nucleosome can reduce RNA synthesis in vivo and in vitro, and we analyze its structural basis. We find that the PIC assembles normally when the edge of the +1 nucleosome is located 18 base pairs (bp) downstream of the transcription start site (TSS). However, when the nucleosome edge is located further upstream, only 10 bp downstream of the TSS, the PIC adopts an inhibited state. The transcription factor IIH (TFIIH) shows a closed conformation and its subunit XPB contacts DNA with only one of its two ATPase lobes, inconsistent with DNA opening. These results provide a mechanism for nucleosome-dependent regulation of transcription initiation.