PXD029840

PXD029840 is an original dataset announced via ProteomeXchange.

Title	Structure of transcription preinitiation complex engaged with the +1 nucleosome
Description	The preinitiation complex (PIC) assembles on promoters of protein-coding genes to position RNA polymerase II (Pol II) for transcription initiation. Previous structural studies revealed the PIC on different promoters, but did not address how the PIC assembles in chromatin. In the yeast Saccharomyces cerevisiae, PIC assembly occurs adjacent to the +1 nucleosome that is positioned downstream of the core promoter. Here we present the cryo-EM structure of the yeast PIC bound to promoter DNA and the +1 nucleosome at a resolution of 3.4–3.9 Å. The general transcription factor TFIIH forms four contacts with the nucleosome, indicating how PIC assembly can be assisted by the +1 nucleosome. The TFIIH subunit Ssl2 (XPB in human TFIIH) forms a wedge between promoter DNA and the nucleosome, stabilizing two turns of DNA that are detached from the nucleosome. During subsequent scanning for the transcription start site (TSS), three additional turns of DNA can be detached before the partially unraveled nucleosome may counteract further scanning, explaining why TSSs are located at a distance of ~60 bp from the dyad of the +1 nucleosome in yeast.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:39:07.207.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Momchil Ninov
SpeciesList	scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2021-11-20 09:18:05	ID requested
1	2023-03-11 00:15:42	announced
⏵ 2	2023-11-14 08:39:09	announced	2023-11-14: Updated project metadata.

Wang H, Schilbach S, Ninov M, Urlaub H, Cramer P, Structures of transcription preinitiation complex engaged with the +1 nucleosome. Nat Struct Mol Biol, 30(2):226-232(2023) [pubmed]

submitter keyword: +1 nucleosome,transcription, preinitiation complex, TFIIH

Henning Urlaub
contact affiliation	Prof. Dr. Henning Urlaub Max-Planck-Institute for Biophysical Chemistry Bioanalytical Mass Spectrometry Group Am Fassberg 11 D-37077 Goettingen, Germany ************************************************ University Medical Center Goettingen Bioanalytics Institute for Clinical Chemistry Robert Koch Strasse 40 D-37075 Goettingen, Germany
contact email	henning.urlaub@mpibpc.mpg.de
lab head
Momchil Ninov
contact affiliation	Max Planck Institute for Biophysical Chemistry, Bioanalytical Mass Spectrometry (Göttingen) and University Medical Center, Bioanalytics - Institute for Clinical Chemistry (Göttingen)
contact email	momchil.ninov@mpibpc.mpg.de
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD029840
     1. Label: PRIDE project
     2. Name: Structure of transcription preinitiation complex engaged with the +1 nucleosome