<<< Full experiment listing

PXD029840

PXD029840 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleStructure of transcription preinitiation complex engaged with the +1 nucleosome
DescriptionThe 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.
HostingRepositoryPRIDE
AnnounceDate2023-11-14
AnnouncementXMLSubmission_2023-11-14_08:39:07.207.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterMomchil Ninov
SpeciesList scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationListacetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
InstrumentQ Exactive HF
Dataset History
RevisionDatetimeStatusChangeLog Entry
02021-11-20 09:18:05ID requested
12023-03-11 00:15:42announced
22023-11-14 08:39:09announced2023-11-14: Updated project metadata.
Publication List
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]
Keyword List
submitter keyword: +1 nucleosome,transcription, preinitiation complex, TFIIH
Contact List
Henning Urlaub
contact affiliationProf. 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 emailhenning.urlaub@mpibpc.mpg.de
lab head
Momchil Ninov
contact affiliationMax Planck Institute for Biophysical Chemistry, Bioanalytical Mass Spectrometry (Göttingen) and University Medical Center, Bioanalytics - Institute for Clinical Chemistry (Göttingen)
contact emailmomchil.ninov@mpibpc.mpg.de
dataset submitter
Full Dataset Link List
Dataset FTP location
NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2023/03/PXD029840
PRIDE project URI
Repository Record List
[ + ]