PXD052015

PXD052015 is an original dataset announced via ProteomeXchange.

Title	Docking a flexible basket onto the core of the nuclear pore complex
Description	The nuclear basket attaches to the nucleoplasmic side of the nuclear pore complex (NPC), coupling transcription to mRNA quality control and export. The basket expands the functional repertoire of a subset of NPCs in S. cerevisiae by drawing a unique RNA/protein interactome. Yet, how the basket docks onto the NPC core remains unknown. By integrating AlphaFold-powered interaction screens, electron microscopy and membrane-templated reconstitution, we uncovered a membrane-anchored tripartite junction between basket and NPC core. The basket subunit Nup60 harbours three adjacent short linear motifs (SLiMs) which connect Mlp1, a parallel homodimer consisting of coiled-coil segments interrupted by flexible hinges, and the Nup85 subunit of the Y-complex. We reconstituted the Y-complex•Nup60•Mlp1 assembly on a synthetic membrane and validated the protein interfaces in vivo. Our study explains how a SLiM-based protein junction can substantially reshape NPC structure and function, advancing our understanding of compositional and conformational NPC heterogeneity.
HostingRepository	PRIDE
AnnounceDate	2024-07-11
AnnouncementXML	Submission_2024-07-11_04:37:55.727.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Markus Hartl
SpeciesList	scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Exploris 480; Q Exactive HF-X

Revision	Datetime	Status	ChangeLog Entry
0	2024-05-06 07:00:05	ID requested
⏵ 1	2024-07-11 04:37:56	announced

Dataset with its publication pending

submitter keyword: Nup153,Nuclear pore complex, Mlp2, nuclear basket, Mlp1, membrane-based reconstitution, Y-complex, AlphaFold screen., nuclear envelope, SLiM, nucleocytoplasmic transport, NPC assembly, Tpr, Nup85, Nup60

Alwin Köhler
contact affiliation	Max Perutz Labs, University of Vienna and Medical University of Vienna, Vienna Biocenter Campus (VBC), Dr. Bohr-Gasse 9/3, 1030 Vienna, Austria
contact email	alwin.koehler@maxperutzlabs.ac.at
lab head
Markus Hartl
contact affiliation	Max Perutz Labs, Mass Spectrometry Facility, Vienna Biocenter Campus (VBC), Dr. Bohr-Gasse 9, Vienna, Austria
contact email	proteomics@maxperutzlabs.ac.at
dataset submitter

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/2024/07/PXD052015

PRIDE project URI

• PRIDE
  1. PXD052015
     1. Label: PRIDE project
     2. Name: Docking a flexible basket onto the core of the nuclear pore complex