PXD066021-1

PXD066021 is an original dataset announced via ProteomeXchange.

Title	Dataset 3 from 'Atlas of the proteasome interactome by in situ structural biology'
Description	In the hRpn1 pulldown(dataset1 and 2), we identified 2793 unique residue pairs (877 inter-protein) at a 2% residue-pair target-decoy false discovery rate (FDR), with an additional threshold limiting the protein-protein FDR to 5% (Lenz et al., 2021 PMID: 34117231). The hRpn11 pulldown (dataset 3) yielded 3371 unique residue pairs (1847 inter-protein) at the same FDR threshold. When combined, the two datasets included 5364 non-redundant crosslinked residue pairs. This includes 2266 hetero-protein links describing 278 PPIs, with a combined estimated PPI-FDR of 7.3%
HostingRepository	PRIDE
AnnounceDate	2026-07-16
AnnouncementXML	Submission_2026-07-16_11:07:51.669.xml
DigitalObjectIdentifier	https://doi.org/10.6019/PXD066021
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Kitaik Lee
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606;
ModificationList	L-methionine sulfoxide; S-carboxamidoethyl-L-cysteine; deamidated L-asparagine
Instrument	Orbitrap Eclipse

Revision	Datetime	Status	ChangeLog Entry
0	2025-07-10 09:38:35	ID requested
⏵ 1	2026-07-16 11:07:52	announced

10.6019/PXD066021;

10.1016/J.MOLCEL.2026.06.032;

submitter keyword: Crosslinking MS

Francis J.O'Reilly
contact affiliation	Center for Structural Biology, Center for Cancer Research, National Cancer Institute (NCI), National Institutes of Health, Frederick, MD 21702-1201, USA.
contact email	oreillyfj@nih.gov
lab head
Kitaik Lee
contact affiliation	Center of Excellence for Data Driven Discovery, Department of Structural Biology, St Jude Children’s Research Hospital, Memphis, Tennessee 38105, United States
contact email	kitaik.lee@stjude.org
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/2026/07/PXD066021

PRIDE project URI

• PRIDE
  1. PXD066021
     1. Label: PRIDE project
     2. Name: Dataset 3 from 'Atlas of the proteasome interactome by in situ structural biology'