PXD023542-1

PXD023542 is an original dataset announced via ProteomeXchange.

Title	Targeted in situ cross-linking for determination of structure and interactions of SARS-CoV-2 proteins in the cellular context
Description	Discovery of host-pathogen intra-cellular interactions is critical for identification of mechanisms of infection and discovery. Affinity purification based on Mass Spectrometry (AP-MS) approaches can identify the host-pathogen protein-protein interaction network that includes hundreds of cellular proteins. For example, over 330 interactions were identified for SARS-CoV-2 major proteins. However, identification of the critical anchoring interactions directly induced by the viral proteins is still challenging. Here we developed a complete workflow of in-situ XL-MS followed by AP-MS, and employ it to investigate SARS-CoV2 protein inside the host cell. We focused on three Sars-Cov-2 proteins for which the structural information is either missing or incomplete: NSP1, NSP2, and the Nucleocapsid protein (N protein). AP-MS revealed that several human proteins were co-eluting with NSP1 and NSP2 while protein N eluted alone.
HostingRepository	PRIDE
AnnounceDate	2022-02-19
AnnouncementXML	Submission_2022-02-19_11:08:52.101.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Moriya Slavin
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2021-01-12 03:15:29	ID requested
⏵ 1	2022-02-19 11:08:52	announced
2	2023-11-14 08:51:57	announced	2023-11-14: Updated project metadata.

10.1073/PNAS.2103554118;

ProteomeXchange project tag: Covid-19

submitter keyword: LC-MSMS, AP-MS, Strep-tag, Mass-Spectrometry, HEK293, SARS-CoV-2, Nsp1, Nsp2, Nucleocapsid protein

Nir Kalisman
contact affiliation	Dept. of Biological Chemistry, Institute of Life Sciences, The Hebrew University of Jerusalem, Jerusalem, Israel
contact email	nirka@mail.huji.ac.il
lab head
Moriya Slavin
contact affiliation	Biochemistry department in the Hebrew University
contact email	moriya.slavin@mail.huji.ac.il
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/2021/10/PXD023542

PRIDE project URI

• PRIDE
  1. PXD023542
     1. Label: PRIDE project
     2. Name: Targeted in situ cross-linking for determination of structure and interactions of SARS-CoV-2 proteins in the cellular context