PXD031997

PXD031997 is an original dataset announced via ProteomeXchange.

Title	Investigating the monomer-dimer transition of PKD1 kinase domain with EDC crosslinking
Description	The project aim was to generate experimental constraints for the in silico modeling of the dimeric structure of the PKD kinase domain. And identify conformational changes upon dimerization. For this we used the heterobifunctional zero length crosslinker EDC to identify salt bridges within the protein and between the molecules in the dimeric arrangement. We could observe a stabilization of the protein in particularly in the activation loop upon dimerization and successfully identified one abundant dimer specific crosslink that helped us to identify contact surfaces in the dimer interface.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:41:07.980.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	WeiQiang Chen
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	Q Exactive HF-X

Revision	Datetime	Status	ChangeLog Entry
0	2022-03-02 02:58:18	ID requested
1	2023-03-11 02:47:52	announced
⏵ 2	2023-11-14 08:41:10	announced	2023-11-14: Updated project metadata.

Reinhardt R, Hirzel K, Link G, Eisler SA, H, ä, gele T, Parson MAH, Burke JE, Hausser A, Leonard TA, . Proc Natl Acad Sci U S A, 120(7):e2212909120(2023) [pubmed]

submitter keyword: Protein kinase D, kinase domain dimer, activation loop ordering

Thomas Leonard
contact affiliation	Department of Structural and Computational Biology, Max Perutz Labs, Campus Vienna Biocenter 5, 1030 Vienna, Austria Department of Medical Biochemistry, Medical University of Vienna, 1090 Vienna, Austria
contact email	thomas.leonard@meduniwien.ac.at
lab head
WeiQiang Chen
contact affiliation	Mass Spectrometry Facility, Max Perutz Laboratories Support GmbH
contact email	chenweiqiang@gmail.com
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/2023/03/PXD031997

PRIDE project URI

• PRIDE
  1. PXD031997
     1. Label: PRIDE project
     2. Name: Investigating the monomer-dimer transition of PKD1 kinase domain with EDC crosslinking