PXD036424

PXD036424 is an original dataset announced via ProteomeXchange.

Title	Proteomic identification and structural basis for the interaction between sorting nexin SNX17 and PDLIM family proteins
Description	The sorting nexin SNX17 controls endosome-to-cell surface recycling of diverse transmembrane cargo proteins including integrins, the amyloid precursor protein and lipoprotein receptors. This requires association with the multi-subunit Commander trafficking complex, which depends on the C-terminus of SNX17 through unknown mechanisms. Using affinity enrichment proteomics, we find that a C-terminal peptide of SNX17 is not only sufficient for Commander interaction but also associates with members of the actin-associated PDZ and LIM domain (PDLIM) family. We show that SNX17 contains a type III PSD95/Dlg/Zo1 (PDZ) binding motif (PDZbm) that binds specifically to the PDZ domains of PDLIM family proteins but not to other PDZ domains tested. The structure of the PDLIM7 PDZ domain bound to the SNX17 C-terminus was determined by NMR spectroscopy and reveals an unconventional perpendicular peptide interaction. Mutagenesis confirms the interaction is mediated by specific electrostatic contacts and a uniquely conserved proline-containing loop sequence in the PDLIM protein family. Our results define the mechanism of SNX17-PDLIM interaction and suggest that the PDLIM proteins may play a role in regulating the activity of SNX17 in conjunction with Commander and actin-rich endosomal trafficking domains.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:00:32.970.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	David Stroud
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	carbamoylated residue
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2022-08-31 10:34:01	ID requested
1	2022-11-07 14:56:05	announced
⏵ 2	2023-11-14 08:00:33	announced	2023-11-14: Updated project metadata.

Healy MD, Sacharz J, McNally KE, McConville C, Tillu VA, Hall RJ, Chilton M, Cullen PJ, Mobli M, Ghai R, Stroud DA, Collins BM, Proteomic identification and structural basis for the interaction between sorting nexin SNX17 and PDLIM family proteins. Structure, 30(12):1590-1602.e6(2022) [pubmed]

submitter keyword: endosome, PDZ domain, SNX17,Commander, Retriever, PDLIM

David Stroud
contact affiliation	Department of Biochemistry and Pharmacology, The Bio21 Molecular Science and Biotechnology Institute, The University of Melbourne, Parkville, Victoria, 3052, Australia.
contact email	david.stroud@unimelb.edu.au
lab head
David Stroud
contact affiliation	The University of Melbourne
contact email	david.stroud@unimelb.edu.au
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/2022/11/PXD036424

PRIDE project URI

• PRIDE
  1. PXD036424
     1. Label: PRIDE project
     2. Name: Proteomic identification and structural basis for the interaction between sorting nexin SNX17 and PDLIM family proteins