PXD024946

PXD024946 is an original dataset announced via ProteomeXchange.

Title	TRIM72 cross-linked by the higher-order assembly on the negatively charged liposome surface
Description	Plasma membrane repair is a rapid cellular response for resealing of membrane for cell survival. In the early step of repair process, TRIM72 is known to a key initiator for facilitating patch membrane to the damaged membrane site. When acute membrane injury happens, TRIM72 is also known to sensitively generate disulfide bonds formations by reactive oxygen species and further oligomerize with each other. We tried to clarify this repair system using in vitro reconstruction of TRIM72-liposome complex and find critical sites using cross-linker mass spectrometry. Using each four different length of sulfhydryl reactive cross-linkers, TRIM72 cross-linked with each other on the negatively charged liposome surface only. We also identified that the cross-linking bridges were highly conserved except bismaleimidoethane as a shortest arm length about 8 Å only. Our results indicated that the B2-box/B2-box locates closely with each other on the liposome surface. Furthermore, freely open RING domain is rearranged into the specific conformation, where located near the H2 helix of coiled coil domain. It suggests that the conformational changes of TRIM72 are induced by higher order assembly on the negative charged membrane surface.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:25:20.957.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Sehwan Jang
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2021-03-23 03:41:36	ID requested
1	2024-01-26 05:57:32	announced
⏵ 2	2024-10-22 06:25:25	announced	2024-10-22: Updated project metadata.

10.1038/s41594-023-01111-7;

Park SH, Han J, Jeong BC, Song JH, Jang SH, Jeong H, Kim BH, Ko YG, Park ZY, Lee KE, Hyun J, Song HK, Structure and activation of the RING E3 ubiquitin ligase TRIM72 on the membrane. Nat Struct Mol Biol, 30(11):1695-1706(2023) [pubmed]

submitter keyword: CX-MS, TRIM72, LC-MS/MS

Hyun Kyu Song
contact affiliation	Department of Life Sciences, Korea University, Seoul 02841, Republic of Korea
contact email	hksong@korea.ac.kr
lab head
Sehwan Jang
contact affiliation	School of Life Sciences, Gwangju Institute of Science and Technology, Gwangju, Republic of Korea
contact email	jsh7122@naver.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/2024/01/PXD024946

PRIDE project URI

• PRIDE
  1. PXD024946
     1. Label: PRIDE project
     2. Name: TRIM72 cross-linked by the higher-order assembly on the negatively charged liposome surface