PXD043273

PXD043273 is an original dataset announced via ProteomeXchange.

Title	Exploring the structural landscape of DNA maintenance proteins
Description	Evolutionary annotation of genome maintenance (GM) proteins has conventionally been established by remote relationships within protein sequence databases. However, often no significant relationship can be established. Highly sensitive approaches to attain remote homologies based on iterative profile-to-profile methods have been developed. Still, these methods have not been systematically applied in evolutionary annotation of GM proteins. Here, by applying profile-to-profile models, we systematically survey the repertoire of GM proteins from bacteria to man. We identify multiple new GM protein candidates and annotate new domains in numerous established GM proteins, among other PARP, OB-fold, Macro, SAP, BRCT, KU, SANT, and nuclease domains. We experimentally validate OB-fold and MIS18/Yippee domains in SPIDR and in FAM72 protein families, respectively. Our results indicate that, surprisingly, despite the immense interest and long-term research efforts, the full repertoire of genome stability caretakers is still not fully appreciated.
HostingRepository	PRIDE
AnnounceDate	2024-10-17
AnnouncementXML	Submission_2024-10-17_03:54:00.480.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Kenneth Schou
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2023-06-25 03:48:00	ID requested
⏵ 1	2024-10-17 03:54:01	announced

10.1038/s41467-024-49983-7;

Schou KB, Mandacaru S, Tahir M, Tom N, Nilsson AS, Andersen JS, Tiberti M, Papaleo E, Bartek J, Exploring the structural landscape of DNA maintenance proteins. Nat Commun, 15(1):7748(2024) [pubmed]

ProteomeXchange project tag: Cancer (B/D-HPP), Biology/Disease-Driven Human Proteome Project (B/D-HPP), Human Proteome Project

submitter keyword: DNA damage repair,Protein folding, LC-MS/MS

Jiri Bartek
contact affiliation	Danish Cancer Society The Danish Cancer Society Research Center Copenhagen, Denmark
contact email	jb@cancer.dk
lab head
Kenneth Schou
contact affiliation	The Danish Cancer Society Research Center
contact email	kensch@cancer.dk
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/2024/10/PXD043273

PRIDE project URI

• PRIDE
  1. PXD043273
     1. Label: PRIDE project
     2. Name: Exploring the structural landscape of DNA maintenance proteins