PXD013969-2

PXD013969 is an original dataset announced via ProteomeXchange.

Title	Structural proteomics based investigation of DNA binding domain (DBD) of FOXO4 transcription factor in complex with DNA binding element (DNA)
Description	The limited information available on the structure of complexes involving transcription factors and cognate DNA response elements represents a major obstacle in the quest to understand their mechanism of action at the molecular level. We implemented a concerted structural proteomics approach, which combined hydrogen-deuterium exchange (HDX), quantitative protein-protein and protein-nucleic acid cross-linking (XL), and homology analysis, to model the structure of the complex between the full-length DNA binding domain (DBD) of FOXO4 and its DNA binding element (DBE).
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_05:05:12.568.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Lukáš Slavata
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	deuterium substituted residue
Instrument	solariX

Revision	Datetime	Status	ChangeLog Entry
0	2019-05-22 03:14:11	ID requested
1	2020-05-26 14:01:47	announced
⏵ 2	2024-10-22 05:05:14	announced	2024-10-22: Updated project metadata.

Slavata L, Chmel, í, k J, Kavan D, Filandrov, á R, Fiala J, Ros, ů, lek M, Mr, á, zek H, Kuka, č, ka Z, Vali, š K, Man P, Miller M, McIntyre W, Fabris D, Nov, á, k P, MS-Based Approaches Enable the Structural Characterization of Transcription Factor/DNA Response Element Complex. Biomolecules, 9(10):(2019) [pubmed]

10.3390/biom9100535;

submitter keyword: hydrogen-deuterium exchange, transplatinum, cross-linking,protein, DNA

Petr Novak
contact affiliation	Laboratory of Structural Biology and Cell Signaling, Institute of Microbiology, The Czech Academy of Sciences, Prague, 14220, Czech Republic
contact email	pnovak@biomed.cas.cz
lab head
Lukáš Slavata
contact affiliation	Institute of Microbiology, The Czech Academy of Sciences, Prague, 14220, Czech Republic
contact email	lukas.slavata@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/2020/05/PXD013969

PRIDE project URI

• PRIDE
  1. PXD013969
     1. Label: PRIDE project
     2. Name: Structural proteomics based investigation of DNA binding domain (DBD) of FOXO4 transcription factor in complex with DNA binding element (DNA)