PXD026794

PXD026794 is an original dataset announced via ProteomeXchange.

Title	Proteome-wide Identification of DNA Guanine Quadruplex-binding Proteins
Description	DNA sequences of high guanine (G) content have the potential to fold into G quadruplex (G4) structures. DNA G4 is known to play important roles in various cellular processes including DNA replication, transcriptional regulation, and maintenance of genomic integrity. A more complete understanding about the biological functions of G4 DNA requires the investigation about how these structures are recognized by cellular proteins. Here, we conducted exhaustive quantitative proteomic experiments to profile the interaction proteomes of three well-defined G4 structures derived from the human telomere and the promoters of cMYC and cKIT genes. Our results led to the identification of a number of candidate G4-interacting proteins; some were previously reported, e.g., FUS, TOP1, and PARP1, and many others were discovered here for the first time. These included three proteins that can bind to all three DNA G4 structures and many proteins that can bind specifically to selected DNA G4 structure(s). We also validated that GRSF1 can bind directly and selectively toward G4 DNA structure derived from the cMYC promoter. Taken together, we uncovered a number of cellular proteins that exhibit general and selective recognitions of G4 folding patterns, which underscore the complexity of G4 DNA in biology and the importance in understanding fully the G4-interaction proteome.
HostingRepository	PRIDE
AnnounceDate	2021-09-30
AnnouncementXML	Submission_2021-09-30_01:31:42.587.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Zi Gao
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2021-06-18 03:51:44	ID requested
1	2021-09-29 10:02:10	announced
⏵ 2	2021-09-30 01:31:43	announced	2021-09-30: Updated project metadata.

Gao Z, Williams P, Li L, Wang Y, A Quantitative Proteomic Approach for the Identification of DNA Guanine Quadruplex-Binding Proteins. J Proteome Res, 20(11):4919-4924(2021) [pubmed]

10.1021/ACS.JPROTEOME.1C00603;

submitter keyword: G-quadruplex,SILAC, LC-MS/MS

YInsheng Wang
contact affiliation	Department of Chemistry, University of California Riverside
contact email	Yinsheng.Wang@ucr.edu
lab head
Zi Gao
contact affiliation	University of California, Riverside
contact email	zgao015@ucr.edu
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/2021/09/PXD026794

PRIDE project URI

• PRIDE
  1. PXD026794
     1. Label: PRIDE project
     2. Name: Proteome-wide Identification of DNA Guanine Quadruplex-binding Proteins