PXD026505

PXD026505 is an original dataset announced via ProteomeXchange.

Title	Pull-down of nuclear proteins from HGC-27 cell line
Description	To identify nuclear proteins that interact with KIT2KIT* G-quadruplex DNA, pull-down assays were performed with nuclear extracts from the KIT-positive HGC-27 cell line. Streptavidin-coated paramagnetic beads were derivatized with the biotinylated oligonucleotide and subsequently incubated with nuclear extracts. Bound proteins were eluted with a KCl gradient. A last fraction was obtained by boiling beads in denaturing Laemmli sample loading buffer. When solved by SDS-PAGE, this last fraction exhibited three main bands that were cut and subjected to in-gel trypsin digestion and LC-MSE analyses for protein identification. Two of them (bands S1 and S2 at ~15 kDa and ~28 kDa, respectively) corresponded to Streptavidin monomer and dimer that detached from the beads along boiling procedure. That aside, the band at ~50 kDa (band V) was associated to the intermediate filament protein Vimentin.
HostingRepository	PRIDE
AnnounceDate	2022-05-25
AnnouncementXML	Submission_2022-05-25_09:29:36.895.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD026505
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Silvia Ceschi
SpeciesList	scientific name: Streptomyces avidinii; NCBI TaxID: 1895; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	Xevo G2-S Tof

Revision	Datetime	Status	ChangeLog Entry
0	2021-06-06 22:02:28	ID requested
⏵ 1	2022-05-25 09:29:37	announced

Ceschi S, Berselli M, Cozzaglio M, Giantin M, Toppo S, Spolaore B, Sissi C, Vimentin binds to G-quadruplex repeats found at telomeres and gene promoters. Nucleic Acids Res, 50(3):1370-1381(2022) [pubmed]

submitter keyword: nuclear extracts, HGC-27 cells, pull-down assays, in-gel tryptic digests, LC-MSE, protein identification

Claudia Sissi
contact affiliation	Department of Pharmaceutical and Pharmacological Sciences, University of Padova, 35131, Padova, Italy
contact email	claudia.sissi@unipd.it
lab head
Silvia Ceschi
contact affiliation	University of Padova
contact email	silvia.ceschi@studenti.unipd.it
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/2022/04/PXD026505

PRIDE project URI

• PRIDE
  1. PXD026505
     1. Label: PRIDE project
     2. Name: Pull-down of nuclear proteins from HGC-27 cell line