PXD022123

PXD022123 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Discovery of Klf2 Interactors in Mouse Embryonic Stem Cells by Immunoprecipitation-Mass Spectrometry Utilizing Exogenously Expressed Bait
Description	Krüppel-like factor 2 (Klf2) is a DNA-binding transcription factor that regulates embryonic stem cell-specific gene expression. Transcription cofactors such as p300 acetyltransferases and Erk kinases interact with Klf2, providing an additional layer of transcription regulation in embryonic stem cells. To carry out a thorough survey of the Klf2 interactome in embryonic stem cells and identify novel transcription cofactors, we designed a modified immunoprecipitation-mass spectrometry (IP-MS) method. In this method, recombinant Klf2, expressed and purified from Sf9 insect cells instead of ectopically expressed in cells, was used as bait. Using this modified IP-MS method, we discovered nine Klf2-interacting proteins, including the previously reported Crebbp and p300. These proteins showed at least an 8-fold increase in signal intensity in Klf2 pull-downs compared with controls, with P-values < 0.010. Among the identified Klf2-binding proteins confirmed using our IP-MS workflow was Snd1, which we found to interact directly with Klf2 and function as a transcriptional coactivator of Klf2 to drive Oct4 gene expression. Collectively, our IP-MS protocol may offer a useful tool for identifying novel transcription cofactors in stem cells.
HostingRepository	jPOST
AnnounceDate	2021-09-20
AnnouncementXML	Submission_2022-09-18_03:43:30.340.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yong-In Kim
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	S-carboxamidomethyl-L-cysteine; L-methionine sulfoxide; alpha-amino acetylated residue; alpha-aminocarbamoylated residue
Instrument	Q Exactive

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2020-10-21 21:34:18	ID requested
1	2021-09-19 08:00:05	announced
⏵ 2	2022-09-18 03:43:31	announced	2022-09-18: Updated FTP location.

Publication List

Seo L, Kim YI, Kim H, Hyun K, Kim J, Lee JE, Discovery of Klf2 interactors in mouse embryonic stem cells by immunoprecipitation-mass spectrometry utilizing exogenously expressed bait. Biochim Biophys Acta Proteins Proteom, 1869(9):140672(2021) [pubmed]

Seo L, Kim YI, Kim H, Hyun K, Kim J, Lee JE, Discovery of Klf2 interactors in mouse embryonic stem cells by immunoprecipitation-mass spectrometry utilizing exogenously expressed bait. Biochim Biophys Acta Proteins Proteom, 1869(9):140672(2021) [pubmed]

Keyword List

submitter keyword: Mouse embryonic stem cells
Klf2
immunoprecipitation-mass spectrometry
Snd1
exogenous bait

submitter keyword: Mouse embryonic stem cells

Klf2

immunoprecipitation-mass spectrometry

Snd1

exogenous bait

Contact List

J. Eugene Lee
lab head
Yong-In Kim
contact affiliation	Korea Research Institute of Standards and Science (KRISS)
dataset submitter

Full Dataset Link List

jPOST dataset URI
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.jpostdb.org/JPST000987/

jPOST dataset URI

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.jpostdb.org/JPST000987/