PXD017640

PXD017640 is an original dataset announced via ProteomeXchange.

Title	Applicability of chromatographic co-elution for antibiotic research
Description	Identification of the molecular target is crucial for evaluating novel antibiotics. To support target identification, a label-free method based on chromatographic co-elution (TICC) has been developed previously. In TICC, an alteration in the elution profile of the target-bound drug compared to free drug in ion exchange chromatography is used to identify potential target proteins from elution fractions. We investigated the applicability of TICC for antibiotic research by evaluating which proteins, i.e. putative targets, can be monitored in Bacillus subtilis. Coelution of components of known protein complexes was used as a read-out for nativity of the chromatography. We identified 920 proteins covering 66% of known essential proteins, including most clinically exploited target proteins. Using correlation profiling, protein complex integrity was demonstrated for known cytosolic complexes like RNA polymerase and the cytosolic components of ATP synthase. Raw data and ProteinLynxGlobalServer (PLGS) output files for protein identification in a fractionated cytosolic protein extracts are uploaded to support main text and supplementary file data of a submitted manuscript entitled “Combining chromatographic co-elution and proteomic profiling for antibiotic target identification”.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_05:12:58.853.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Sina Schäkermann
SpeciesList	scientific name: Bacillus subtilis subsp. subtilis str. 168; NCBI TaxID: 224308;
ModificationList	iodoacetamide derivatized residue
Instrument	Synapt MS

Revision	Datetime	Status	ChangeLog Entry
0	2020-02-19 22:49:12	ID requested
1	2020-09-30 23:19:34	announced
⏵ 2	2024-10-22 05:13:02	announced	2024-10-22: Updated project metadata.

Sch, ä, kermann S, W, ü, llner D, Yayci A, Emili A, Bandow JE, Applicability of Chromatographic Co-Elution for Antibiotic Target Identification. Proteomics, 21(1):e2000038(2021) [pubmed]

10.1002/pmic.202000038;

submitter keyword: essential proteins,Bacillus subtilis, protein complexes, protein-protein interaction

Julia Elisabeth Bandow
contact affiliation	Applied Microbiology, Faculty of Biology and Biotechnology, Ruhr-Universität Bochum, Bochum, Germany
contact email	julia.bandow@rub.de
lab head
Sina Schäkermann
contact affiliation	Ruhr-Universität Bochum
contact email	Sina.Langklotz@rub.de
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/2020/10/PXD017640

PRIDE project URI

• PRIDE
  1. PXD017640
     1. Label: PRIDE project
     2. Name: Applicability of chromatographic co-elution for antibiotic research