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PXD015104

PXD015104 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleExpedited mapping of the ligandable proteome using fully functionalized enantiomeric probe pairs
DescriptionA fundamental challenge in chemical biology and medicine is to understand and expand the fraction of the human proteome that can be targeted by small molecules. We recently described a strategy that integrates fragment-based ligand discovery with chemical proteomics to furnish global portraits of reversible small molecule-protein interactions in human cells. Excavating clear structure-activity relationships from these “ligandability” maps, however, was confounded by the distinct physicochemical properties and corresponding overall protein-binding potential of individual fragments. Here, we describe a compelling solution to this problem by introducing a next-generation set of fully functionalized fragments (FFFs) differing only in absolute stereochemistry. Using these enantiomeric probe pairs, or “enantioprobes”, we identify numerous stereoselective protein-fragment interactions in cells and show that these interactions occur at functional sites on proteins from diverse classes. Our findings thus indicate that incorporating chirality into FFF libraries provides a robust and streamlined method to discover ligandable proteins in cells.
HostingRepositoryPRIDE
AnnounceDate2024-10-22
AnnouncementXMLSubmission_2024-10-22_04:57:26.815.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterYujia Wang
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListmonohydroxylated residue; iodoacetamide derivatized residue
InstrumentLTQ Orbitrap Velos; Orbitrap Fusion; LTQ Orbitrap Elite
Dataset History
RevisionDatetimeStatusChangeLog Entry
02019-08-21 01:01:41ID requested
12019-10-29 04:56:03announced
22019-11-08 00:39:53announced2019-11-08: Updated publication reference for PubMed record(s): 31659311.
32024-10-22 04:57:29announced2024-10-22: Updated project metadata.
Publication List
Wang Y, Dix MM, Bianco G, Remsberg JR, Lee HY, Kalocsay M, Gygi SP, Forli S, Vite G, Lawrence RM, Parker CG, Cravatt BF, Expedited mapping of the ligandable proteome using fully functionalized enantiomeric probe pairs. Nat Chem, 11(12):1113-1123(2019) [pubmed]
10.1038/s41557-019-0351-5;
Keyword List
submitter keyword: Human, PBMCs, HEK293T, LC-MS/MS
Contact List
Benjamin F. Cravatt
contact affiliationDepartment of Chemistry The Scripps Research Institute
contact emailcravatt@scripps.edu
lab head
Yujia Wang
contact affiliationThe Scripps Research Institute
contact emailyujia@scripps.edu
dataset submitter
Full Dataset Link List
Dataset FTP location
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PRIDE project URI
Repository Record List
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