PXD031159
PXD031159 is an original dataset announced via ProteomeXchange.
Dataset Summary
Title | Uncover New Reactivity of Genetically Encoded Alkyl Bromide Unnatural Amino Acids |
Description | Genetically encoded unnatural amino acids (Uaas) with electrophilic moieties are excellent tools to investigate protein-protein interactions (PPIs) both in vitro and in vivo. These Uaas, including a series of alkyl bromide-based Uaas, mainly target cysteine residues to form protein-protein cross-links. Although some reactivities towards lysine and tyrosine residues have been reported, a comprehensive understanding of their reactivity towards a broad range of nucleophilic amino acids is lacking. Here we used a recently developed OpenUaa search engine to perform an in-depth analysis of mass spec data generated for Thioredoxin and its direct binding proteins cross-linked with an alkyl bromide-based Uaa, BprY. The analysis showed that, besides cysteine residues, BprY also targeted a broad range of nucleophilic amino acids. We validated this broad reactivity of BprY with Affibody/Z protein complex. We then successfully applied BprY to map a binding interface between SUMO2 and SUMO-interacting motifs (SIMs). BprY was further applied to probe SUMO2 interaction partners. We identified 264 SUMO2 binders, including several validated SUMO2 binders and many new binders. Our data demonstrated that BprY can be effectively used to probe protein-protein interfaces even without cysteine residues, which will greatly expand the power of BprY in studying PPIs. |
HostingRepository | PRIDE |
AnnounceDate | 2024-10-07 |
AnnouncementXML | Submission_2024-10-07_11:02:24.256.xml |
DigitalObjectIdentifier | https://dx.doi.org/10.6019/PXD031159 |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Supported dataset by repository |
PrimarySubmitter | Xin Shu |
SpeciesList | scientific name: Escherichia coli; NCBI TaxID: 562; scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | No PTMs are included in the dataset |
Instrument | Q Exactive HF |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
---|---|---|---|
0 | 2022-01-21 13:05:08 | ID requested | |
⏵ 1 | 2024-10-07 11:02:25 | announced |
Publication List
10.6019/PXD031159; |
Shu X, Asghar S, Yang F, Li ST, Wu H, Yang B, Uncover New Reactivity of Genetically Encoded Alkyl Bromide Non-Canonical Amino Acids. Front Chem, 10():815991(2022) [pubmed] |
10.3389/fchem.2022.815991; |
Keyword List
submitter keyword: chemical cross-linking, and SUMO interactome, unnatural Amino Acid,protein-protein interactions, genetic code expansion |
Contact List
Xin Shu | |
---|---|
contact affiliation | Zhejiang University |
contact email | sx725@zju.edu.cn |
lab head | |
Xin Shu | |
contact affiliation | Zhejiang university |
contact email | sx725@zju.edu.cn |
dataset submitter |
Full Dataset Link List
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/PXD031159 |
PRIDE project URI |
Repository Record List
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