PXD041000-1

PXD041000 is an original dataset announced via ProteomeXchange.

Title	Application of peptide barcoding to obtain high-affinity anti-PD-1 nanobodies
Description	Cancer treatment has been revolutionized by immune checkpoint inhibitors, which regulate immune cell function by blocking the interactions between immune checkpoint molecules and their ligands. The interaction between programmed cell death-1 (PD-1) and programmed cell death-ligand 1 (PD-L1) is a target for immune checkpoint inhibitors. Nanobodies, which are recombinant variable domains of heavy-chain-only antibodies, can replace existing immune checkpoint inhibitors, such as anti-PD-1 or anti-PD-L1 conventional antibodies. However, the screening process for high-affinity nanobodies is laborious and time-consuming. Here, we identified high-affinity anti-PD-1 nanobodies using peptide barcoding, which enabled reliable and efficient screening by distinguishing each nanobody with a peptide barcode that was genetically appended to each nanobody. We prepared a peptide-barcoded nanobody (PBNb) library with thousands of variants. Three high-affinity PBNbs were identified from the PBNb library by quantifying the peptide barcodes derived from high-affinity PBNbs. Furthermore, these three PBNbs neutralized the interaction between PD-1 and PD-L1. Our results demonstrate the utility of peptide barcoding and the resulting nanobodies can be used as experimental tools and antitumor agents. Peptide barcoding can be used to screen for molecules other than nanobodies. Our methods, such as the design of peptide barcodes, the design of peptide-barcoded molecules, preparation of peptide-barcoded molecule library, and quantification of peptide barcodes, are helpful in screening for peptide-barcoded molecules.
HostingRepository	jPOST
AnnounceDate	2024-03-21
AnnouncementXML	Submission_2024-03-20_08:00:15.113.xml
DigitalObjectIdentifier
ReviewLevel	Non peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Takumi Miyazaki
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationList	S-carboxamidomethyl-L-cysteine; TMT6plex reporter+balance reagent N-acylated residue; TMT6plex reporter+balance reagent acylated N-terminal; L-methionine sulfoxide; alpha-amino acetylated residue; Met-loss; Met-loss+Acetyl
Instrument	Orbitrap Exploris 240

Revision	Datetime	Status	ChangeLog Entry
0	2023-03-21 02:56:49	ID requested
⏵ 1	2024-03-20 08:00:15	announced

Dataset with its publication pending

submitter keyword: nanobody, screening, peptide barcode, immune checkpoint inhibitor, programmed cell death-1, size-exclusion chromatography, mass spectrometry

Wataru Aoki
lab head
Takumi Miyazaki
contact affiliation	Kyoto University
dataset submitter

jPOST dataset URI

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