PXD009301

PXD009301 is an original dataset announced via ProteomeXchange.

Title	Engineered Peptide Barcodes for Binding Protein Generation
Description	Binding protein generation relies on laborious screening cascades that process candidate molecules individually. To break with this paradigm, we developed NestLink, a binder selection and identification technology able to biophysically characterize thousands of library members at once without handling individual clones at any stage of the process. NestLink builds on genetically fused barcoding peptides, termed flycodes, which are designed for maximal detectability by mass spectrometry and serve as unique molecular identifiers for accurate deep sequencing. We applied NestLink to overcome current limitations of binder generation. Rare binders against an integral membrane protein were identified directly in the cellular environment of a human pathogen. Hundreds of binder candidates were simultaneously ranked according to kinetic parameters. Adverse effects of target immobilization were overcome by selecting nanobodies against an ABC transporter entirely in solution. NestLink may provide a basis for the selection of tailored binder characteristics directly in tissues or in living organisms
HostingRepository	PRIDE
AnnounceDate	2019-01-15
AnnouncementXML	Submission_2019-04-25_00:15:47.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Bernd Roschitzki
SpeciesList	scientific name: synthetic construct (code 12); NCBI TaxID: 2005482;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive HF; Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2018-03-23 02:26:09	ID requested
1	2019-01-14 23:34:03	announced
⏵ 2	2019-04-25 00:15:48	announced	Updated publication reference for PubMed record(s): 31011184.

Egloff P, Zimmermann I, Arnold FM, Hutter CAJ, Morger D, Opitz L, Poveda L, Keserue HA, Panse C, Roschitzki B, Seeger MA, Engineered peptide barcodes for in-depth analyses of binding protein libraries. Nat Methods, 16(5):421-428(2019) [pubmed]

curator keyword: Technical

submitter keyword: peptide barcode

Prof. Markus Seeger
contact affiliation	Institute of Medical Microbiology University of Zurich Gloriastrasse 28/30 CH-8006 Zürich/Switzerland Office: +41 (0)44 634 53 96 Lab1: +41 (0)44 634 53 24 Lab2: +41 (0)44 634 53 37 homepage: http://www.imm.uzh.ch/research/experimental/teamseeger.html Attachments area
contact email	m.seeger@imm.uzh.ch
lab head
Bernd Roschitzki
contact affiliation	University of Zurich
contact email	bernd.roschitzki@fgcz.uzh.ch
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/2019/01/PXD009301

PRIDE project URI

• PRIDE
  1. PXD009301
     1. Label: PRIDE project
     2. Name: Engineered Peptide Barcodes for Binding Protein Generation