PXD036958

PXD036958 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Sequencing of monoclonal antibody 1D3 (mAb1D3)
Description	De novo sequencing and expression of recombinant 1D3 antibody (R1D3). To achieve maximum coverage for antibody sequencing, 5 µg of the antibody original 1D3 was digested in parallel with five different proteases: trypsin, elastase, chymotrypsin, and Asp-N. For each digestion mixture, peptides were loaded onto a nanoflow C18 HPLC column, and peptides were resolved using an aqueous to organic gradient over the course of 90 minutes. As they eluted from the column, peptides were directly ionized on a Thermo Fisher Orbitrap orbitrap Velos mass spectrometer. In a data-dependent manner, both high-resolution full mass measurements and multiple different tandem mass fragmentation (MS/MS) modalities were collected to give the greatest likelihood of correct sequence interpretation. These include standard collision-induced dissociation (CID), higher-energy dissociation (HCD), and electron transfer dissociation (ETD). After acquisition, data were transferred to Abterra Bioscience for analysis using their proprietary Valens platform. Briefly, an analysis of bottom-up mass spectra generated by the Vanderbilt University Proteomics facility using multiple enzymes was conducted. The framework sequence was identified by performing a database search of the spectra against the germline immunoglobulin gene sequences.
HostingRepository	jPOST
AnnounceDate	2022-09-25
AnnouncementXML	Submission_2022-09-24_12:18:57.517.xml
DigitalObjectIdentifier
ReviewLevel	Non peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Luciana Hannibal
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	Cation:Na; alpha-amino acetylated residue; N6-acetyl-L-lysine
Instrument	LTQ Orbitrap Velos

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2022-09-24 12:18:55	ID requested
⏵ 1	2022-09-24 12:18:57	announced

Publication List

Dataset with its publication pending

Dataset with its publication pending

Keyword List

submitter keyword: Monoclonal antibody, mAb1D3, 1D3,

submitter keyword: Monoclonal antibody, mAb1D3, 1D3,

Contact List

Dr. Hayes McDonald
lab head
Luciana Hannibal
contact affiliation	Medical Center, University of Freiburg
dataset submitter

Full Dataset Link List

jPOST dataset URI
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jPOST dataset URI

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.jpostdb.org/JPST001862/