PXD024622-1

PXD024622 is an original dataset announced via ProteomeXchange.

Title	Proteomics as a Tool to Gain Next Level Insights into Biopolymer Modifications
Description	The distribution of introduced photo-crosslinkable moieties onto a protein can affect a biomaterial’s crosslinking behavior, and therefore also the mechanical and biological properties. However, this information is also vital when developing biomaterials for tissue engineering and regenerative medicine applications. In the present work, photo-crosslinkable moieties have been introduced on the primary amine groups of: (i) a recombinant collagen peptide (RCPhC1) with a known amino acid (AA) sequence, and (ii) bovine skin collagen (COL BS) with an unknown AA sequence. The degree of substitution (DS) was quantified with two standard techniques: an ortho-phthalic dialdehyde (OPA) assay and 1H-NMR spectroscopy. However, neither of both provides information on the type and exact location of the modified AAs. Therefore, for the first time, proteomic analysis was evaluated herein as a tool to identify functionalized AAs as well as the exact position of the photo-crosslinkable moieties along the AA sequence, thereby enabling an in-depth, unprecedented characterization of functionalized biopolymers. Moreover, our strategy also enabled to visualize the spatial distribution of the modifications within the overall structure of the protein. Proteomics has proven to provide unprecedented insight in the distribution of photo-crosslinkable moieties along the protein backbone, undoubtedly contributing to superior biomaterial design in the future.
HostingRepository	PRIDE
AnnounceDate	2022-04-26
AnnouncementXML	Submission_2022-04-26_01:09:00.592.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	BRAY FABRICE
SpeciesList	scientific name: Bos taurus (Bovine); NCBI TaxID: 9913;
ModificationList	monohydroxylated residue; deamidated residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2021-03-09 23:30:27	ID requested
⏵ 1	2022-04-26 01:09:04	announced
2	2023-11-14 08:52:49	announced	2023-11-14: Updated project metadata.

10.1016/J.BIOACTMAT.2022.01.023;

Pien N, Bray F, Gheysens T, Tytgat L, Rolando C, Mantovani D, Dubruel P, Vlierberghe SV, Proteomics as a tool to gain next level insights into photo-crosslinkable biopolymer modifications. Bioact Mater, 17():204-220(2022) [pubmed]

submitter keyword: (photo-crosslinkable) biomaterials, chemical modifications, biomaterial characterization, proteomics, localization of functionalizations, 3D modeling of proteins

Ahmed Mazzah
contact affiliation	Univ. Lille, CNRS, USR 3290, MSAP, Miniaturisation pour la Synthèse l'Analyse et la Protéomique, F-59 000 Lille, France
contact email	ahmed.mazzah@univ-lille.fr
lab head
BRAY FABRICE
contact affiliation	MSAP USR 3290
contact email	fabrice.bray@univ-lille.fr
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/2022/04/PXD024622

PRIDE project URI

• PRIDE
  1. PXD024622
     1. Label: PRIDE project
     2. Name: Proteomics as a Tool to Gain Next Level Insights into Biopolymer Modifications