PXD012911

PXD012911 is an original dataset announced via ProteomeXchange.

Title	Mass spectrometric analysis of Collagen alpha-1 (II) chain from Capra hircus
Description	Expressional alterations and post translational modifications (PTM) of type II collagen can be major cause behind osteo and rheumatoid arthritis. PTM of type II collagen α1 chain (COL2A1) such as hydroxylation of proline (P), lysine and glycosylation of hydroxylysine can act as epitopes resulting COL2A1 as autoantigen in cartilage tissues. Previous study stated proline hydroxylation (Hyp) as an important PTM in type II collagen leading to dysfunctional collagen extracellular matrix assembly in vivo. Here we report for the first time peptide mass fingerprinting (PMF) identification and tandem mass spectrometry based mapping of Hyp PTM in COL2A1 from Capra hircus (C. hircus) using Mascot database. As mascot database does not contain C. hircus COL2A1 sequence information, our identification is based on the homologous COL2A1 from Bos taurus and Homo sapience (above 98 % identity). Findings include identification of new triplet Gly-F-Hyp in C. hircus COL2A1 and well known Gly-X-Y triplet with Hyp present in the X position, instead of Y position. PMF data contains lager number of Hyp in COL2A1 from C. hircus consistent with other collagen sequences. This study suggests positional alteration of Hyp/P in Gly-X-Y triplet may be used for molecular identification and characterization of type II collagen from other sources.
HostingRepository	PRIDE
AnnounceDate	2019-05-06
AnnouncementXML	Submission_2019-05-06_09:38:59.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Debabrata Dutta
SpeciesList	scientific name: Capra hircus; NCBI TaxID: 9925;
ModificationList	monohydroxylated residue
Instrument	ultraflex

Revision	Datetime	Status	ChangeLog Entry
0	2019-02-28 07:37:47	ID requested
⏵ 1	2019-05-06 09:39:00	announced

Maity PP, Dutta D, Ganguly S, Kapat K, Dixit K, Chowdhury AR, Samanta R, Das NC, Datta P, Das AK, Dhara S, ear cartilage. Commun Biol, 2():146(2019) [pubmed]

submitter keyword: Capra hircus, Collagen alpha-I (II), post translational modifications, Hydroxyproline mapping

Priti Prasanna Maity, Debabrata Dutta
contact affiliation	School of Medical Science and Technology, Department of Biotechnology, Indian Institute of Technology Kharagur, Kharagpur 721302, India
contact email	pritiprasanna@gmail.com
lab head
Debabrata Dutta
contact affiliation	Indian Institute of Technology Kharagpur
contact email	info.debu@gmail.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD012911
     1. Label: PRIDE project
     2. Name: Mass spectrometric analysis of Collagen alpha-1 (II) chain from Capra hircus