PXD008544

PXD008544 is an original dataset announced via ProteomeXchange.

Title	Proteomic analyses of Pseudomonas jessenii GO3 cells
Description	Several soil organisms are known to be capable of growth on caprolactam as soil carbon and nitrogen source, but the enzymes of the catabolic pathway have not been described. We isolated a caprolactam-degrading strain of Pseudomonas jessenni, and identified genes putatively involved in the caprolactam metabolism using quantitative mass spectrometry-based proteomics. This led to the discovery of a caprolactamase and an aminotransferase that are involved in the initial steps of caprolactam conversion. Additionally, various proteins were identified likely to be involved in later steps of the pathway. The identified caprolactamase consisted of 2 subunits and demonstrated high sequence identity to the 5-oxoprolinases. E. coli expressing this caprolactamase did not convert 5-oxoproline but was able to hydrolyze caprolactam to form 6-aminohexanoic acid in an ATP dependent manner. Characterization of the aminotransferase revealed that the enzyme deaminated 6-aminohexanoic acid to produce 6-oxohexanoate with pyruvate as amino acceptor. The amino acid sequence of the aminotransferase demonstrated high similarity to subgroup II ω-aminotransferases of the PLP fold type I proteins. Finally, analyses of the genome sequence demonstrated the presence of a caprolactam catabolism gene cluster consisting of all genes involved in the conversion of caprolactam to adipate.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:13:46.543.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD008544
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Marleen Otzen
SpeciesList	scientific name: Pseudomonas jessenii; NCBI TaxID: 77298;
ModificationList	Carboxymethyl; Deamidated; Oxidation
Instrument	LTQ Orbitrap XL

Revision	Datetime	Status	ChangeLog Entry
0	2017-12-22 01:24:57	ID requested
1	2018-10-22 09:30:07	announced
⏵ 2	2024-10-22 04:13:47	announced	2024-10-22: Updated project metadata.

10.1007/s00253-018-9073-7;

Otzen M, Palacio C, Janssen DB, Characterization of the caprolactam degradation pathway in Pseudomonas jessenii using mass spectrometry-based proteomics. Appl Microbiol Biotechnol, 102(15):6699-6711(2018) [pubmed]

10.6019/PXD008544;

curator keyword: Biological

submitter keyword: Pseudomonas jessenii GO3, nano LC-MS/MS

Dick B. Janssen
contact affiliation	Biotransformation and Biocatalysis, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands
contact email	d.b.janssen@rug.nl
lab head
Marleen Otzen
contact affiliation	University of Groningen
contact email	m.otzen@rug.nl
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/2018/10/PXD008544

PRIDE project URI

• PRIDE
  1. PXD008544
     1. Label: PRIDE project
     2. Name: Proteomic analyses of Pseudomonas jessenii GO3 cells