PXD057066

PXD057066 is an original dataset announced via ProteomeXchange.

Title	Bacterial Superoxide Dismutase variants, metal-loaded or apo - structural dynamics study
Description	The proteins are a pair of closely related superoxide dismutase (SOD) enzymes from the Gram positive bacterium, Staphylococcus aureus. SodA is a Mn-specific SOD (MnSOD), which is inactive when loaded with Fe, whereas SodM is a 'cambialistic' SOD (camSOD), which is catalytically active with either Mn or Fe as a cofactor. Their sequences are 75% identical across their 199 amino acid sequences: the crystal structures of each enzyme in each metal-loaded form: Mn-loaded MnSOD SodA: PDB ID 5N56 Fe-loaded MnSOD SodA: PDB ID 6EX3 Mn-loaded camSOD SodM: PDB ID 5N57 Fe-loaded camSOD SodM: PDB ID 6EX4 The resulting structures (all to approximately 2A resolution) showed no significant differences that indicated molecular reasons for the differences in activity. Because of the differences in activity, therefore, the project aimed to compare three forms of these enzymes to determine whether there are any differences in the dynamics of regions of their structure, most notably those within the active site and the putative substrate access route(s).
HostingRepository	PRIDE
AnnounceDate	2025-05-07
AnnouncementXML	Submission_2025-05-07_04:13:30.789.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Agata Malinowska
SpeciesList	scientific name: Bacteria; NCBI TaxID: NCBITaxon:2; scientific name: Staphylococcus aureus; NCBI TaxID: 1280;
ModificationList	No PTMs are included in the dataset
Instrument	Synapt MS

Revision	Datetime	Status	ChangeLog Entry
0	2024-10-22 11:28:36	ID requested
⏵ 1	2025-05-07 04:13:31	announced

10.1021/acs.jproteome.4c00700;

Pucha, ł, a W, Kistowski M, Zhukova L, Burdukiewicz M, Dadlez M, HRaDeX: R Package and Web Server for Computing High-Resolution Deuterium Uptake Rates for HDX-MS Data. J Proteome Res, 24(4):1688-1700(2025) [pubmed]

submitter keyword: HDX, Staphylococcus aureus,Superoxide dismutase

Michał Dadlez
contact affiliation	Institute of Biochemistry and Biophysics, Pol. Acad. Sci.
contact email	michald@ibb.waw.pl
lab head
Agata Malinowska
contact affiliation	IBB PAS
contact email	esme@ibb.waw.pl
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/2025/05/PXD057066

PRIDE project URI

• PRIDE
  1. PXD057066
     1. Label: PRIDE project
     2. Name: Bacterial Superoxide Dismutase variants, metal-loaded or apo - structural dynamics study