PXD032828-1

PXD032828 is an original dataset announced via ProteomeXchange.

Title	Lanthanide response of the obligate methylotroph Methylobacillus flagellatus and discovery of lanpepsy, a novel lanthanide-binding protein
Description	Lanthanides were recently discovered as metals required in the active site of certain methanol dehydrogenases. Since then, the characterization of the lanthanome, i.e. all proteins involved in sensing, uptake, and utilization of lanthanides, has become an active field of research. Initial exploration of the response to lanthanides in methylotrophs has revealed that the lanthanome is not conserved and that multiple mechanisms for lanthanide utilization must exist. Here we investigated the lanthanome in the obligate model methylotroph Methylobacillus flagellatus. We used a proteomic approach to analyze differentially regulated proteins in the presence of lanthanum. While multiple known proteins showed induction upon growth in presence of lanthanum (Xox proteins, TonB-dependent receptor), we also identified several novel proteins not previously associated with lanthanide utilization. Among these was Mfla_0908, a periplasmic 19 kDa-protein without functional annotation. The protein comprises two characteristic PepSY domains and we thus termed the protein lanpepsy (LanP). Based on bioinformatic analysis, we speculated that LanP could be involved in lanthanide binding. Using dye competition assays as well as protein ultrafiltration followed by inductively coupled plasma mass spectrometric analysis, we demonstrated the presence of four lanthanide binding sites that showed selectivity over the chemically similar Ca2+ ion. A similar arrangement of two PepSY domains is also present in the recently described uranium-binding protein UipA from Microbacterium spp. LanP and UipA thus represent the first members of PepSY domain proteins involved in metal binding. Although the physiological role of LanP is still unclear, its discovery has important implications for applications towards the sustainable purification and separation of lanthanides.
HostingRepository	PRIDE
AnnounceDate	2023-01-31
AnnouncementXML	Submission_2023-01-31_12:47:35.860.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	JethroHemmann
SpeciesList	scientific name: Methylobacillus flagellatus KT; NCBI TaxID: 265072;
ModificationList	carbamoylated residue; iodoacetamide derivatized amino-terminal residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2022-03-26 14:19:58	ID requested
⏵ 1	2023-01-31 12:47:36	announced
2	2023-11-14 08:26:58	announced	2023-11-14: Updated project metadata.

Hemmann JL, Keller P, Hemmerle L, Vonderach T, Ochsner AM, Bortfeld-Miller M, G, ü, nther D, Vorholt JA, Lanpepsy is a novel lanthanide-binding protein involved in the lanthanide response of the obligate methylotroph Methylobacillus flagellatus. J Biol Chem, 299(3):102940(2023) [pubmed]

submitter keyword: Lanthanides, Methylotroph, Proteomics

Julia A.Vorholt
contact affiliation	Department of Biology, Institute of Microbiology, ETH Zürich, Switzerland
contact email	jvorholt@ethz.ch
lab head
JethroHemmann
contact affiliation	Leibniz Institute for Natural Product Research and Infection Biology Hans Knöll Institute (Leibniz-HKI)
contact email	jethro.hemmann@leibniz-hki.de
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/2023/01/PXD032828

PRIDE project URI

• PRIDE
  1. PXD032828
     1. Label: PRIDE project
     2. Name: Lanthanide response of the obligate methylotroph Methylobacillus flagellatus and discovery of lanpepsy, a novel lanthanide-binding protein