PXD026829

PXD026829 is an original dataset announced via ProteomeXchange.

Title	Structural basis for the Pr-Pfr long-range signaling mechanism of a full-length bacterial phytochrome at the atomic level
Description	Light sensing mechanisms allow prokaryotes and eukaryotes to adapt to constantly changing environmental factors. Phytochromes constitute a widespread biological photoreceptor family that typically interconvert between two photostates called Pr (red light-absorbing) and Pfr (far-red light-absorbing). Despite the vast structural information reported on phytochromes, the lack of full-length structures solved at the (near-)atomic level in both pure Pr and Pfr states leaves gaps in the structural mechanisms involved in the signal transmission pathways during the photoconversion. Here we present the crystallographic structures of three versions from the plant pathogen Xanthomonas campestris virulence regulator XccBphP bacteriophytochrome, including two full-length proteins, in the Pr and Pfr states. The structures show a reorganization of the interaction networks within and around the chromophore-binding pocket, an α-helix/β-sheet tongue transition, specific domain reorientations, along with interchanging kinks and breaks at the helical spine as a result of the photoswitching, which subsequently affect the quaternary assembly of the protein. These structural findings, combined with mutational, biochemical and computational studies, allow us to describe the signaling mechanism of a full-length bacterial phytochrome at the atomic level. As the transduction mechanism herein reported involves elements highly conserved in other phytochromes, it might be extended to other members of this family of photoreceptors.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:52:26.695.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD026829
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Germán Rosano
SpeciesList	scientific name: Xanthomonas campestris; NCBI TaxID: 339;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2021-06-21 03:03:53	ID requested
1	2021-12-17 11:07:01	announced
⏵ 2	2023-11-14 08:52:27	announced	2023-11-14: Updated project metadata.

10.6019/PXD026829;

submitter keyword: Xanthomonas campestris

photoreceptor

photosensor

phytochrome

bacteriophytochrome

BphP

biliverdin

red / far-red light

signal transduction

X-ray crystallography

UV-Vis spectroscopy

molecular dynamics

Germán Rosano
contact affiliation	Unidad de Espectrometría de Masa (UEM-IBR) Instituto de Biología Molecular y Celular de Rosario (IBR-CONICET-UNR)
contact email	rosano@ibr-conice.gov.ar
lab head
Germán Rosano
contact affiliation	Instituto de Biología Molecular y Celular de Rosario (IBR-CONICET-UNR)
contact email	rosano@ibr-conicet.gov.ar
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/2021/12/PXD026829

PRIDE project URI

• PRIDE
  1. PXD026829
     1. Label: PRIDE project
     2. Name: Structural basis for the Pr-Pfr long-range signaling mechanism of a full-length bacterial phytochrome at the atomic level