PXD039405

PXD039405 is an original dataset announced via ProteomeXchange.

Title	A bacterial histone binds DNA in an unorthodox fashion
Description	Histones are the primary building blocks of chromatin in eukaryotes and many archaea. Bacteria are thought to rely on an orthogonal set of proteins to organize their chromosomes. Several bacterial genomes do, however, encode proteins with putative histone fold domains. Whether these proteins adopt a bona fide histone fold, assemble into higher order complexes that bind DNA, and play a central role in bacterial nucleoid physiology is not known. Here, we demonstrate that histones are major and essential building blocks of chromatin in the predatory bacterium Bdellovibrio bacteriovorus and the human pathogen Leptospira interrogans and likely important in several other bacterial clades. We determine the crystal structure of the B. bacteriovorus histone (Bd0055) dimer at 1.8Å resolution to reveal that histone fold topology, handshake dimer conformation, and the RD clamp motif are conserved between bacteria, archaea, and eukaryotes. However, ostensibly minor differences, including a shorter α2 helix, a less structured α3 helix, and a more acidic surface on one side of the dimer lead to a radically divergent DNA binding mode: instead of wrapping around the outer surface of a multi-subunit histone complex, DNA forms straight fibers, encased by a sheath of tightly packed Bd0055 dimers. Our results demonstrate that bacterial histones have evolved an atypical mode of DNA binding to become integral components of chromatin in distant parts of the bacterial kingdom.
HostingRepository	PRIDE
AnnounceDate	2023-08-21
AnnouncementXML	Submission_2023-08-21_05:22:22.602.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	AlexMontoya
SpeciesList	scientific name: Archaea; NCBI TaxID: NCBITaxon:2157; scientific name: Escherichia coli BL21(DE3); NCBI TaxID: 469008; scientific name: Bdellovibrio bacteriovorus; NCBI TaxID: 959; scientific name: Leptospira interrogans serovar Manilae; NCBI TaxID: 214675;
ModificationList	acetylated residue; monohydroxylated residue; deamidated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Velos; Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2023-01-13 06:05:55	ID requested
⏵ 1	2023-08-21 05:22:22	announced

Dataset with its publication pending

submitter keyword: histones, bacteria, nucleoid, chromatin

Dr PavelShliaha
contact affiliation	Head of Proteomics & Metabolomics Core Facility
contact email	p.shliaha@lms.mrc.ac.uk
lab head
AlexMontoya
contact affiliation	Medical Research Council - London Institute of Medical Sciences
contact email	alex.montoya@lms.mrc.ac.uk
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/2023/08/PXD039405

PRIDE project URI

• PRIDE
  1. PXD039405
     1. Label: PRIDE project
     2. Name: A bacterial histone binds DNA in an unorthodox fashion