PXD041518

PXD041518 is an original dataset announced via ProteomeXchange.

Title	Investigation of Role of Eleven TonB Homologs in Carbohydrate Utilization by Bacteroides thetaiotaomicron
Description	Key conserved features of these transporters include a 22 beta-strand barrel that traverses the outer membrane and houses a plug domain that occludes solute passage until the transporter is activated. Some B. theta TBDTs are also predicted to include two additional domains termed the N-terminal extension (NTE) and the Secretin and TonB N-terminus (STN) domain. The precise rearrangement of the plug domain to allow solute passage through the barrel is poorly understood but is facilitated by pairing to an inner membrane complex that harnesses proton motive force. This complex in E. coli includes the proteins TonB, ExbB, and ExbD. Recent structural analysis of this complex reveals the inner membrane spanning ExbB in a pentameric arrangement enclosed around a dimer of ExbD that extends into the periplasm. The structure of the complex with TonB has not been determined but other characterization of TonB suggests at least one copy of TonB interacts with the ExbBD complex via the TonB N-terminal membrane spanning -helix. This N-terminal -helix is followed by a linker region that spans the periplasm and a well-ordered C-terminal domain. The C-terminal domains of characterized TonB proteins share a common fold of three antiparallel -sheets with two -helices (28, 29). The final -strand at the C-terminus directly contacts the TBDT for -sheet pairing with the N-terminal extension of the TBDT plug domain called the TonBox.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:26:37.251.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Nicole Koropatkin
SpeciesList	scientific name: Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482); NCBI TaxID: 226186;
ModificationList	TMT6plex-126 reporter+balance reagent acylated residue; monohydroxylated residue; deamidated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2023-04-13 07:41:55	ID requested
1	2024-01-26 08:01:28	announced
⏵ 2	2024-10-22 06:26:41	announced	2024-10-22: Updated project metadata.

Pollet RM, Foley MH, Kumar SS, Elmore A, Jabara NT, Venkatesh S, Vasconcelos Pereira G, Martens EC, Koropatkin NM, . J Bacteriol, 205(11):e0021823(2023) [pubmed]

10.1128/jb.00218-23;

submitter keyword: Bacteroides. TonB, glucose, maltose

Nicole M Koropatkin3
contact affiliation	Department of Microbiology and Immunology, University of Michigan Medical School, Ann Arbor, MI 48109, USA
contact email	nkoropat@med.umich.edu
lab head
Nicole Koropatkin
contact affiliation	Microbiology and Immunology University of Michigan
contact email	nkoropat@med.umich.edu
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/2024/01/PXD041518

PRIDE project URI

• PRIDE
  1. PXD041518
     1. Label: PRIDE project
     2. Name: Investigation of Role of Eleven TonB Homologs in Carbohydrate Utilization by Bacteroides thetaiotaomicron