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    exbD Ton complex subunit ExbD [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 946345, updated on 3-Dec-2024

    Summary

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    Official Symbol
    exbD
    Official Full Name
    Ton complex subunit ExbD
    Primary source
    ECOCYC:EG10272
    Locus tag
    b3005
    See related
    ASAP:ABE-0009866
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Escherichia coli str. K-12 substr. MG1655 (strain: K-12, substrain: MG1655)
    Lineage
    Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia
    Also known as
    ECK2998
    Summary
    ExbB and ExbD proteins function as part of the TonB-dependent energy transduction system for the import of iron-siderophore complexes and vitamin B12 across the outer membrane. [More information is available at EcoCyc: EG10272].
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    Genomic context

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    Sequence:
    NC_000913.3 (3150818..3151243, complement)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene UPF0114 family protein YqhA Neighboring gene NADP(+)-dependent aldehyde reductase Neighboring gene Ton complex subunit ExbB Neighboring gene cystathionine beta-lyase/L-cysteine desulfhydrase/alanine racemase

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_000913.3

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Membrane topology of the Escherichia coli ExbD protein. Kampfenkel K, et al. J Bacteriol, 1992 Aug. PMID 1644779, Free PMC Article
    2. Hexameric and pentameric complexes of the ExbBD energizer in the Ton system. Maki-Yonekura S, et al. Elife, 2018 Apr 17. PMID 29661272, Free PMC Article
    3. Characterization of the exbBD operon of Escherichia coli and the role of ExbB and ExbD in TonB function and stability. Ahmer BM, et al. J Bacteriol, 1995 Aug. PMID 7642501, Free PMC Article
    4. Two related bacterial membrane proteins, ExbD and ToIR, have opposite transmembrane charge dipolarity. Hennessey ES, et al. Mol Microbiol, 1994 Jan. PMID 8170403
    5. The solution structure of the periplasmic domain of the TonB system ExbD protein reveals an unexpected structural homology with siderophore-binding proteins. Garcia-Herrero A, et al. Mol Microbiol, 2007 Nov. PMID 17927700

    See all (52) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Single-particle cryo-electron microscopy shows that the ExbB pentamer encloses a dimer of ExbD in its transmembrane pore, and not a monomer as previously reported. Ton subcomplex consists of a pentamer of ExbB enclosing a dimer of ExbD TM domains. The essential Asp25 residues on ExbD are in close proximity to the conserved Thr 148 and 181 on ExbB.
      Title: Cryo-EM structure of the bacterial Ton motor subcomplex ExbB-ExbD provides information on structure and stoichiometry.
    2. Channel current measurement and 2D crystallography support the existence and transition of the two oligomeric states in membranes. The hexameric complex consists of six ExbB subunits and three ExbD transmembrane helices enclosed within the central channel.
      Title: Hexameric and pentameric complexes of the ExbBD energizer in the Ton system.
    3. ExbB-ExbD-TonB form complex in molar ratios of 4:1:1.
      Title: Membrane Protein Complex ExbB4-ExbD1-TonB1 from Escherichia coli Demonstrates Conformational Plasticity.
    4. These observations supported the hypothesis that ExbD couples TonB to the protonmotive force, with concomitant transitions of ExbD and TonB periplasmic domains from unenergized to energized heterodimers.
      Title: ExbD mutants define initial stages in TonB energization.
    5. ExbD-TonB interactions required ExbD transmembrane domain residue D25.
      Title: The same periplasmic ExbD residues mediate in vivo interactions between ExbD homodimers and ExbD-TonB heterodimers.
    6. ExbB(6) and ExbB(6)ExbD(1) are subcomplexes on which the final complex including TonB is assembled
      Title: Oligomeric structure of ExbB and ExbB-ExbD isolated from Escherichia coli as revealed by LILBID mass spectrometry.
    7. Proton-motive force is required for the interaction of ExbD and TonB periplasmic domains trapped by formaldehyde cross-linking.
      Title: Cytoplasmic membrane protonmotive force energizes periplasmic interactions between ExbD and TonB.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by EcoCyc

    Function Evidence Code Pubs
    enables energy transducer activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein homodimerization activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables transmembrane transporter activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in bacteriocin transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cobalamin transport NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in intracellular iron ion homeostasis NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in intracellular monoatomic cation homeostasis NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    acts_upstream_of_or_within protein stabilization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in protein transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in transmembrane transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cell outer membrane NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in membrane NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of plasma membrane protein complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of transmembrane transporter complex NAS
    Non-traceable Author Statement
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    Ton complex subunit ExbD

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference assembly

    Genomic

    1. NC_000913.3 Reference assembly

      Range
      3150818..3151243 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_417478.1 Ton complex subunit ExbD [Escherichia coli str. K-12 substr. MG1655]

      See identical proteins and their annotated locations for NP_417478.1

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A376M2F8, A0A5D8MUR0
      Conserved Domains (1) summary
      PRK11267
      Location:1 → 141
      PRK11267; biopolymer transport protein ExbD; Provisional
    Nucleotide Protein
    Heading Accession and Version

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