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    yddB putative TonB-dependent receptor YddB [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 945961, updated on 3-Dec-2024

    Summary

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    Official Symbol
    yddB
    Official Full Name
    putative TonB-dependent receptor YddB
    Primary source
    ECOCYC:EG11743
    Locus tag
    b1495
    See related
    ASAP:ABE-0004982
    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
    ECK1489
    Summary
    The first 19 aa are a weakly predicted type I signal peptide. [More information is available at EcoGene: EG11743]. YddA was found, in random transposon mutagenesis studies, to be required for growth in optimum (rich medium at 37 degrees C) growth conditions but not under cold conditions (15 degrees C) or in minimal medium . [More information is available at EcoCyc: EG11743].
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    Genomic context

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    Sequence:
    NC_000913.3 (1575247..1577619, complement)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene glutamate decarboxylase B Neighboring gene periplasmic metalloprotease Neighboring gene ABC transporter family protein YddA Neighboring gene protein YneP Neighboring gene putative anaerobic sulfatase maturation enzyme YdeM

    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. Dissecting Escherichia coli outer membrane biogenesis using differential proteomics. Martorana AM, et al. PLoS One, 2014. PMID 24967819, Free PMC Article
    2. Protease-associated import systems are widespread in Gram-negative bacteria. Grinter R, et al. PLoS Genet, 2019 Oct. PMID 31613892, Free PMC Article
    3. Sequence and functional analysis of an Escherichia coli DNA fragment able to complement pqqE and pqqF mutants from Methylobacterium organophilum. Turlin E, et al. Biochimie, 1996. PMID 9116051
    4. Fishing new proteins in the twilight zone of genomes: the test case of outer membrane proteins in Escherichia coli K12, Escherichia coli O157:H7, and other Gram-negative bacteria. Casadio R, et al. Protein Sci, 2003 Jun. PMID 12761386, Free PMC Article
    5. BOMP: a program to predict integral beta-barrel outer membrane proteins encoded within genomes of Gram-negative bacteria. Berven FS, et al. Nucleic Acids Res, 2004 Jul 1. PMID 15215418, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by EcoCyc

    Process Evidence Code Pubs
    acts_upstream_of_or_within iron coordination entity transport RCA
    inferred from Reviewed Computational Analysis
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cell outer membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cell outer membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cell outer membrane RCA
    inferred from Reviewed Computational Analysis
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    putative TonB-dependent receptor YddB

    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
      1575247..1577619 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_416012.1 putative TonB-dependent receptor YddB [Escherichia coli str. K-12 substr. MG1655]

      See identical proteins and their annotated locations for NP_416012.1

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A8S7EIE7
      Conserved Domains (1) summary
      cl21487
      Location:49 → 790
      OM_channels; Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20) ...
    Nucleotide Protein
    Heading Accession and Version

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