U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    kdsD D-arabinose 5-phosphate isomerase KdsD [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 947734, updated on 3-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    kdsD
    Official Full Name
    D-arabinose 5-phosphate isomerase KdsD
    Primary source
    ECOCYC:G7662
    Locus tag
    b3197
    See related
    ASAP:ABE-0010504
    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
    ECK3186; yrbH
    Summary
    KdsD is homologous to GutQ and KpsF. [More information is available at EcoGene: EG12803]. D-arabinose-5-phosphate is a precursor for KDO (2-keto-3-deoxy-octonate), a constituent in the cell wall lipopolysaccharide. [More information is available at EcoCyc: G7662].
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    Sequence:
    NC_000913.3 (3341266..3342252)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene intermembrane phospholipid transport system, ATP binding subunit MlaF Neighboring gene putative transport protein YrbG Neighboring gene 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase KdsC Neighboring gene lipopolysaccharide transport system protein LptC Neighboring gene lipopolysaccharide transport system protein LptA

    Genomic regions, transcripts, and products

    Go to the top of the page Help
    Genomic Sequence:
    NC_000913.3

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Structure prediction and functional analysis of KdsD, an enzyme involved in lipopolysaccharide biosynthesis. Sommaruga S, et al. Biochem Biophys Res Commun, 2009 Oct 16. PMID 19664604
    2. Escherichia coli YrbH is a D-arabinose 5-phosphate isomerase. Meredith TC, et al. J Biol Chem, 2003 Aug 29. PMID 12805358
    3. D-phosphoarabinoisomerase and D-ribulokinase in Escherichia coli. Lim R, et al. J Biol Chem, 1966 Oct 10. PMID 5332197
    4. Identification of GutQ from Escherichia coli as a D-arabinose 5-phosphate isomerase. Meredith TC, et al. J Bacteriol, 2005 Oct. PMID 16199563, Free PMC Article
    5. Single amino acid substitutions in either YhjD or MsbA confer viability to 3-deoxy-d-manno-oct-2-ulosonic acid-depleted Escherichia coli. Mamat U, et al. Mol Microbiol, 2008 Feb. PMID 18093093

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The structure of the KdsD SIS domain has been predicted by homology modeling using the hypothetical 3etn protein as a template.
      Title: Structure prediction and functional analysis of KdsD, an enzyme involved in lipopolysaccharide biosynthesis.
    Submit: New GeneRIF Correction

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Homology

    Gene Ontology Provided by EcoCyc

    Function Evidence Code Pubs
    enables arabinose-5-phosphate isomerase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables arabinose-5-phosphate isomerase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables carbohydrate derivative binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables identical protein binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables isomerase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in carbohydrate derivative metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in carbohydrate metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within keto-3-deoxy-D-manno-octulosonic acid biosynthetic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within keto-3-deoxy-D-manno-octulosonic acid biosynthetic process IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in lipopolysaccharide biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within protein homotetramerization IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

    Go to the top of the page Help
    Preferred Names
    D-arabinose 5-phosphate isomerase KdsD
    NP_417664.1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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
      3341266..3342252
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_417664.1 D-arabinose 5-phosphate isomerase KdsD [Escherichia coli str. K-12 substr. MG1655]

      See identical proteins and their annotated locations for NP_417664.1

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A376FYV7, A0A376JTI0, A0A403CYH1
      Conserved Domains (1) summary
      PRK10892
      Location:3 → 328
      PRK10892; arabinose-5-phosphate isomerase KdsD
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.