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    ygjK glycoside hydrolase [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 947596, updated on 3-Dec-2024

    Summary

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    Official Symbol
    ygjK
    Official Full Name
    glycoside hydrolase
    Primary source
    ECOCYC:G7599
    Locus tag
    b3080
    See related
    ASAP:ABE-0010118
    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
    ECK3070
    Summary
    The first 22 aa are predicted to be a type I signal peptide. [More information is available at EcoGene: EG12722]. YgjK belongs to the glycoside hydrolase family 63 and was shown to possess -1,3-glucosyl hydrolase activity. [More information is available at EcoCyc: G7599].
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    Genomic context

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    Sequence:
    NC_000913.3 (3228888..3231239)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene putative transporter YgjI Neighboring gene protein YgjJ Neighboring gene 2,4-dienoyl-CoA reductase Neighboring gene antitoxin/DNA-binding transcriptional repressor HigA Neighboring gene ribosome-dependent mRNA interferase toxin HigB

    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. Crystal structure of the enzyme-product complex reveals sugar ring distortion during catalysis by family 63 inverting α-glycosidase. Miyazaki T, et al. J Struct Biol, 2016 Dec. PMID 27688023
    2. Crystallization and preliminary X-ray analysis of Escherichia coli K12 YgjK protein, a member of glycosyl hydrolase family 63. Tonozuka T, et al. Acta Crystallogr D Biol Crystallogr, 2004 Jul. PMID 15213393
    3. Glycosyltransferases, glycoside hydrolases: surprise, surprise! Henrissat B, et al. Curr Opin Struct Biol, 2008 Oct. PMID 18822375
    4. Over 1000 genes are involved in the DNA damage response of Escherichia coli. Khil PP, et al. Mol Microbiol, 2002 Apr. PMID 11967071
    5. Structural insights into the substrate specificity and function of Escherichia coli K12 YgjK, a glucosidase belonging to the glycoside hydrolase family 63. Kurakata Y, et al. J Mol Biol, 2008 Aug 1. PMID 18586271

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Comparison between these structures and the previously determined enzyme-substrate complex structure reveals that the glucose pyranose ring might be distorted immediately after nucleophilic attack by a water molecule. These structures represent the first enzyme-product complex for the GH63 family, as well as the structurally-related glycosidases, and it may provide insight into the catalytic mechanism of these enzymes
      Title: Crystal structure of the enzyme-product complex reveals sugar ring distortion during catalysis by family 63 inverting α-glycosidase.
    2. Escherichia coli K12 YgjK protein, a member of GH family 63, was overexpressed, purified and crystallized using the vapour-diffusion method and diffraction data were collected to 1.8 A resolution
      Title: Crystallization and preliminary X-ray analysis of Escherichia coli K12 YgjK protein, a member of glycosyl hydrolase family 63.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    Gene Ontology Provided by EcoCyc

    Function Evidence Code Pubs
    enables alpha,alpha-trehalase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables alpha,alpha-trehalase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables glucosidase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables hydrolase activity, acting on glycosyl bonds IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA damage response IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in oligosaccharide catabolic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in trehalose catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in trehalose metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of glucosidase complex IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    glycoside hydrolase

    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
      3228888..3231239
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_417551.1 glycoside hydrolase [Escherichia coli str. K-12 substr. MG1655]

      See identical proteins and their annotated locations for NP_417551.1

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A6N8NBF4
      Conserved Domains (1) summary
      PRK10137
      Location:1 → 782
      PRK10137; alpha-glucosidase; Provisional
    Nucleotide Protein
    Heading Accession and Version

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