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    NDST4 N-deacetylase and N-sulfotransferase 4 [ Homo sapiens (human) ]

    Gene ID: 64579, updated on 2-Nov-2024

    Summary

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    Official Symbol
    NDST4provided by HGNC
    Official Full Name
    N-deacetylase and N-sulfotransferase 4provided by HGNC
    Primary source
    HGNC:HGNC:20779
    See related
    Ensembl:ENSG00000138653 MIM:615039; AllianceGenome:HGNC:20779
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    N-HSST; NDST-4; NHSST4; N-HSST 4
    Summary
    Predicted to enable [heparan sulfate]-glucosamine N-sulfotransferase activity and deacetylase activity. Predicted to be involved in heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process. Predicted to be located in Golgi membrane. Predicted to be active in Golgi apparatus. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Low expression observed in reference dataset See more
    Orthologs
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    Genomic context

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    See NDST4 in Genome Data Viewer
    Location:
    4q26
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (114827763..115113620, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (118130762..118416573, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (115748919..116034776, complement)

    Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124900763 Neighboring gene uncharacterized LOC105377382 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21841 Neighboring gene ReSE screen-validated silencer GRCh37_chr4:115729032-115729235 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21842 Neighboring gene RNA, 7SL, cytoplasmic 808, pseudogene Neighboring gene uncharacterized LOC124900764 Neighboring gene mitochondrial ribosomal protein S33 pseudogene 3 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr4:116140441-116141010 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr4:116339738-116340356 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr4:116340357-116340976 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr4:116517558-116518201 Neighboring gene ribosome production factor 2 homolog pseudogene 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. Characterization of heparan sulfate N-deacetylase/N-sulfotransferase isoform 4 using synthetic oligosaccharide substrates. Li YJ, et al. Biochim Biophys Acta Gen Subj, 2018 Mar. PMID 29158133
    2. NDST4 is a novel candidate tumor suppressor gene at chromosome 4q26 and its genetic loss predicts adverse prognosis in colorectal cancer. Tzeng ST, et al. PLoS One, 2013. PMID 23825612, Free PMC Article
    3. Genome-wide association studies of maximum number of drinks. Pan Y, et al. J Psychiatr Res, 2013 Nov. PMID 23953852, Free PMC Article
    4. Genome-wide association analysis identifies TYW3/CRYZ and NDST4 loci associated with circulating resistin levels. Qi Q, et al. Hum Mol Genet, 2012 Nov 1. PMID 22843503, Free PMC Article
    5. Multiple isozymes of heparan sulfate/heparin GlcNAc N-deacetylase/GlcN N-sulfotransferase. Structure and activity of the fourth member, NDST4. Aikawa J, et al. J Biol Chem, 2001 Feb 23. PMID 11087757

    See all (12) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Highly-purified recombinant NDST-4 and a selective library of structurally-defined oligosaccharides were employed to determine the substrate specificity of rNDST-4. Full-length rNDST-4 lacks obvious N-deacetylase activity, and displays only N-sulfotransferase activity. NDST-4 did not show directional N-sulfotransferase activity while the N-deacetylase domain was inactive.
      Title: Characterization of heparan sulfate N-deacetylase/N-sulfotransferase isoform 4 using synthetic oligosaccharide substrates.
    2. The rs12108602 near NDST4 showed significant associations with MaxDrinks.
      Title: Genome-wide association studies of maximum number of drinks.
    3. NDST4 gene is a novel candidate tumor suppressor gene in human cancer.
      Title: NDST4 is a novel candidate tumor suppressor gene at chromosome 4q26 and its genetic loss predicts adverse prognosis in colorectal cancer.
    4. Our results suggest that genetic variants in TYW3/CRYZ and NDST4 loci may be involved in the regulation of circulating resistin levels
      Title: Genome-wide association analysis identifies TYW3/CRYZ and NDST4 loci associated with circulating resistin levels.
    5. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
      Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
    6. Observational study of gene-disease association. (HuGE Navigator)
      Title: A systematic gene-based screen of chr4q22-q32 identifies association of a novel susceptibility gene, DKK2, with the quantitative trait of alcohol dependence symptom counts.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    A genome-wide association study (GWAS) for bronchopulmonary dysplasia.
    EBI GWAS Catalog
    Genome-wide association analysis identifies TYW3/CRYZ and NDST4 loci associated with circulating resistin levels.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables N-acetylglucosamine deacetylase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables [heparan sulfate]-glucosamine N-sulfotransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables deacetylase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in heparin biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in Golgi apparatus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in Golgi membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    bifunctional heparan sulfate N-deacetylase/N-sulfotransferase 4
    Names
    N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 4
    N-deacetylase/N-sulfotransferase 4
    N-heparan sulfate sulfotransferase 4
    glucosaminyl N-deacetylase/N-sulfotransferase 4
    NP_072091.1
    XP_016864034.1
    XP_016864035.1
    XP_054206692.1
    XP_054206693.1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_022569.3 → NP_072091.1  bifunctional heparan sulfate N-deacetylase/N-sulfotransferase 4

      See identical proteins and their annotated locations for NP_072091.1

      Status: VALIDATED

      Source sequence(s)
      AB036429, AC110777, AK289670, BC012326
      Consensus CDS
      CCDS3706.1
      UniProtKB/Swiss-Prot
      Q2KHM8, Q9H3R1
      UniProtKB/TrEMBL
      A8K0V5
      Related
      ENSP00000264363.2, ENST00000264363.7
      Conserved Domains (2) summary
      pfam00685
      Location:594 → 845
      Sulfotransfer_1; Sulfotransferase domain
      pfam12062
      Location:20 → 505
      HSNSD; heparan sulfate-N-deacetylase

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000004.12 Reference GRCh38.p14 Primary Assembly

      Range
      114827763..115113620 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017008545.3 → XP_016864034.1  bifunctional heparan sulfate N-deacetylase/N-sulfotransferase 4 isoform X1

    2. XM_017008546.2 → XP_016864035.1  bifunctional heparan sulfate N-deacetylase/N-sulfotransferase 4 isoform X1

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060928.1 Alternate T2T-CHM13v2.0

      Range
      118130762..118416573 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054350717.1 → XP_054206692.1  bifunctional heparan sulfate N-deacetylase/N-sulfotransferase 4 isoform X1

    2. XM_054350718.1 → XP_054206693.1  bifunctional heparan sulfate N-deacetylase/N-sulfotransferase 4 isoform X1

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9H3R1.1 GenPept UniProtKB/Swiss-Prot:Q9H3R1

    Gene LinkOut

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

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