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

Gene ID: 64579, updated on 5-Mar-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 integral component of membrane. Predicted to be active in Golgi apparatus. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Low expression observed in reference dataset See more
Orthologs
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Genomic context

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Location:
4q26
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (114827763..115113620, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (118130762..118416573, complement)
105.20220307 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)

Genotypes

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_2023_10

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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