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TGDS TDP-glucose 4,6-dehydratase [ Homo sapiens (human) ]

Gene ID: 23483, updated on 10-Dec-2019

Summary

Official Symbol
TGDSprovided by HGNC
Official Full Name
TDP-glucose 4,6-dehydrataseprovided by HGNC
Primary source
HGNC:HGNC:20324
See related
Ensembl:ENSG00000088451 MIM:616146
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
TDPGD; SDR2E1; CATMANS
Summary
The protein encoded by this gene is a member of the short-chain dehydrogenases/reductases (SDR) superfamily, and is thought to contain a nicotinamide adenine dinucleotide (NAD) binding domain. This large SDR family of enzymes is involved in the metabolism of a variety of compounds, including prostaglandins, retinoids, lipids, steroid hormones, and xenobiotics. Mutations in this gene have been associated with Catel-Manzke syndrome, which is characterized by Pierre Robin sequence, and radial deviation of the index finger due to the presence of an accessory bone between the index finger and its proximal phalanx. Pierre Robin sequence is defined by an undersized jaw, backwards displacement of the tongue base that causes an obstruction of the airways, and can also be associated with a cleft palate. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jan 2015]
Expression
Ubiquitous expression in thyroid (RPKM 7.9), liver (RPKM 6.7) and 25 other tissues See more
Orthologs

Genomic context

See TGDS in Genome Data Viewer
Location:
13q32.1
Exon count:
13
Annotation release Status Assembly Chr Location
109.20191205 current GRCh38.p13 (GCF_000001405.39) 13 NC_000013.11 (94574054..94596274, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (95226308..95248511, complement)

Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene dopachrome tautomerase Neighboring gene tRNA-Phe (anticodon GAA) 1-5 Neighboring gene G protein-coupled receptor 180 Neighboring gene NADH:ubiquinone oxidoreductase subunit A3 pseudogene 5 Neighboring gene RNA, 5S ribosomal pseudogene 36

Genomic regions, transcripts, and products

Expression

  • 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

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of TDP-glucose 4,6-dehydratase (TGDS) by siRNA inhibits HIV-1 replication in HeLa P4/R5 cells PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
dTDP-glucose 4,6-dehydratase activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
nucleotide-sugar metabolic process IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
dTDP-D-glucose 4,6-dehydratase
Names
growth-inhibiting protein 21
short chain dehydrogenase/reductase family 2E, member 1
NP_001291359.1
NP_055120.1
XP_011519367.1
XP_011519368.1

NCBI Reference Sequences (RefSeq)

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.

Genomic

  1. NG_041837.1 RefSeqGene

    Range
    5124..27222
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001304430.2NP_001291359.1  dTDP-D-glucose 4,6-dehydratase isoform 2

    See identical proteins and their annotated locations for NP_001291359.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site in the 5' terminal exon, and uses a downstream start codon, compared to variant 1. The encoded isoform (2) has a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    BC033675, BI914642
    UniProtKB/Swiss-Prot
    O95455
    Conserved Domains (2) summary
    cd05246
    Location:1304
    dTDP_GD_SDR_e; dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs
    TIGR01181
    Location:2306
    dTDP_gluc_dehyt; dTDP-glucose 4,6-dehydratase
  2. NM_014305.4NP_055120.1  dTDP-D-glucose 4,6-dehydratase isoform 1

    See identical proteins and their annotated locations for NP_055120.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    BC033675
    Consensus CDS
    CCDS9471.1
    UniProtKB/Swiss-Prot
    O95455
    Related
    ENSP00000261296.5, ENST00000261296.7
    Conserved Domains (1) summary
    cd05246
    Location:18336
    dTDP_GD_SDR_e; dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs

RNA

  1. NR_130731.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) uses an alternate splice site in an internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    BC033675, BG702561
  2. NR_130732.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) lacks an alternate internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    BC033675, BG546428

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000013.11 Reference GRCh38.p13 Primary Assembly

    Range
    94574054..94596274 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011521065.2XP_011519367.1  dTDP-D-glucose 4,6-dehydratase isoform X1

    See identical proteins and their annotated locations for XP_011519367.1

    Conserved Domains (2) summary
    cd05246
    Location:1304
    dTDP_GD_SDR_e; dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs
    TIGR01181
    Location:2306
    dTDP_gluc_dehyt; dTDP-glucose 4,6-dehydratase
  2. XM_011521066.2XP_011519368.1  dTDP-D-glucose 4,6-dehydratase isoform X1

    See identical proteins and their annotated locations for XP_011519368.1

    Conserved Domains (2) summary
    cd05246
    Location:1304
    dTDP_GD_SDR_e; dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs
    TIGR01181
    Location:2306
    dTDP_gluc_dehyt; dTDP-glucose 4,6-dehydratase
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