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Aliases for HGD Gene

Aliases for HGD Gene

  • Homogentisate 1,2-Dioxygenase 2 3
  • Homogentisic Acid Oxidase 3 4
  • Homogentisate Oxygenase 3 4
  • Homogentisate Oxidase 2 3
  • Homogentisicase 3 4
  • EC 4 63
  • HGO 3 4
  • Homogentisate 1,2-Dioxygenase (Homogentisate Oxidase) 2
  • AKU 3

External Ids for HGD Gene

Previous HGNC Symbols for HGD Gene

  • AKU

Previous GeneCards Identifiers for HGD Gene

  • GC03M116980
  • GC03M119987
  • GC03M121628
  • GC03M121667
  • GC03M121829
  • GC03P9I0013
  • GC03M120347
  • GC03M117720

Summaries for HGD Gene

Entrez Gene Summary for HGD Gene

  • This gene encodes the enzyme homogentisate 1,2 dioxygenase. This enzyme is involved in the catabolism of the amino acids tyrosine and phenylalanine. Mutations in this gene are the cause of the autosomal recessive metabolism disorder alkaptonuria.[provided by RefSeq, May 2010]

GeneCards Summary for HGD Gene

HGD (Homogentisate 1,2-Dioxygenase) is a Protein Coding gene. Diseases associated with HGD include alkaptonuria and ochronosis. Among its related pathways are Metabolism and CDK-mediated phosphorylation and removal of Cdc6. GO annotations related to this gene include homogentisate 1,2-dioxygenase activity.

No data available for UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HGD Gene

Genomics for HGD Gene

Genomic Location for HGD Gene

120,628,168 bp from pter
120,682,571 bp from pter
54,404 bases
Minus strand

Genomic View for HGD Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for HGD Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HGD Gene

Proteins for HGD Gene

  • Protein details for HGD Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Homogentisate 1,2-dioxygenase
    Protein Accession:
    Secondary Accessions:
    • A8K417
    • B2R8Z0

    Protein attributes for HGD Gene

    445 amino acids
    Molecular mass:
    49964 Da
    Name=Fe cation; Xref=ChEBI:CHEBI:24875;
    Quaternary structure:
    • Homohexamer arranged as a dimer of trimers.

    Three dimensional structures from OCA and Proteopedia for HGD Gene

neXtProt entry for HGD Gene

Proteomics data for HGD Gene at MOPED

Post-translational modifications for HGD Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for HGD Gene

Antibody Products

Domains & Families for HGD Gene

Protein Domains for HGD Gene

Suggested Antigen Peptide Sequences for HGD Gene

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the homogentisate dioxygenase family.
  • Belongs to the homogentisate dioxygenase family.
genes like me logo Genes that share domains with HGD: view

No data available for Gene Families for HGD Gene

Function for HGD Gene

Molecular function for HGD Gene

GENATLAS Biochemistry:
homogentisate 1,2 dioxygenase (49kDa),catalyzing the third step of tyrosine catabolism
UniProtKB/Swiss-Prot CatalyticActivity:
Homogentisate + O(2) = 4-maleylacetoacetate

Enzyme Numbers (IUBMB) for HGD Gene

Gene Ontology (GO) - Molecular Function for HGD Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004411 homogentisate 1,2-dioxygenase activity EXP --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with HGD: view
genes like me logo Genes that share phenotypes with HGD: view

Animal Model Products

miRNA for HGD Gene

miRTarBase miRNAs that target HGD

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for HGD

In Situ Assay Products

Flow Cytometry Products

No data available for Animal Models , Transcription Factor Targets and HOMER Transcription for HGD Gene

Localization for HGD Gene

Subcellular locations from

Jensen Localization Image for HGD Gene COMPARTMENTS Subcellular localization image for HGD gene
Compartment Confidence
extracellular 5
cytosol 4
nucleus 2

Gene Ontology (GO) - Cellular Components for HGD Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005829 cytosol TAS --
GO:0070062 extracellular exosome IDA 19056867
genes like me logo Genes that share ontologies with HGD: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for HGD Gene

Pathways & Interactions for HGD Gene

genes like me logo Genes that share pathways with HGD: view

PCR Array Products

  • Pathway & Disease-focused RT² Profiler PCR Arrays

UniProtKB/Swiss-Prot Q93099-HGD_HUMAN

  • Pathway: Amino-acid degradation; L-phenylalanine degradation; acetoacetate and fumarate from L-phenylalanine: step 4/6

Gene Ontology (GO) - Biological Process for HGD Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006520 cellular amino acid metabolic process --
GO:0006559 L-phenylalanine catabolic process TAS --
GO:0006570 tyrosine metabolic process --
GO:0006572 tyrosine catabolic process IEA --
GO:0034641 cellular nitrogen compound metabolic process TAS --
genes like me logo Genes that share ontologies with HGD: view

No data available for SIGNOR curated interactions for HGD Gene

Drugs & Compounds for HGD Gene

(8) Drugs for HGD Gene - From: ClinicalTrials and NovoSeek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Bevacizumab Approved, Investigational Pharma VEGF antagonist, Therapeutic Antibodies, Vascular endothelial growth factor (VEGF) and VEGF receptor (VEGFR) inhibitors 1820
acetic acid Approved Nutra Full agonist, Agonist 80
Vitamin A Approved Nutra 386
Retinol acetate Pharma Unsaturated nutritional hydrocarbons 77
Retinol palmitate Pharma 386

(6) Additional Compounds for HGD Gene - From: HMDB and NovoSeek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
  • Armco iron
  • Carbonyl iron
  • FE
  • Ferrovac e
  • Hematite
Homogentisic acid
  • (2,5-dihydroxyphenyl)-Acetate
  • (2,5-dihydroxyphenyl)-Acetic acid
  • 2,5-Dihydroxy-a-toluate
  • 2,5-Dihydroxy-a-toluic acid
  • 2,5-Dihydroxy-alpha-toluate
Maleylacetoacetic acid
  • 4-Maleylacetoacetate
  • 4-Maleylacetoacetic acid
  • Maleylacetoacetate
  • Dioxygen
  • Molecular oxygen
  • O2
  • Oxygen
  • Oxygen molecule
genes like me logo Genes that share compounds with HGD: view

Transcripts for HGD Gene

Unigene Clusters for HGD Gene

Homogentisate 1,2-dioxygenase:
Representative Sequences:

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for HGD

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for HGD Gene

ExUns: 1a · 1b ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10a · 10b · 10c ^ 11a · 11b ^ 12a · 12b ^ 13a · 13b ^ 14a · 14b
SP1: - - -
SP2: - - - - -
SP3: - - - - - - -

Relevant External Links for HGD Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for HGD Gene

mRNA expression in normal human tissues for HGD Gene

mRNA differential expression in normal tissues according to GTEx for HGD Gene

This gene is overexpressed in Liver (x31.7) and Kidney - Cortex (x8.5).

Protein differential expression in normal tissues from HIPED for HGD Gene

This gene is overexpressed in Liver, secretome (41.0) and Liver (11.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for HGD Gene

SOURCE GeneReport for Unigene cluster for HGD Gene Hs.368254

mRNA Expression by UniProt/SwissProt for HGD Gene

Tissue specificity: Highest expression in the prostate, small intestine, colon, kidney and liver
genes like me logo Genes that share expression patterns with HGD: view

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and Protein tissue co-expression partners for HGD Gene

Orthologs for HGD Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for HGD Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia HGD 35
  • 91.24 (n)
  • 94.38 (a)
HGD 36
  • 94 (a)
(Canis familiaris)
Mammalia HGD 35
  • 91.16 (n)
  • 94.61 (a)
HGD 36
  • 95 (a)
(Mus musculus)
Mammalia Hgd 35
  • 88.44 (n)
  • 92.79 (a)
Hgd 16
Hgd 36
  • 93 (a)
(Pan troglodytes)
Mammalia HGD 35
  • 99.78 (n)
  • 99.33 (a)
HGD 36
  • 99 (a)
(Rattus norvegicus)
Mammalia Hgd 35
  • 88.44 (n)
  • 91.22 (a)
(Monodelphis domestica)
Mammalia HGD 36
  • 90 (a)
(Ornithorhynchus anatinus)
Mammalia HGD 36
  • 76 (a)
(Gallus gallus)
Aves HGD 35
  • 76.92 (n)
  • 83.6 (a)
HGD 36
  • 84 (a)
(Anolis carolinensis)
Reptilia HGD 36
  • 75 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia hgd 35
  • 72.95 (n)
  • 77.7 (a)
Str.8815 35
(Danio rerio)
Actinopterygii hgd 35
  • 72.54 (n)
  • 80.78 (a)
hgd 36
  • 80 (a)
fruit fly
(Drosophila melanogaster)
Insecta hgo 37
  • 65 (a)
hgo 35
  • 65.59 (n)
  • 67.44 (a)
hgo 36
  • 67 (a)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP009609 35
  • 61.03 (n)
  • 66.67 (a)
(Caenorhabditis elegans)
Secernentea hgo-1 35
  • 61.83 (n)
  • 66.98 (a)
hgo-1 36
  • 65 (a)
thale cress
(Arabidopsis thaliana)
eudicotyledons HGO 35
  • 60.27 (n)
  • 60.19 (a)
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.12262 35
(Hordeum vulgare)
Liliopsida Hv.8867 35
(Oryza sativa)
Liliopsida Os.11622 35
Os06g0103300 35
  • 58.14 (n)
  • 59.86 (a)
(Triticum aestivum)
Liliopsida Ta.6319 35
(Zea mays)
Liliopsida Zm.8772 35
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.14034 35
bread mold
(Neurospora crassa)
Ascomycetes NCU05499 35
  • 55.27 (n)
  • 53.54 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 66 (a)
Species with no ortholog for HGD:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)

Evolution for HGD Gene

Gene Tree for HGD (if available)
Gene Tree for HGD (if available)

Paralogs for HGD Gene

No data available for Paralogs for HGD Gene

Variants for HGD Gene

Sequence variations from dbSNP and Humsavar for HGD Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type MAF
rs104790 -- 120,639,559(+) TGGGT(A/C)TGAGA intron-variant
rs368272 -- 120,641,471(-) CCCTA(A/G)ATATA intron-variant
rs370523 -- 120,633,659(-) TAGAG(A/T)ACATT intron-variant
rs377286 -- 120,632,272(-) GCAGA(A/G)ACCTG intron-variant
rs384136 -- 120,634,368(-) TCTAT(G/T)GTATT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for HGD Gene

Variant ID Type Subtype PubMed ID
nsv877377 CNV Gain 21882294
nsv829699 CNV Loss 17160897
nsv877378 CNV Gain 21882294

Variation tolerance for HGD Gene

Residual Variation Intolerance Score: 21.78% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.13; 51.38% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for HGD Gene

HapMap Linkage Disequilibrium report
Human Gene Mutation Database (HGMD)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HGD Gene

Disorders for HGD Gene

MalaCards: The human disease database

(11) MalaCards diseases for HGD Gene - From: OMIM, ClinVar, GeneTests, Orphanet, Swiss-Prot, DISEASES, NovoSeek, and GeneCards

Disorder Aliases PubMed IDs
  • homogentisate 1,2-dioxygenase deficiency
lower urinary tract calculus
  • calculus of lower urinary tract
prostate calculus
  • stone of prostate
  • ankylosis of upper arm joint
- elite association
Search HGD in MalaCards View complete list of genes associated with diseases


  • Alkaptonuria (AKU) [MIM:203500]: An autosomal recessive error of metabolism characterized by an increase in the level of homogentisic acid. The clinical manifestations are urine that turns dark on standing and alkalinization, black ochronotic pigmentation of cartilage and collagenous tissues, and spine arthritis. {ECO:0000269 PubMed:10205262, ECO:0000269 PubMed:10340975, ECO:0000269 PubMed:10482952, ECO:0000269 PubMed:10594001, ECO:0000269 PubMed:19862842, ECO:0000269 PubMed:21437689, ECO:0000269 PubMed:23353776, ECO:0000269 PubMed:23430897, ECO:0000269 PubMed:25681086, ECO:0000269 PubMed:8782815, ECO:0000269 PubMed:9154114, ECO:0000269 PubMed:9529363, ECO:0000269 PubMed:9630082}. Note=The disease is caused by mutations affecting the gene represented in this entry.

Relevant External Links for HGD

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
genes like me logo Genes that share disorders with HGD: view

No data available for Genatlas for HGD Gene

Publications for HGD Gene

  1. The human gene for alkaptonuria (AKU) maps to chromosome 3q. (PMID: 8188241) Janocha S. … MA1ller C.R. (Genomics 1994) 2 23 67
  2. R58fs mutation in the HGD gene in a family with alkaptonuria in the UAE. (PMID: 18945288) Abdulrazzaq Y.M. … Ali B.R. (Ann. Hum. Genet. 2009) 23 67
  3. [Knee ochronotic arthropathy and arthroscopic findings]. (PMID: 19293619) Kural C. … Kaya I. (Acta Orthop Traumatol Turc 2009) 23 67
  4. Mutation spectrum of homogentisic acid oxidase (HGD) in alkaptonuria. (PMID: 19862842) Vilboux T. … Gahl W.A. (Hum. Mutat. 2009) 23 67
  5. A novel missense HGD gene mutation, K57N, in a patient with alkaptonuria. (PMID: 19306858) Grasko J.M. … Burnett J.R. (Clin. Chim. Acta 2009) 23 67

Products for HGD Gene

Sources for HGD Gene

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