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xdh xanthine dehydrogenase [ Danio rerio (zebrafish) ]

Gene ID: 560486, updated on 7-Apr-2025

Summary

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Official Symbol
xdhprovided by ZNC
Official Full Name
xanthine dehydrogenaseprovided by ZNC
Primary source
ZFIN:ZDB-GENE-070719-9
See related
Ensembl:ENSDARG00000055240 AllianceGenome:ZFIN:ZDB-GENE-070719-9
Gene type
protein coding
RefSeq status
MODEL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
im:7146167
Summary
Predicted to enable xanthine dehydrogenase activity. Predicted to be involved in xanthine catabolic process. Predicted to be located in peroxisome. Predicted to be active in extracellular space. Is expressed in neural crest cell and xanthoblast. Human ortholog(s) of this gene implicated in several diseases, including Lesch-Nyhan syndrome; cardiovascular system disease (multiple); chronic kidney disease; hyperuricemia; and xanthinuria type I. Orthologous to human XDH (xanthine dehydrogenase). [provided by Alliance of Genome Resources, Apr 2025]
Orthologs
human mouse all
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Genomic context

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See xdh in Genome Data Viewer
Location:
chromosome: 17
Exon count:
36
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 17 NC_007128.7 (33340825..33374290)
105 previous assembly GRCz10 (GCF_000002035.5) 17 NC_007128.6 (33388263..33421878)

Chromosome 17 - NC_007128.7Genomic Context describing neighboring genes Neighboring gene si:ch211-132f19.7 Neighboring gene DnaJ (Hsp40) homolog, subfamily C, member 27 Neighboring gene zgc:162964 Neighboring gene epithelial cell transforming 2 like

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. An ongoing role for Wnt signaling in differentiating melanocytes in vivo. Vibert L, et al. Pigment Cell Melanoma Res, 2017 Mar. PMID 27977907, Free PMC Article
  2. Histone H3.3 beyond cancer: Germline mutations in Histone 3 Family 3A and 3B cause a previously unidentified neurodegenerative disorder in 46 patients. Bryant L, et al. Sci Adv, 2020 Dec. PMID 33268356, Free PMC Article
  3. Zebrafish endzone regulates neural crest-derived chromatophore differentiation and morphology. Arduini BL, et al. PLoS One, 2008 Jul 30. PMID 18665240, Free PMC Article
  4. Pigment patterns in adult fish result from superimposition of two largely independent pigmentation mechanisms. Ceinos RM, et al. Pigment Cell Melanoma Res, 2015 Mar. PMID 25469713
  5. Thifluzamide affects lipid metabolism in zebrafish (Danio reio). Yang Y, et al. Sci Total Environ, 2018 Aug 15. PMID 29758875

See all (24) citations in PubMed

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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General gene information

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Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables 2 iron, 2 sulfur cluster binding IEA
Inferred from Electronic Annotation
more info
  
enables FAD binding IEA
Inferred from Electronic Annotation
more info
  
enables flavin adenine dinucleotide binding IEA
Inferred from Electronic Annotation
more info
  
enables iron ion binding IEA
Inferred from Electronic Annotation
more info
  
enables iron-sulfur cluster binding IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables molybdenum ion binding IEA
Inferred from Electronic Annotation
more info
  
enables molybdopterin cofactor binding IEA
Inferred from Electronic Annotation
more info
  
enables oxidoreductase activity IEA
Inferred from Electronic Annotation
more info
  
enables xanthine dehydrogenase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables xanthine dehydrogenase activity IEA
Inferred from Electronic Annotation
more info
  
enables xanthine oxidase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in xanthine catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in peroxisome IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
xanthine dehydrogenase/oxidase
XP_688983.3

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007128.7 Reference GRCz11 Primary Assembly

    Range
    33340825..33374290
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_683891.8 → XP_688983.3  xanthine dehydrogenase/oxidase

    UniProtKB/TrEMBL
    A0A8N7UV58, E7F022
    Related
    ENSDARP00000072020.5, ENSDART00000077553.7
    Conserved Domains (7) summary
    PLN02906
    Location:36 → 1336
    PLN02906; xanthine dehydrogenase
    cd00207
    Location:20 → 92
    fer2; 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis ...
    pfam00941
    Location:253 → 428
    FAD_binding_5; FAD binding domain in molybdopterin dehydrogenase
    pfam01315
    Location:607 → 714
    Ald_Xan_dh_C; Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain
    pfam01799
    Location:100 → 171
    Fer2_2; [2Fe-2S] binding domain
    pfam02738
    Location:734 → 1258
    Ald_Xan_dh_C2; Molybdopterin-binding domain of aldehyde dehydrogenase
    pfam03450
    Location:436 → 540
    CO_deh_flav_C; CO dehydrogenase flavoprotein C-terminal domain
Nucleotide Protein Strain
Heading Accession and Version

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