U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from Nucleotide

    • Showing Current items.

    Thap4 THAP domain containing 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 363291, updated on 27-Nov-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Thap4provided by RGD
    Official Full Name
    THAP domain containing 4provided by RGD
    Primary source
    RGD:1359473
    See related
    EnsemblRapid:ENSRNOG00000018351 AllianceGenome:RGD:1359473
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Nb(III)
    Summary
    Predicted to enable several functions, including heme binding activity; nitric oxide binding activity; and peroxynitrite isomerase activity. Predicted to be involved in nitrate metabolic process and tyrosine metabolic process. Predicted to be located in cytosol and nucleoplasm. Orthologous to human THAP4 (THAP domain containing 4). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Kidney (RPKM 101.9), Adrenal (RPKM 85.6) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Thap4 in Genome Data Viewer
    Location:
    9q36
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (101689935..101729656, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (94242581..94282312, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (100848597..100888107, complement)

    Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene serine/threonine kinase 25 Neighboring gene BCL2 family apoptosis regulator BOK Neighboring gene autophagy related 4B, cysteine peptidase Neighboring gene deoxythymidylate kinase

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Mutation of the Thap4 gene causes dwarfism and testicular anomalies in rats and mice. Katayama K, et al. Mamm Genome, 2024 Jun. PMID 38658415
    2. Structure of the C-terminal heme-binding domain of THAP domain containing protein 4 from Homo sapiens. Bianchetti CM, et al. Proteins, 2011 Apr. PMID 21387410, Free PMC Article
    3. Human nitrobindin: the first example of an all-β-barrel ferric heme-protein that catalyzes peroxynitrite detoxification. De Simone G, et al. FEBS Open Bio, 2018 Dec. PMID 30524950, Free PMC Article
    4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Mutation of the Thap4 gene causes dwarfism and testicular anomalies in rats and mice.
      Title: Mutation of the Thap4 gene causes dwarfism and testicular anomalies in rats and mice.
    Submit: New GeneRIF Correction

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Clone Names

    • MGC93755

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables heme binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nitric oxide binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables nitric oxide binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables peroxynitrite isomerase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables peroxynitrite isomerase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in nitrate metabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in nitrate metabolic process ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in tyrosine metabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in tyrosine metabolic process ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    peroxynitrite isomerase THAP4
    Names
    THAP domain-containing protein 4
    ferric nitrobindin

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_001005564.1 → NP_001005564.1  peroxynitrite isomerase THAP4

      See identical proteins and their annotated locations for NP_001005564.1

      Status: PROVISIONAL

      Source sequence(s)
      BC081882
      UniProtKB/Swiss-Prot
      Q642B6
      UniProtKB/TrEMBL
      A0A8I6ANL8, A6JR27
      Related
      ENSRNOP00000024794.4, ENSRNOT00000024794.6
      Conserved Domains (2) summary
      pfam05485
      Location:4 → 86
      THAP; THAP domain
      pfam08768
      Location:414 → 566
      DUF1794; Domain of unknown function (DUF1794)

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086027.1 Reference GRCr8

      Range
      101689935..101729656 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039083932.2 → XP_038939860.1  peroxynitrite isomerase THAP4 isoform X1

      UniProtKB/TrEMBL
      A0A8I6ANL8
      Conserved Domains (4) summary
      PHA03377
      Location:138 → 322
      PHA03377; EBNA-3C; Provisional
      smart00980
      Location:4 → 85
      THAP; The THAP domain is a putative DNA-binding domain (DBD) and probably also binds a zinc ion
      pfam09486
      Location:342 → 389
      HrpB7; Bacterial type III secretion protein (HrpB7)
      cd07828
      Location:414 → 501
      lipocalin_heme-bd-THAP4-like; heme-binding beta-barrel domain of human THAP4, Arabidopsis thaliana nitrobindin, and similar proteins

    2. XM_008767380.4 → XP_008765602.1  peroxynitrite isomerase THAP4 isoform X2

      UniProtKB/TrEMBL
      A0A8I5YBX9
      Conserved Domains (1) summary
      pfam08768
      Location:60 → 212
      DUF1794; Domain of unknown function (DUF1794)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q642B6.1 GenPept UniProtKB/Swiss-Prot:Q642B6

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools