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Dph6 diphthamine biosynthesis 6 [ Mus musculus (house mouse) ]

Gene ID: 66632, updated on 2-Nov-2024

Summary

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Official Symbol
Dph6provided by MGI
Official Full Name
diphthamine biosynthesis 6provided by MGI
Primary source
MGI:MGI:1913882
See related
Ensembl:ENSMUSG00000057147 AllianceGenome:MGI:1913882
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Atpbd4; 5730421E18Rik
Summary
Predicted to enable diphthine-ammonia ligase activity. Predicted to be involved in protein histidyl modification to diphthamide. Orthologous to human DPH6 (diphthamine biosynthesis 6). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in limb E14.5 (RPKM 4.9), bladder adult (RPKM 3.6) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Dph6 in Genome Data Viewer
Location:
2 E4; 2 57.74 cM
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (114346897..114485518, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (114516416..114655046, complement)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_05409 Neighboring gene predicted gene, 31146 Neighboring gene STARR-seq mESC enhancer starr_05410 Neighboring gene predicted gene, 54144 Neighboring gene STARR-seq mESC enhancer starr_05411 Neighboring gene STARR-positive B cell enhancer ABC_E11151 Neighboring gene STARR-positive B cell enhancer ABC_E5960 Neighboring gene ribosomal protein L7A pseudogene Neighboring gene VISTA enhancer mm1099 Neighboring gene STARR-seq mESC enhancer starr_05412 Neighboring gene predicted gene 13974

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Chemogenomic approach identified yeast YLR143W as diphthamide synthetase. Su X, et al. Proc Natl Acad Sci U S A, 2012 Dec 4. PMID 23169644, Free PMC Article
  2. A Genome-Wide Screen in Mice To Identify Cell-Extrinsic Regulators of Pulmonary Metastatic Colonisation. van der Weyden L, et al. G3 (Bethesda), 2020 Jun 1. PMID 32245826, Free PMC Article
  3. Characterization of the zinc-induced Shank3 interactome of mouse synaptosome. Lee Y, et al. Biochem Biophys Res Commun, 2017 Dec 16. PMID 29111324
  4. Mouse screen reveals multiple new genes underlying mouse and human hearing loss. Ingham NJ, et al. PLoS Biol, 2019 Apr. PMID 30973865, Free PMC Article
  5. BayGenomics: a resource of insertional mutations in mouse embryonic stem cells. Stryke D, et al. Nucleic Acids Res, 2003 Jan 1. PMID 12520002, Free PMC Article

See all (21) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 
  • Targeted (1) 

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 MGI

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables diphthine-ammonia ligase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables diphthine-ammonia ligase activity IEA
Inferred from Electronic Annotation
more info
  
enables diphthine-ammonia ligase activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in protein histidyl modification to diphthamide IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in protein histidyl modification to diphthamide IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
diphthine--ammonia ligase
Names
ATP binding domain 4
ATP-binding domain-containing protein 4
diphthamide synthase
diphthamide synthetase
protein DPH6 homolog
NP_001343367.1
NP_001343368.1
NP_079951.1
XP_006500082.1
XP_036018356.1

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_001356438.1 → NP_001343367.1  diphthine--ammonia ligase isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AK088160, AK145789, AL732404
    Consensus CDS
    CCDS89536.1
    Related
    ENSMUSP00000060730.8, ENSMUST00000055144.8
    Conserved Domains (1) summary
    cd01994
    Location:2 → 215
    Alpha_ANH_like_IV; This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily ...

  2. NM_001356439.1 → NP_001343368.1  diphthine--ammonia ligase isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an alternate internal exon and uses an alternate splice junction compared to variant 1. The resulting isoform (3) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AL732404
    Consensus CDS
    CCDS89535.1
    Related
    ENSMUSP00000028640.8, ENSMUST00000028640.14
    Conserved Domains (1) summary
    cd01994
    Location:2 → 189
    Alpha_ANH_like_IV; This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily ...

  3. NM_025675.5 → NP_079951.1  diphthine--ammonia ligase isoform 2

    See identical proteins and their annotated locations for NP_079951.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate splice junction in the 3' end compared to variant 1, that causes a frameshift. The resulting isoform (2) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AL732404
    Consensus CDS
    CCDS16567.1
    UniProtKB/Swiss-Prot
    Q3UL00, Q8R1W5, Q9CQ28
    Related
    ENSMUSP00000099601.4, ENSMUST00000102542.10
    Conserved Domains (1) summary
    cd01994
    Location:2 → 215
    Alpha_ANH_like_IV; This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily ...

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000068.8 Reference GRCm39 C57BL/6J

    Range
    114346897..114485518 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006500019.5 → XP_006500082.1  diphthine--ammonia ligase isoform X1

    Conserved Domains (1) summary
    cl00292
    Location:46 → 148
    AANH_like; Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide.

  2. XM_036162463.1 → XP_036018356.1  diphthine--ammonia ligase isoform X2

    Conserved Domains (1) summary
    cl00292
    Location:46 → 149
    AANH_like; Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide.

RNA

  1. XR_004940694.1 RNA Sequence

  2. XR_866334.4 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9CQ28.1 GenPept UniProtKB/Swiss-Prot:Q9CQ28

Gene LinkOut

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