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Apobec3 apolipoprotein B mRNA editing enzyme, catalytic polypeptide 3 [ Mus musculus (house mouse) ]

Gene ID: 80287, updated on 11-Apr-2024

Summary

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Official Symbol
Apobec3provided by MGI
Official Full Name
apolipoprotein B mRNA editing enzyme, catalytic polypeptide 3provided by MGI
Primary source
MGI:MGI:1933111
See related
Ensembl:ENSMUSG00000009585 AllianceGenome:MGI:1933111
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
Arp3; Rfv3; Cem15; Apobec; Gm20117
Summary
Predicted to enable several functions, including hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines; identical protein binding activity; and zinc ion binding activity. Involved in negative regulation of transposition and negative regulation of viral genome replication. Acts upstream of or within hematopoietic progenitor cell differentiation; regulation of defense response to virus; and regulation of viral life cycle. Located in cytoplasm. Is expressed in several structures, including alimentary system; brain; genitourinary system; heart; and sensory organ. Orthologous to several human genes including APOBEC3F (apolipoprotein B mRNA editing enzyme catalytic subunit 3F). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in spleen adult (RPKM 21.8), mammary gland adult (RPKM 13.9) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Apobec3 in Genome Data Viewer
Location:
15 E1; 15 37.85 cM
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 15 NC_000081.7 (79774620..79802419)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 15 NC_000081.6 (79892058..79918218)

Chromosome 15 - NC_000081.7Genomic Context describing neighboring genes Neighboring gene neuronal pentraxin chromo domain Neighboring gene chromobox 6 Neighboring gene predicted gene 10856 Neighboring gene STARR-seq mESC enhancer starr_39199 Neighboring gene RIKEN cDNA D730005E14 gene Neighboring gene STARR-positive B cell enhancer ABC_E7391 Neighboring gene STARR-positive B cell enhancer ABC_E4141 Neighboring gene STARR-positive B cell enhancer ABC_E3147 Neighboring gene STARR-seq mESC enhancer starr_39200 Neighboring gene STARR-seq mESC enhancer starr_39204 Neighboring gene STARR-positive B cell enhancer ABC_E7392 Neighboring gene STARR-positive B cell enhancer mm9_chr15:79765174-79765475 Neighboring gene chromobox 7 Neighboring gene STARR-positive B cell enhancer ABC_E9420 Neighboring gene VISTA enhancer mm570 Neighboring gene STARR-seq mESC enhancer starr_39213 Neighboring gene predicted gene, 53903 Neighboring gene microRNA 7213 Neighboring gene platelet derived growth factor, B polypeptide

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
  • 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. Distinctive High Expression of Antiretroviral APOBEC3 Protein in Mouse Germinal Center B Cells. Tsukimoto S, et al. Viruses, 2022 Apr 17. PMID 35458563, Free PMC Article
  2. Murine Leukemia Virus P50 Protein Counteracts APOBEC3 by Blocking Its Packaging. Zhao W, et al. J Virol, 2020 Aug 31. PMID 32641479, Free PMC Article
  3. Deamination hotspots among APOBEC3 family members are defined by both target site sequence context and ssDNA secondary structure. McDaniel YZ, et al. Nucleic Acids Res, 2020 Feb 20. PMID 31943071, Free PMC Article
  4. Mouse APOBEC3 interferes with autocatalytic cleavage of murine leukemia virus Pr180gag-pol precursor and inhibits Pr65gag processing. Hakata Y, et al. PLoS Pathog, 2019 Dec. PMID 31830125, Free PMC Article
  5. Impact of Suboptimal APOBEC3G Neutralization on the Emergence of HIV Drug Resistance in Humanized Mice. Hernandez MM, et al. J Virol, 2020 Feb 14. PMID 31801862, Free PMC Article

See all (107) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Direct inhibition of human APOBEC3 deaminases by HIV-1 Vif independent of the proteolysis pathway.
    Title: Direct inhibition of human APOBEC3 deaminases by HIV-1 Vif independent of the proteolysis pathway.
  2. The role of APOBEC3B in lung tumor evolution and targeted cancer therapy resistance.
    Title: The role of APOBEC3B in lung tumor evolution and targeted cancer therapy resistance.
  3. Distinctive High Expression of Antiretroviral APOBEC3 Protein in Mouse Germinal Center B Cells.
    Title: Distinctive High Expression of Antiretroviral APOBEC3 Protein in Mouse Germinal Center B Cells.
  4. Multifaceted HIV-1 Vif interactions with human E3 ubiquitin ligase and APOBEC3s.
    Title: Multifaceted HIV-1 Vif interactions with human E3 ubiquitin ligase and APOBEC3s.
  5. Molecular analysis of gamma1, gamma3, and alpha class switch recombination junctions in APOBEC3-deficient mice using high-throughput sequencing.
    Title: Molecular analysis of γ1, γ3, and α class switch recombination junctions in APOBEC3-deficient mice using high-throughput sequencing.
  6. Structural perspectives on HIV-1 Vif and APOBEC3 restriction factor interactions.
    Title: Structural perspectives on HIV-1 Vif and APOBEC3 restriction factor interactions.
  7. Murine Leukemia Virus P50 Protein Counteracts APOBEC3 by Blocking Its Packaging.
    Title: Murine Leukemia Virus P50 Protein Counteracts APOBEC3 by Blocking Its Packaging.
  8. APOBEC3 regulates keratinocyte differentiation and expression of Notch3.
    Title: APOBEC3 regulates keratinocyte differentiation and expression of Notch3.
  9. Impact of Suboptimal APOBEC3G Neutralization on the Emergence of HIV Drug Resistance in Humanized Mice.
    Title: Impact of Suboptimal APOBEC3G Neutralization on the Emergence of HIV Drug Resistance in Humanized Mice.
  10. we report the first parallel, comparative analysis of site selection of APOBEC3 deamination using six of the seven purified APOBEC3 proteins (i.e. A3A, A3B, A3C, A3F, A3G and A3H haplotype II) and oligonucleotides having 5'TC3' or 5'CT3' dinucleotide target sites and variable flanking bases within diverse DNA secondary structures.
    Title: Deamination hotspots among APOBEC3 family members are defined by both target site sequence context and ssDNA secondary structure.
Submit: New GeneRIF Correction See all GeneRIFs (57)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC7002

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA binding ISO
Inferred from Sequence Orthology
more info
  
enables catalytic activity IEA
Inferred from Electronic Annotation
more info
  
enables cytidine deaminase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables cytidine deaminase activity ISO
Inferred from Sequence Orthology
more info
  
enables deoxycytidine deaminase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables deoxycytidine deaminase activity ISO
Inferred from Sequence Orthology
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
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 protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables zinc ion binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in DNA cytosine deamination IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in DNA demethylation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cytidine to uridine editing IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in defense response to virus IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within hematopoietic progenitor cell differentiation IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within immune system process IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within innate immune response IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of single stranded viral RNA replication via double stranded DNA intermediate IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in negative regulation of viral genome replication IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within regulation of defense response to virus IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within regulation of viral life cycle IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in retrotransposon silencing IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
is_active_in P-body IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in P-body ISO
Inferred from Sequence Orthology
more info
  
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
part_of ribonucleoprotein complex ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
DNA dC->dU-editing enzyme APOBEC-3
Names
apolipoprotein B editing complex 3
apolipoprotein B mRNA-editing complex 3
recovery from Friend virus 3
NP_001153887.1
NP_001333970.1
NP_084531.2
XP_006521616.1
XP_017172295.1
XP_017172297.1
XP_036015533.1

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_001160415.1 → NP_001153887.1  DNA dC->dU-editing enzyme APOBEC-3 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AC113595
    Consensus CDS
    CCDS49669.1
    UniProtKB/Swiss-Prot
    H3BJL0, Q8C7L0, Q8C8V7, Q99J72
    UniProtKB/TrEMBL
    E9QMH1
    Related
    ENSMUSP00000105249.4, ENSMUST00000109620.10
    Conserved Domains (3) summary
    cd01283
    Location:35 → 141
    cytidine_deaminase; Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on ...
    pfam05240
    Location:137 → 182
    APOBEC_C; APOBEC-like C-terminal domain
    pfam08210
    Location:26 → 195
    APOBEC_N; APOBEC-like N-terminal domain

  2. NM_001347041.1 → NP_001333970.1  DNA dC->dU-editing enzyme APOBEC-3 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC113595
    Consensus CDS
    CCDS84179.1
    UniProtKB/TrEMBL
    Q3TI69
    Related
    ENSMUSP00000023054.8, ENSMUST00000023054.14
    Conserved Domains (2) summary
    pfam18772
    Location:1 → 99
    APOBEC2
    pfam18782
    Location:102 → 264
    NAD2; Novel AID APOBEC clade 2

  3. NM_030255.3 → NP_084531.2  DNA dC->dU-editing enzyme APOBEC-3 isoform 2

    See identical proteins and their annotated locations for NP_084531.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the coding region, compared to variant 1. The encoded isoform (2)is shorter than isoform 1.
    Source sequence(s)
    AA288216, AK049256, AK153719, BY228556
    Consensus CDS
    CCDS27654.1
    UniProtKB/TrEMBL
    B5T0I9, Q3U5C5
    Related
    ENSMUSP00000132391.2, ENSMUST00000165537.8
    Conserved Domains (3) summary
    cd01283
    Location:35 → 141
    cytidine_deaminase; Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on ...
    pfam05240
    Location:137 → 182
    APOBEC_C; APOBEC-like C-terminal domain
    pfam08210
    Location:26 → 195
    APOBEC_N; APOBEC-like N-terminal domain

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_000081.7 Reference GRCm39 C57BL/6J

    Range
    79774620..79802419
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036159640.1 → XP_036015533.1  DNA dC->dU-editing enzyme APOBEC-3 isoform X2

    UniProtKB/TrEMBL
    Q3TI69
    Conserved Domains (2) summary
    pfam18772
    Location:1 → 99
    APOBEC2
    pfam18782
    Location:102 → 264
    NAD2; Novel AID APOBEC clade 2

  2. XM_017316808.3 → XP_017172297.1  DNA dC->dU-editing enzyme APOBEC-3 isoform X2

    UniProtKB/TrEMBL
    Q3TI69
    Conserved Domains (2) summary
    pfam18772
    Location:1 → 99
    APOBEC2
    pfam18782
    Location:102 → 264
    NAD2; Novel AID APOBEC clade 2

  3. XM_017316806.3 → XP_017172295.1  DNA dC->dU-editing enzyme APOBEC-3 isoform X1

    UniProtKB/TrEMBL
    B5T0I9
    Related
    ENSMUSP00000135079.2, ENSMUST00000177098.8
    Conserved Domains (2) summary
    pfam18772
    Location:32 → 209
    APOBEC2
    pfam18782
    Location:212 → 374
    NAD2; Novel AID APOBEC clade 2

  4. XM_006521553.5 → XP_006521616.1  DNA dC->dU-editing enzyme APOBEC-3 isoform X3

    Conserved Domains (1) summary
    pfam18782
    Location:54 → 216
    NAD2; Novel AID APOBEC clade 2

RNA

  1. XR_001781583.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q99J72.3 GenPept UniProtKB/Swiss-Prot:Q99J72

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