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    APOBEC3H apolipoprotein B mRNA editing enzyme catalytic subunit 3H [ Homo sapiens (human) ]

    Gene ID: 164668, updated on 27-Dec-2024

    Summary

    Official Symbol
    APOBEC3Hprovided by HGNC
    Official Full Name
    apolipoprotein B mRNA editing enzyme catalytic subunit 3Hprovided by HGNC
    Primary source
    HGNC:HGNC:24100
    See related
    Ensembl:ENSG00000100298 MIM:610976; AllianceGenome:HGNC:24100
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    A3H; ARP10; ARP-10
    Summary
    This gene encodes a member of the apolipoprotein B mRNA-editing enzyme catalytic polypeptide 3 family of proteins. The encoded protein is a cytidine deaminase that has antiretroviral activity by generating lethal hypermutations in viral genomes. Polymorphisms and alternative splicing in this gene influence its antiretroviral activity and are associated with increased resistence to human immunodeficiency virus type 1 infection in certain populations. Alternative splicing results in multiple transcript variants.[provided by RefSeq, Oct 2009]
    Expression
    Broad expression in lymph node (RPKM 1.2), colon (RPKM 1.0) and 22 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See APOBEC3H in Genome Data Viewer
    Location:
    22q13.1
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 22 NC_000022.11 (39097244..39104067)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 22 NC_060946.1 (39567663..39574409)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 22 NC_000022.10 (39493249..39500072)

    Chromosome 22 - NC_000022.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19028 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19029 Neighboring gene apolipoprotein B mRNA editing enzyme catalytic subunit 3G Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:39477470-39477970 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:39480765-39481338 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:39483746-39484555 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:39484556-39485364 Neighboring gene uncharacterized LOC101927202 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr22:39492371-39493570 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:39493781-39494667 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:39509973-39510947 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19031 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19032 Neighboring gene cytochrome c oxidase subunit 5B pseudogene 7 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13742 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:39527431-39527992 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:39529632-39530316 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:39530317-39531000 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:39531107-39532084 Neighboring gene chromobox 7 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:39540727-39541516 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13744 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:39544030-39544628 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:39544629-39545227 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:39548263-39548844

    Genomic regions, transcripts, and products

    Expression

    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    HIV-1 interactions

    Replication interactions

    Interaction Pubs
    HIV-1 (delta Vif) replication is restricted by APOBEC3H haplotypes II and V with similar efficiences, but by different mechanisms PubMed

    Protein interactions

    Protein Gene Interaction Pubs
    Pr55(Gag) gag A3H hapI-GKE and hapII-RDD variants are packaged into virions through an association with the matrix-capsid region (amino acids 10-277) and with the NC region (amino acids 378-432) of Gag in an RNA-dependent manner, respectively PubMed
    Vif vif The combination of N48H and GDAK60-63EKGE results in a hyperfunctional Vif protein capable of fully inhibiting stable APOBEC3H-hapII PubMed
    vif Single mutations I31V, R33G, K36R, and K50R in HIV-1 Vif from NL4-3 sufficiently reduce or abolish their ability to cause G2 arrest, but induce APOBEC3H degradation PubMed
    vif HIV-1 Vif proteins from NL4-3, SG3, and C2 have the ability to induce G2 arrest in HEK293T cells, but are defective in inducing APOBEC3H degradation when compared to HIV-1 Vif from HXB2 PubMed
    vif A3H interacts with both HIV-1 Vif(IIIB) and Vif(HXB2) in cells and in vitro, but Vif(IIIB) fails to degrade A3H and Vif(HXB2) H48N mutant reduces its ability to degrade A3H in cells PubMed
    vif A histidine at position 48 (48H) in HIV-1 Vif confers activity against A3H-hapII, while an asparagine (48N) abolishes its anti-A3H activity PubMed
    vif A glutamic acid at position 121 (121E) renders A3H-hapII sensitivity to both LAI and NL4-3 Vif proteins, while a lysine (121K) results in resistance of A3H-hapII to both Vif alleles PubMed
    vif CBF-beta-mediated increase of HIV-1 Vif steady-state levels results in decreased cellular levels of all Vif-sensitive APOBEC proteins (A3C, A3D, A3F, A3G, and A3H haplotype II) PubMed
    vif APOBEC3H variants encoding a SNP cluster (G105R, K121D and E178D, hapII-RDD) restrict human immunodeficiency virus type 1 (HIV-1) more efficiently than wild-type APOBEC3H (hapI-GKE). All APOBEC3H variants are resistant to HIV-1 Vif PubMed
    vif Once expression is optimized and stabilized, human A3H can significantly reduce HIV-1 infectivity. HIV-1 Vif fails to suppress A3H activity PubMed
    vif The interaction of HIV-1 Vif(HXB2) with A3H induces polyubiquitination of A3H at K63 position PubMed
    vif HIV-1 Vif variants from subtype F are highly effective in counteracting A3H hapII. Two residues in the amino-terminal region of Vif (positions 39F and 48H) from HIV-1 subtype F are necessary for association of Vif with A3H hapII PubMed
    vif HIV-1 Vif 39F efficiently inhibits A3H-hapII, but Vif 39V is defective in counteracting A3H-hapII. Mutation at position 39F to the different residues (C, E, G, H, I, K, L, S, T, and V) is inactive against A3H-hapII, but only 39Y can counteract A3H-hapII PubMed
    vif Human T cell line CEM.NKR clones display inhibition of HIV-1 replication although these clones retain low levels of A3DE, A3F, A3G, and A3H expression, suggesting that a novel restriction factor distinct from APOBEC3s exists in CEM.NKR cells PubMed
    vif G105R and K121E residues are important for A3H (HapI) stability and increased antiviral activity and for the resistance of A3H (HapI) to Vif, respectively PubMed
    vif HIV-1 Vif targets A3H (HapII) for proteasome-mediated degradation. L64, I66, Y69, and L72 residues in Vif are required for Vif-mediated A3H degradation PubMed
    nucleocapsid gag A3H (HapVII) virion packaging is dependent on a (112)YYXW(115) motif, which binds HIV-1 nucleocapsid in an RNA-dependent manner. A single Y112A mutation completely disrupts A3H virion incorporation PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables cytidine deaminase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables cytidine deaminase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    is_active_in P-body IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in P-body IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    is_active_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    DNA dC->dU-editing enzyme APOBEC-3H
    Names
    APOBEC-related protein 10
    apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 3H
    NP_001159474.2
    NP_001159475.2
    NP_001159476.2
    NP_861438.3
    XP_011528292.1
    XP_011528293.1
    XP_011528294.1
    XP_054181176.1
    XP_054181177.1
    XP_054181178.1

    NCBI Reference Sequences (RefSeq)

    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_001166002.3NP_001159474.2  DNA dC->dU-editing enzyme APOBEC-3H isoform SV-182

      See identical proteins and their annotated locations for NP_001159474.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (SV-182) lacks an alternate exon and uses an alternate splice site, resulting in an alternate 3' coding region and 3' UTR, compared to variant SV-200. The encoded isoform (SV-182) has a distinct C-terminus and is shorter than isoform SV-200.
      Source sequence(s)
      BC069023
      Consensus CDS
      CCDS54531.1
      UniProtKB/TrEMBL
      B7TQM4, B7TQM7
      Related
      ENSP00000216123.5, ENST00000348946.8
      Conserved Domains (1) summary
      pfam08210
      Location:27179
      APOBEC_N; APOBEC-like N-terminal domain
    2. NM_001166003.3NP_001159475.2  DNA dC->dU-editing enzyme APOBEC-3H isoform SV-200

      See identical proteins and their annotated locations for NP_001159475.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (SV-200) represents the longest transcript and encodes the longest isoform (SV-200).
      Source sequence(s)
      BC069023, BQ054330
      Consensus CDS
      CCDS54530.1
      UniProtKB/Swiss-Prot
      B0QYP0, B0QYP1, B7TQM5, E9PF38, M4W6S4, Q5JYL9, Q6IC87, Q6NTF7
      UniProtKB/TrEMBL
      B7TQM7
      Related
      ENSP00000385741.1, ENST00000401756.5
      Conserved Domains (1) summary
      pfam08210
      Location:27179
      APOBEC_N; APOBEC-like N-terminal domain
    3. NM_001166004.3NP_001159476.2  DNA dC->dU-editing enzyme APOBEC-3H isoform SV-154

      Status: REVIEWED

      Description
      Transcript Variant: This variant (SV-154) lacks an alternate exon, resulting in a frameshift in the 3' coding region, compared to variant SV-200. The encoded isoform (SV-154) has a distinct C-terminus and is shorter than isoform SV-200. The 3' UTR of this variant is incomplete due to lack of a 3'-complete supporting transcript and splice site ambiguity in the terminal non-coding exon.
      Source sequence(s)
      BC069023, BQ054330, FJ376617
      Consensus CDS
      CCDS54532.1
      UniProtKB/TrEMBL
      A0A087WZI3, B7TQM9
      Related
      ENSP00000393520.2, ENST00000421988.6
      Conserved Domains (2) summary
      cd01283
      Location:30121
      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:120140
      APOBEC_C; APOBEC-like C-terminal domain
    4. NM_181773.5NP_861438.3  DNA dC->dU-editing enzyme APOBEC-3H isoform SV-183

      See identical proteins and their annotated locations for NP_861438.3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (SV-183) lacks an alternate exon, resulting in an alternate 3' coding region and 3' UTR, compared to variant SV-200. The encoded isoform (SV-183) has a distinct C-terminus and is shorter than isoform SV-200
      Source sequence(s)
      BC069023, BQ052182, BU585251
      Consensus CDS
      CCDS13985.1
      UniProtKB/TrEMBL
      B7TQM3, B7TQM6
      Related
      ENSP00000411754.3, ENST00000442487.8
      Conserved Domains (3) summary
      cd01283
      Location:30121
      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:120163
      APOBEC_C; APOBEC-like C-terminal domain
      pfam08210
      Location:27179
      APOBEC_N; APOBEC-like N-terminal domain

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000022.11 Reference GRCh38.p14 Primary Assembly

      Range
      39097244..39104067
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011529990.3XP_011528292.1  DNA dC->dU-editing enzyme APOBEC-3H isoform X1

      See identical proteins and their annotated locations for XP_011528292.1

      UniProtKB/TrEMBL
      B7TQM7
      Conserved Domains (3) summary
      cd01283
      Location:30121
      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:120163
      APOBEC_C; APOBEC-like C-terminal domain
      pfam08210
      Location:27179
      APOBEC_N; APOBEC-like N-terminal domain
    2. XM_011529991.4XP_011528293.1  DNA dC->dU-editing enzyme APOBEC-3H isoform X1

      See identical proteins and their annotated locations for XP_011528293.1

      UniProtKB/TrEMBL
      B7TQM7
      Conserved Domains (3) summary
      cd01283
      Location:30121
      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:120163
      APOBEC_C; APOBEC-like C-terminal domain
      pfam08210
      Location:27179
      APOBEC_N; APOBEC-like N-terminal domain
    3. XM_011529992.4XP_011528294.1  DNA dC->dU-editing enzyme APOBEC-3H isoform X2

      See identical proteins and their annotated locations for XP_011528294.1

      UniProtKB/Swiss-Prot
      B0QYP0, B0QYP1, B7TQM5, E9PF38, M4W6S4, Q5JYL9, Q6IC87, Q6NTF7
      UniProtKB/TrEMBL
      B7TQM7
      Related
      ENSP00000483689.1, ENST00000613677.4
      Conserved Domains (1) summary
      pfam08210
      Location:27179
      APOBEC_N; APOBEC-like N-terminal domain

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060946.1 Alternate T2T-CHM13v2.0

      Range
      39567663..39574409
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054325201.1XP_054181176.1  DNA dC->dU-editing enzyme APOBEC-3H isoform X1

      UniProtKB/TrEMBL
      B7TQM7
    2. XM_054325202.1XP_054181177.1  DNA dC->dU-editing enzyme APOBEC-3H isoform X1

      UniProtKB/TrEMBL
      B7TQM7
    3. XM_054325203.1XP_054181178.1  DNA dC->dU-editing enzyme APOBEC-3H isoform X2

      UniProtKB/TrEMBL
      B7TQM7, B7TQM8