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TRIM23 tripartite motif containing 23 [ Homo sapiens (human) ]

Gene ID: 373, updated on 10-Dec-2019

Summary

Official Symbol
TRIM23provided by HGNC
Official Full Name
tripartite motif containing 23provided by HGNC
Primary source
HGNC:HGNC:660
See related
Ensembl:ENSG00000113595 MIM:601747
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
ARD1; ARFD1; RNF46
Summary
The protein encoded by this gene is a member of the tripartite motif (TRIM) family. The TRIM motif includes three zinc-binding domains, a RING, a B-box type 1 and a B-box type 2, and a coiled-coil region. This protein is also a member of the ADP ribosylation factor family of guanine nucleotide-binding family of proteins. Its carboxy terminus contains an ADP-ribosylation factor domain and a guanine nucleotide binding site, while the amino terminus contains a GTPase activating protein domain which acts on the guanine nucleotide binding site. The protein localizes to lysosomes and the Golgi apparatus. It plays a role in the formation of intracellular transport vesicles, their movement from one compartment to another, and phopholipase D activation. Three alternatively spliced transcript variants for this gene have been described. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in brain (RPKM 18.0), prostate (RPKM 7.0) and 24 other tissues See more
Orthologs

Genomic context

See TRIM23 in Genome Data Viewer
Location:
5q12.3
Exon count:
13
Annotation release Status Assembly Chr Location
109.20191205 current GRCh38.p13 (GCF_000001405.39) 5 NC_000005.10 (65589690..65624333, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (64885507..64920187, complement)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene centromere protein K Neighboring gene peptidylprolyl isomerase domain and WD repeat containing 1 Neighboring gene RNA, U6 small nuclear 540, pseudogene Neighboring gene trafficking protein particle complex 13 Neighboring gene shieldin complex subunit 3 Neighboring gene small glutamine rich tetratricopeptide repeat containing beta Neighboring gene neurolysin

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
GDP binding IDA
Inferred from Direct Assay
more info
PubMed 
GTP binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
GTP binding IDA
Inferred from Direct Assay
more info
PubMed 
GTPase activity IDA
Inferred from Direct Assay
more info
PubMed 
enzyme activator activity TAS
Traceable Author Statement
more info
PubMed 
identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
nucleic acid binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
ubiquitin-protein transferase activity IDA
Inferred from Direct Assay
more info
PubMed 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
innate immune response IEA
Inferred from Electronic Annotation
more info
 
intracellular protein transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of catalytic activity IEA
Inferred from Electronic Annotation
more info
 
protein ubiquitination IDA
Inferred from Direct Assay
more info
PubMed 
protein ubiquitination IEA
Inferred from Electronic Annotation
more info
 
vesicle-mediated transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
viral process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
Golgi membrane IDA
Inferred from Direct Assay
more info
PubMed 
cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
lysosomal membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
lysosomal membrane IDA
Inferred from Direct Assay
more info
PubMed 
nucleus IEA
Inferred from Electronic Annotation
more info
 
plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
E3 ubiquitin-protein ligase TRIM23
Names
ADP-ribosylation factor domain protein 1, 64kDa
ADP-ribosylation factor domain-containing protein 1
ARF domain protein 1
GTP-binding protein ARD-1
RING finger protein 46
RING-type E3 ubiquitin transferase TRIM23
tripartite motif protein TRIM23
tripartite motif-containing protein 23
NP_001647.1
NP_150230.1
NP_150231.1
XP_016864933.1

NCBI Reference Sequences (RefSeq)

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_001656.4NP_001647.1  E3 ubiquitin-protein ligase TRIM23 isoform alpha

    See identical proteins and their annotated locations for NP_001647.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (alpha) encodes the longest isoform. It has a unique C-terminus compared to isoforms beta and gamma of this protein.
    Source sequence(s)
    BC022510, BI859501, L04510
    Consensus CDS
    CCDS3987.1
    UniProtKB/Swiss-Prot
    P36406
    Related
    ENSP00000231524.9, ENST00000231524.14
    Conserved Domains (5) summary
    smart00502
    Location:226370
    BBC; B-Box C-terminal domain
    smart00336
    Location:173219
    BBOX; B-Box-type zinc finger
    cd04158
    Location:406574
    ARD1; (ADP-ribosylation factor domain protein 1 (ARD1)
    cd00021
    Location:125168
    BBOX; B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
    cd16645
    Location:2877
    mRING-HC-C3HC3D_TRIM23_C-IX; Modified RING finger, HC subclass (C3HC3D-type), found in tripartite motif-containing protein 23 (TRIM23) and similar proteins
  2. NM_033227.3NP_150230.1  E3 ubiquitin-protein ligase TRIM23 isoform beta

    See identical proteins and their annotated locations for NP_150230.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (beta) is alternatively spliced near the 3' end of the coding region. This introduces a frameshift and the encoded isoform beta has a unique C-terminus compared to isoforms alpha and gamma.
    Source sequence(s)
    AF230398, BC022510, BI859501
    Consensus CDS
    CCDS43322.1
    UniProtKB/Swiss-Prot
    P36406
    Related
    ENSP00000370406.3, ENST00000381018.7
    Conserved Domains (5) summary
    smart00502
    Location:226370
    BBC; B-Box C-terminal domain
    smart00336
    Location:173219
    BBOX; B-Box-type zinc finger
    cd00021
    Location:125168
    BBOX; B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
    cd16645
    Location:2877
    mRING-HC-C3HC3D_TRIM23_C-IX; Modified RING finger, HC subclass (C3HC3D-type), found in tripartite motif-containing protein 23 (TRIM23) and similar proteins
    cl21455
    Location:406550
    P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
  3. NM_033228.3NP_150231.1  E3 ubiquitin-protein ligase TRIM23 isoform gamma

    See identical proteins and their annotated locations for NP_150231.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (gamma) is alternatively spliced near the 3' end of the coding region. This introduces a frameshift and the encoded isoform gamma has a unique C-terminus compared to isoforms alpha and beta.
    Source sequence(s)
    AF230399, BC022510, BI859501
    Consensus CDS
    CCDS3986.1
    UniProtKB/Swiss-Prot
    P36406
    Related
    ENSP00000274327.7, ENST00000274327.11
    Conserved Domains (5) summary
    smart00502
    Location:226370
    BBC; B-Box C-terminal domain
    smart00336
    Location:173219
    BBOX; B-Box-type zinc finger
    cd00021
    Location:125168
    BBOX; B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
    cd16645
    Location:2877
    mRING-HC-C3HC3D_TRIM23_C-IX; Modified RING finger, HC subclass (C3HC3D-type), found in tripartite motif-containing protein 23 (TRIM23) and similar proteins
    cl21455
    Location:406540
    P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000005.10 Reference GRCh38.p13 Primary Assembly

    Range
    65589690..65624333 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017009444.2XP_016864933.1  E3 ubiquitin-protein ligase TRIM23 isoform X1

    UniProtKB/Swiss-Prot
    P36406
    Conserved Domains (5) summary
    smart00502
    Location:226370
    BBC; B-Box C-terminal domain
    smart00336
    Location:173219
    BBOX; B-Box-type zinc finger
    cd00021
    Location:125168
    BBOX; B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
    cd16645
    Location:2877
    mRING-HC-C3HC3D_TRIM23_C-IX; Modified RING finger, HC subclass (C3HC3D-type), found in tripartite motif-containing protein 23 (TRIM23) and similar proteins
    cl21455
    Location:406550
    P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
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