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TRIM16 tripartite motif containing 16 [ Homo sapiens (human) ]

Gene ID: 10626, updated on 2-Nov-2024

Summary

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Official Symbol
TRIM16provided by HGNC
Official Full Name
tripartite motif containing 16provided by HGNC
Primary source
HGNC:HGNC:17241
See related
Ensembl:ENSG00000221926 MIM:609505; AllianceGenome:HGNC:17241
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
EBBP
Summary
The protein encoded by this gene is a tripartite motif (TRIM) family member that contains two B box domains and a coiled-coiled region that are characteristic of the B box zinc finger protein family. While it lacks a RING domain found in other TRIM proteins, the encoded protein can homodimerize or heterodimerize with other TRIM proteins and has E3 ubiquitin ligase activity. This gene is also a tumor suppressor and is involved in secretory autophagy. [provided by RefSeq, Jan 2017]
Expression
Broad expression in esophagus (RPKM 47.9), placenta (RPKM 17.3) and 19 other tissues See more
Orthologs
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Genomic context

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See TRIM16 in Genome Data Viewer
Location:
17p12
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (15627966..15684311, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (15534188..15590551, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (15531280..15587625, complement)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene TVP23C-CDRT4 readthrough Neighboring gene Sharpr-MPRA regulatory region 6604 Neighboring gene trans-golgi network vesicle protein 23 homolog C Neighboring gene peptidylprolyl isomerase A pseudogene 53 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:15439327-15439826 Neighboring gene NANOG hESC enhancer GRCh37_chr17:15443919-15444544 Neighboring gene proximal CMT1A-REP Neighboring gene F-box and WD repeat domain containing 10B Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr17:15495673-15496196 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:15546231-15546817 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:15545644-15546230 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:15547662-15548477 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11743 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:15554223-15555172 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:15562775-15563277 Neighboring gene ZNF286A-TBC1D26 readthrough (NMD candidate) Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:15602763-15603374 Neighboring gene zinc finger protein 29, pseudogene Neighboring gene zinc finger protein 286A Neighboring gene ubiquitin conjugating enzyme E2 S pseudogene 1 Neighboring gene TBC1D26 antisense RNA 1 Neighboring gene TBC1 domain family member 26

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues 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

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Related articles in PubMed

  1. TRIM16 E121D variant affects the risk and prognosis of hepatocellular carcinoma by modulating the Wnt/β-catenin pathway. Li S, et al. Mol Carcinog, 2023 Nov. PMID 37477507
  2. Tripartite Motif 16 Inhibits the Migration and Invasion in Ovarian Cancer Cells. Tan H, et al. Oncol Res, 2017 Apr 14. PMID 27737724, Free PMC Article
  3. TRIM16 acts as an E3 ubiquitin ligase and can heterodimerize with other TRIM family members. Bell JL, et al. PLoS One, 2012. PMID 22629402, Free PMC Article
  4. Impaired TRIM16-Mediated Lysophagy in Chronic Obstructive Pulmonary Disease Pathogenesis. Araya J, et al. J Immunol, 2021 Jul 1. PMID 34135057
  5. TRIM16 inhibits neuroblastoma cell proliferation through cell cycle regulation and dynamic nuclear localization. Bell JL, et al. Cell Cycle, 2013 Mar 15. PMID 23422002, Free PMC Article

See all (59) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. NFKBIZ regulates NFkappaB signaling pathway to mediate tumorigenesis and metastasis of hepatocellular carcinoma by direct interaction with TRIM16.
    Title: NFKBIZ regulates NFκB signaling pathway to mediate tumorigenesis and metastasis of hepatocellular carcinoma by direct interaction with TRIM16.
  2. TRIM16 E121D variant affects the risk and prognosis of hepatocellular carcinoma by modulating the Wnt/beta-catenin pathway.
    Title: TRIM16 E121D variant affects the risk and prognosis of hepatocellular carcinoma by modulating the Wnt/β-catenin pathway.
  3. Changes in the Expression of Long Non-Coding RNA SDMGC and Its Target Gene, TRIM16, in Patients with Gastric Cancer.
    Title: Changes in the Expression of Long Non-Coding RNA SDMGC and Its Target Gene, TRIM16, in Patients with Gastric Cancer.
  4. TRIM3 and TRIM16 as potential tumor suppressors in breast cancer patients.
    Title: TRIM3 and TRIM16 as potential tumor suppressors in breast cancer patients.
  5. CircPTK2 inhibits cell cisplatin (CDDP) resistance by targeting miR-942/TRIM16 axis in non-small cell lung cancer (NSCLC).
    Title: CircPTK2 inhibits cell cisplatin (CDDP) resistance by targeting miR-942/TRIM16 axis in non-small cell lung cancer (NSCLC).
  6. Prognostic Significance of Tripartite Motif Containing 16 Expression in Patients with Gastric Cancer.
    Title: Prognostic Significance of Tripartite Motif Containing 16 Expression in Patients with Gastric Cancer.
  7. Impaired TRIM16-Mediated Lysophagy in Chronic Obstructive Pulmonary Disease Pathogenesis.
    Title: Impaired TRIM16-Mediated Lysophagy in Chronic Obstructive Pulmonary Disease Pathogenesis.
  8. TRIM16 overexpression inhibits the metastasis of colorectal cancer through mediating Snail degradation.
    Title: TRIM16 overexpression inhibits the metastasis of colorectal cancer through mediating Snail degradation.
  9. Galectin-3 and TRIM16 coregulate osteogenic differentiation of human bone marrow-derived mesenchymal stem cells at least partly via enhancing autophagy.
    Title: Galectin-3 and TRIM16 coregulate osteogenic differentiation of human bone marrow-derived mesenchymal stem cells at least partly via enhancing autophagy.
  10. A thermosensitive, reactive oxygen species-responsive, MR409-encapsulated hydrogel ameliorates disc degeneration in rats by inhibiting the secretory autophagy pathway.
    Title: A thermosensitive, reactive oxygen species-responsive, MR409-encapsulated hydrogel ameliorates disc degeneration in rats by inhibiting the secretory autophagy pathway.
Submit: New GeneRIF Correction See all GeneRIFs (28)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • DKFZp434O1826

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables NACHT domain binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables interleukin-1 binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables transferase activity IEA
Inferred from Electronic Annotation
more info
  
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in positive regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of interleukin-1 beta production IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of keratinocyte differentiation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of retinoic acid receptor signaling pathway IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in response to growth hormone IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in response to organophosphorus IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in response to retinoic acid IEP
Inferred from Expression Pattern
more info
 PubMed 
Component Evidence Code Pubs
located_in PML body 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 plasma membrane IDA
Inferred from Direct Assay
more info
  

General protein information

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Preferred Names
tripartite motif-containing protein 16
Names
E3 ubiquitin-protein ligase TRIM16
estrogen-responsive B box protein
NP_001335048.1
NP_001335049.1
NP_001335050.1
NP_001335051.1
NP_001335053.1
NP_001335054.1
NP_001335055.1
NP_006461.3

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_001348119.1 → NP_001335048.1  tripartite motif-containing protein 16 isoform a

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a). Variants 1, 2, and 3 all encode the same isoform (a).
    Source sequence(s)
    AC005324
    Consensus CDS
    CCDS11171.1
    UniProtKB/Swiss-Prot
    O95361, Q6IAL8, Q7Z6I2, Q96BE8, Q96J43
    UniProtKB/TrEMBL
    B2RB95, B3KMJ2
    Related
    ENSP00000497185.2, ENST00000649191.2
    Conserved Domains (3) summary
    cd12890
    Location:365 → 546
    SPRY_PRY_TRIM16; PRY/SPRY domain in tripartite motif-containing protein 16 (TRIM16)
    cd19839
    Location:75 → 122
    Bbox1_TRIM16; B-box-type 1 zinc finger found in tripartite motif-containing protein 16 (TRIM16) and similar proteins
    cl00034
    Location:129 → 173
    Bbox_SF; B-box-type zinc finger superfamily

  2. NM_001348120.1 → NP_001335049.1  tripartite motif-containing protein 16 isoform a

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2), as well as variants 1 and 3, encodes isoform a.
    Source sequence(s)
    AC005324
    Consensus CDS
    CCDS11171.1
    UniProtKB/Swiss-Prot
    O95361, Q6IAL8, Q7Z6I2, Q96BE8, Q96J43
    UniProtKB/TrEMBL
    B2RB95, B3KMJ2
    Conserved Domains (3) summary
    cd12890
    Location:365 → 546
    SPRY_PRY_TRIM16; PRY/SPRY domain in tripartite motif-containing protein 16 (TRIM16)
    cd19839
    Location:75 → 122
    Bbox1_TRIM16; B-box-type 1 zinc finger found in tripartite motif-containing protein 16 (TRIM16) and similar proteins
    cl00034
    Location:129 → 173
    Bbox_SF; B-box-type zinc finger superfamily

  3. NM_001348121.1 → NP_001335050.1  tripartite motif-containing protein 16 isoform b

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4), as well as variant 5, encodes isoform b.
    Source sequence(s)
    AC005324
    Consensus CDS
    CCDS86579.1
    UniProtKB/TrEMBL
    B3KP96, B4DE22
    Conserved Domains (1) summary
    cd12890
    Location:235 → 416
    SPRY_PRY_TRIM16; PRY/SPRY domain in tripartite motif-containing protein 16 (TRIM16)

  4. NM_001348122.1 → NP_001335051.1  tripartite motif-containing protein 16 isoform b

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5), as well as variant 4, encodes isoform b.
    Source sequence(s)
    AC005324
    Consensus CDS
    CCDS86579.1
    UniProtKB/TrEMBL
    B3KP96, B4DE22
    Related
    ENSP00000399918.2, ENST00000416464.6
    Conserved Domains (1) summary
    cd12890
    Location:235 → 416
    SPRY_PRY_TRIM16; PRY/SPRY domain in tripartite motif-containing protein 16 (TRIM16)

  5. NM_001348124.1 → NP_001335053.1  tripartite motif-containing protein 16 isoform c

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6), as well as variant 7, encodes isoform c.
    Source sequence(s)
    AC005324
    Consensus CDS
    CCDS86578.1
    UniProtKB/Swiss-Prot
    A0PK10, B2RUW6, B4DQK2, B4DWQ8, Q309B1
    Related
    ENSP00000462903.1, ENST00000577886.5
    Conserved Domains (1) summary
    cd12890
    Location:149 → 330
    SPRY_PRY_TRIM16; PRY/SPRY domain in tripartite motif-containing protein 16 (TRIM16)

  6. NM_001348125.1 → NP_001335054.1  tripartite motif-containing protein 16 isoform c

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7), as well as variant 6, encodes isoform c.
    Source sequence(s)
    AC005324
    Consensus CDS
    CCDS86578.1
    UniProtKB/Swiss-Prot
    A0PK10, B2RUW6, B4DQK2, B4DWQ8, Q309B1
    Conserved Domains (1) summary
    cd12890
    Location:149 → 330
    SPRY_PRY_TRIM16; PRY/SPRY domain in tripartite motif-containing protein 16 (TRIM16)

  7. NM_001348126.1 → NP_001335055.1  tripartite motif-containing protein 16 isoform d

    Status: REVIEWED

    Source sequence(s)
    AC005324
    UniProtKB/TrEMBL
    B4DE22
    Conserved Domains (1) summary
    cd12890
    Location:203 → 384
    SPRY_PRY_TRIM16; PRY/SPRY domain in tripartite motif-containing protein 16 (TRIM16)

  8. NM_006470.4 → NP_006461.3  tripartite motif-containing protein 16 isoform a

    See identical proteins and their annotated locations for NP_006461.3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3), as well as variants 1 and 2, encodes isoform a.
    Source sequence(s)
    AC005324, BC053514, DA709639
    Consensus CDS
    CCDS11171.1
    UniProtKB/Swiss-Prot
    O95361, Q6IAL8, Q7Z6I2, Q96BE8, Q96J43
    UniProtKB/TrEMBL
    B2RB95, B3KMJ2
    Related
    ENSP00000338989.7, ENST00000336708.11
    Conserved Domains (3) summary
    cd12890
    Location:365 → 546
    SPRY_PRY_TRIM16; PRY/SPRY domain in tripartite motif-containing protein 16 (TRIM16)
    cd19839
    Location:75 → 122
    Bbox1_TRIM16; B-box-type 1 zinc finger found in tripartite motif-containing protein 16 (TRIM16) and similar proteins
    cl00034
    Location:129 → 173
    Bbox_SF; B-box-type zinc finger superfamily

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_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    15627966..15684311 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    15534188..15590551 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O95361.3 GenPept UniProtKB/Swiss-Prot:O95361

Gene LinkOut

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