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TNIP3 TNFAIP3 interacting protein 3 [ Homo sapiens (human) ]

Gene ID: 79931, updated on 2-Nov-2024

Summary

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Official Symbol
TNIP3provided by HGNC
Official Full Name
TNFAIP3 interacting protein 3provided by HGNC
Primary source
HGNC:HGNC:19315
See related
Ensembl:ENSG00000050730 MIM:608019; AllianceGenome:HGNC:19315
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
LIND; ABIN-3
Summary
Enables polyubiquitin modification-dependent protein binding activity. Involved in cellular response to lipopolysaccharide; negative regulation of canonical NF-kappaB signal transduction; and pattern recognition receptor signaling pathway. Predicted to be located in cytosol. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in appendix (RPKM 1.2), lymph node (RPKM 0.4) and 11 other tissues See more
Orthologs
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Genomic context

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See TNIP3 in Genome Data Viewer
Location:
4q27
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (121131408..121227483, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (124435731..124531810, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (122052563..122148638, complement)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene RN7SK pseudogene 137 Neighboring gene neuron derived neurotrophic factor Neighboring gene NDNF antisense RNA 1 Neighboring gene Sharpr-MPRA regulatory region 6302 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21863 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21864 Neighboring gene RNA, U6 small nuclear 948, pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:122159169-122159668 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21865 Neighboring gene pyroglutamylated RFamide peptide receptor Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:122301959-122302743 Neighboring gene KIAA1191 pseudogene 1 Neighboring gene uncharacterized LOC107986309 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:122332093-122332620 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:122339441-122339942 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:122339943-122340442 Neighboring gene TUBB4B pseudogene 5

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. Expression of the NF-kappaB inhibitor ABIN-3 in response to TNF and toll-like receptor 4 stimulation is itself regulated by NF-kappaB. Verstrepen L, et al. J Cell Mol Med, 2008 Jan-Feb. PMID 18081698, Free PMC Article
  2. Elevated TNIP3 mRNA Expression in TNF-α-Secreting Cells from Patients with Major Depressive Disorder. Huang KW, et al. Neuroimmunomodulation, 2019. PMID 31307045
  3. TNFAIP3 Interacting Protein 3 Is an Activator of Hippo-YAP Signaling Protecting Against Hepatic Ischemia/Reperfusion Injury. Zhou J, et al. Hepatology, 2021 Oct. PMID 34133792
  4. Two novel genes FIND and LIND differentially expressed in deactivated and Listeria-infected human macrophages. Staege H, et al. Immunogenetics, 2001 Mar. PMID 11345586
  5. ABINs: A20 binding inhibitors of NF-kappa B and apoptosis signaling. Verstrepen L, et al. Biochem Pharmacol, 2009 Jul 15. PMID 19464428

See all (30) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. TNFAIP3 Interacting Protein 3 Overexpression Suppresses Nonalcoholic Steatohepatitis by Blocking TAK1 Activation.
    Title: TNFAIP3 Interacting Protein 3 Overexpression Suppresses Nonalcoholic Steatohepatitis by Blocking TAK1 Activation.
  2. Elevated TNIP3 mRNA Expression in TNF-alpha-Secreting Cells from Patients with Major Depressive Disorder.
    Title: Elevated TNIP3 mRNA Expression in TNF-α-Secreting Cells from Patients with Major Depressive Disorder.
  3. TNIP3 expression is significantly upregulated in human masticatory mucosa during wound healing
    Title: Human gingiva transcriptome during wound healing.
  4. recombinant transgene facilitates the transcription of pro-inflammatory cytokines in fibroblast-like synoviocytes in rheumatoid arthritis
    Title: A pro-inflammatory role for A20 and ABIN family proteins in human fibroblast-like synoviocytes in rheumatoid arthritis.
  5. Observational study of gene-disease association, gene-environment interaction, and pharmacogenomic / toxicogenomic. (HuGE Navigator)
    Title: Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study.
  6. Observational study of gene-disease association. (HuGE Navigator)
    Title: Gene-centric association signals for lipids and apolipoproteins identified via the HumanCVD BeadChip.
  7. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
    Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
  8. adiponectin augmented the expression of A20, suppressor of cytokine signaling (SOCS) 3, B-cell CLL/lymphoma (BCL) 3, TNF receptor-associated factor (TRAF) 1, and TNFAIP3-interacting protein (TNIP) 3.
    Title: Adiponectin inhibits pro-inflammatory signaling in human macrophages independent of interleukin-10.
  9. This review defines ABIN-3 based on three different parameters: ability to bind A20; ability to inhibit NF-kappaB activation upon overexpression; the presence of specific short amino acid regions of strong homology, designated ABIN homology domains.
    Title: ABINs: A20 binding inhibitors of NF-kappa B and apoptosis signaling.
  10. Enhanced expression of ABIN-3 in monocytes is associated with sepsis
    Title: Expression of the NF-kappaB inhibitor ABIN-3 in response to TNF and toll-like receptor 4 stimulation is itself regulated by NF-kappaB.
Submit: New GeneRIF Correction See all GeneRIFs (12)

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

EBI GWAS Catalog

Description
A genome-wide scan for breast cancer risk haplotypes among African American women.
EBI GWAS Catalog

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

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Envelope transmembrane glycoprotein gp41 env A synthetic peptide corresponding to the immunosuppressive domain (amino acids 574-592) of HIV-1 gp41 upregulates the expression of TNFAIP3 interacting protein 3 (TNIP3) in peptide-treated PBMCs PubMed

Go to the HIV-1, Human Interaction Database

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

Clone Names

  • FLJ21162

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables polyubiquitin modification-dependent protein binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in MyD88-independent toll-like receptor signaling pathway IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in cellular response to lipopolysaccharide IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cellular response to lipopolysaccharide IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in inflammatory response IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of canonical NF-kappaB signal transduction IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in toll-like receptor 4 signaling pathway IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
located_in cytosol TAS
Traceable Author Statement
more info
  

General protein information

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Preferred Names
TNFAIP3-interacting protein 3
Names
A20-binding inhibitor of NF-kappa-B activation 3
ABIN-3 beta
Listeria induced
TNFAIP3-interacting protein 3 beta
TNIP3 beta
listeria-induced gene protein

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_001128843.2 → NP_001122315.2  TNFAIP3-interacting protein 3 isoform 2

    See identical proteins and their annotated locations for NP_001122315.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and initiates translation at an alternate start codon, and lacks an exon in the 3' coding region which results in a frameshift compared to variant 1. The encoded protein (isoform 2) has distinct N- and C-termini and is longer than isoform 1.
    Source sequence(s)
    AC105254, AK301058, DC389224
    Consensus CDS
    CCDS58925.1
    UniProtKB/Swiss-Prot
    Q96KP6
    Related
    ENSP00000427106.1, ENST00000507879.5
    Conserved Domains (2) summary
    cd09803
    Location:227 → 313
    UBAN; polyubiquitin binding domain of NEMO and related proteins
    pfam05010
    Location:173 → 332
    TACC; Transforming acidic coiled-coil-containing protein (TACC)

  2. NM_001244764.2 → NP_001231693.1  TNFAIP3-interacting protein 3 isoform 3

    See identical proteins and their annotated locations for NP_001231693.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and initiates translation at an alternate start codon, and lacks an exon in the 3' coding region which results in a frameshift compared to variant 1. The encoded protein (isoform 3) has distinct N- and C-termini and is longer than isoform 1.
    Source sequence(s)
    AC105254, AC108027, AK303192
    Consensus CDS
    CCDS58926.1
    UniProtKB/Swiss-Prot
    Q96KP6
    Related
    ENSP00000426613.1, ENST00000509841.1
    Conserved Domains (2) summary
    cd09803
    Location:234 → 320
    UBAN; polyubiquitin binding domain of NEMO and related proteins
    pfam05010
    Location:180 → 339
    TACC; Transforming acidic coiled-coil-containing protein (TACC)

  3. NM_024873.6 → NP_079149.3  TNFAIP3-interacting protein 3 isoform 1

    See identical proteins and their annotated locations for NP_079149.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the shortest transcript and encodes the shortest protein (isoform 1).
    Source sequence(s)
    AC105254, AK024815, AK290409, CD367219
    Consensus CDS
    CCDS3718.1
    UniProtKB/Swiss-Prot
    A1A574, A8K2Z4, B4DVF5, B4E023, Q96KP6, Q96PQ3, Q9H780
    Related
    ENSP00000057513.3, ENST00000057513.8
    Conserved Domains (2) summary
    cd09803
    Location:157 → 243
    UBAN; polyubiquitin binding domain of NEMO and related proteins
    pfam05010
    Location:103 → 262
    TACC; Transforming acidic coiled-coil-containing protein (TACC)

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_000004.12 Reference GRCh38.p14 Primary Assembly

    Range
    121131408..121227483 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047416182.1 → XP_047272138.1  TNFAIP3-interacting protein 3 isoform X4

  2. XM_011532257.4 → XP_011530559.1  TNFAIP3-interacting protein 3 isoform X3

    Conserved Domains (2) summary
    cd09803
    Location:264 → 350
    UBAN; polyubiquitin binding domain of NEMO and related proteins
    COG1196
    Location:140 → 369
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

  3. XM_011532256.3 → XP_011530558.1  TNFAIP3-interacting protein 3 isoform X1

    Conserved Domains (2) summary
    cd09803
    Location:264 → 350
    UBAN; polyubiquitin binding domain of NEMO and related proteins
    pfam05010
    Location:210 → 369
    TACC; Transforming acidic coiled-coil-containing protein (TACC)

  4. XM_047416181.1 → XP_047272137.1  TNFAIP3-interacting protein 3 isoform X2

  5. XM_017008625.3 → XP_016864114.2  TNFAIP3-interacting protein 3 isoform X5

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060928.1 Alternate T2T-CHM13v2.0

    Range
    124435731..124531810 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054350855.1 → XP_054206830.1  TNFAIP3-interacting protein 3 isoform X4

  2. XM_054350854.1 → XP_054206829.1  TNFAIP3-interacting protein 3 isoform X3

  3. XM_054350851.1 → XP_054206826.1  TNFAIP3-interacting protein 3 isoform X1

  4. XM_054350852.1 → XP_054206827.1  TNFAIP3-interacting protein 3 isoform X2

  5. XM_054350853.1 → XP_054206828.1  TNFAIP3-interacting protein 3 isoform X6

  6. XM_054350856.1 → XP_054206831.1  TNFAIP3-interacting protein 3 isoform X5

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q96KP6.2 GenPept UniProtKB/Swiss-Prot:Q96KP6

Gene LinkOut

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