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TRIM28 tripartite motif containing 28 [ Homo sapiens (human) ]

Gene ID: 10155, updated on 13-Jan-2019

Summary

Official Symbol
TRIM28provided by HGNC
Official Full Name
tripartite motif containing 28provided by HGNC
Primary source
HGNC:HGNC:16384
See related
Ensembl:ENSG00000130726 MIM:601742
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
KAP1; TF1B; RNF96; TIF1B; PPP1R157
Summary
The protein encoded by this gene mediates transcriptional control by interaction with the Kruppel-associated box repression domain found in many transcription factors. The protein localizes to the nucleus and is thought to associate with specific chromatin regions. The protein is a member of the tripartite motif family. This tripartite motif includes three zinc-binding domains, a RING, a B-box type 1 and a B-box type 2, and a coiled-coil region. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in ovary (RPKM 89.1), testis (RPKM 80.5) and 25 other tissues See more
Orthologs

Genomic context

See TRIM28 in Genome Data Viewer
Location:
19q13.43
Exon count:
17
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 19 NC_000019.10 (58544469..58550722)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (59055824..59062087)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105372486 Neighboring gene zinc finger and BTB domain containing 45 Neighboring gene RNA, 7SL, cytoplasmic 525, pseudogene Neighboring gene microRNA 6807 Neighboring gene charged multivesicular body protein 2A Neighboring gene ubiquitin conjugating enzyme E2 M

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 FunctionsWhat's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify tripartite motif containing 28 (TRIM28), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Gag-Pol gag-pol Tandem affinity purification and mass spectrometry analysis identify tripartite motif containing 28 (TRIM28), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Nef nef Tandem affinity purification and mass spectrometry analysis identify tripartite motif containing 28 (TRIM28), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Pr55(Gag) gag Tandem affinity purification and mass spectrometry analysis identify tripartite motif containing 28 (TRIM28), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
integrase gag-pol KAP1 inhibits HIV-1 integration via HIV-1 IN acetylation-dependent mechanism through HDAC1 PubMed
gag-pol The interaction between HIV-1 IN and KAP1 is highly favored by HAT/p300-mediated IN acetylation PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ29029

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
Krueppel-associated box domain binding IDA
Inferred from Direct Assay
more info
PubMed 
RNA binding HDA PubMed 
SUMO transferase activity EXP
Inferred from Experiment
more info
PubMed 
chromatin binding IDA
Inferred from Direct Assay
more info
PubMed 
chromo shadow domain binding IPI
Inferred from Physical Interaction
more info
PubMed 
promoter-specific chromatin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
promoter-specific chromatin binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein kinase activity IEA
Inferred from Electronic Annotation
more info
 
contributes_to sequence-specific DNA binding ISS
Inferred from Sequence or Structural Similarity
more info
 
transcription coactivator activity ISS
Inferred from Sequence or Structural Similarity
more info
 
transcription corepressor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
transcription corepressor activity IDA
Inferred from Direct Assay
more info
PubMed 
ubiquitin protein ligase binding IDA
Inferred from Direct Assay
more info
PubMed 
ubiquitin-protein transferase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ubiquitin-protein transferase activity IDA
Inferred from Direct Assay
more info
PubMed 
zinc ion binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
DNA methylation involved in embryo development IEA
Inferred from Electronic Annotation
more info
 
DNA repair IDA
Inferred from Direct Assay
more info
PubMed 
Ras protein signal transduction IMP
Inferred from Mutant Phenotype
more info
PubMed 
chromatin organization IEA
Inferred from Electronic Annotation
more info
 
convergent extension involved in axis elongation IEA
Inferred from Electronic Annotation
more info
 
embryo implantation IEA
Inferred from Electronic Annotation
more info
 
embryonic placenta morphogenesis IEA
Inferred from Electronic Annotation
more info
 
epithelial to mesenchymal transition ISS
Inferred from Sequence or Structural Similarity
more info
 
innate immune response IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of DNA demethylation IEA
Inferred from Electronic Annotation
more info
 
negative regulation of single stranded viral RNA replication via double stranded DNA intermediate IEA
Inferred from Electronic Annotation
more info
 
negative regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
negative regulation of transcription, DNA-templated IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of transcription, DNA-templated IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of viral release from host cell IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of DNA binding IEA
Inferred from Electronic Annotation
more info
 
positive regulation of DNA repair IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of methylation-dependent chromatin silencing IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of methylation-dependent chromatin silencing ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of protein import into nucleus IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of transcription, DNA-templated ISS
Inferred from Sequence or Structural Similarity
more info
 
protein autophosphorylation IEA
Inferred from Electronic Annotation
more info
 
protein complex oligomerization IDA
Inferred from Direct Assay
more info
PubMed 
protein sumoylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein sumoylation IDA
Inferred from Direct Assay
more info
PubMed 
protein sumoylation IEA
Inferred from Electronic Annotation
more info
 
protein ubiquitination IEA
Inferred from Electronic Annotation
more info
 
regulation of genetic imprinting IEA
Inferred from Electronic Annotation
more info
 
transcription initiation from RNA polymerase II promoter TAS
Traceable Author Statement
more info
 
viral process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
RNA polymerase II transcription factor complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA polymerase II transcription factor complex ISS
Inferred from Sequence or Structural Similarity
more info
 
chromatin IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nuclear euchromatin IEA
Inferred from Electronic Annotation
more info
 
nuclear heterochromatin IEA
Inferred from Electronic Annotation
more info
 
nucleoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
nucleus ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

Preferred Names
transcription intermediary factor 1-beta
Names
E3 SUMO-protein ligase TRIM28
KAP-1
KRAB [Kruppel-associated box domain]-associated protein 1
KRAB-interacting protein 1
KRIP-1
RING finger protein 96
RING-type E3 ubiquitin transferase TIF1-beta
TIF1-beta
nuclear corepressor KAP-1
protein phosphatase 1, regulatory subunit 157
transcriptional intermediary factor 1-beta
NP_005753.1
XP_024307077.1

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.

Genomic

  1. NG_046945.1 RefSeqGene

    Range
    5001..11247
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_005762.3NP_005753.1  transcription intermediary factor 1-beta

    See identical proteins and their annotated locations for NP_005753.1

    Status: REVIEWED

    Source sequence(s)
    AC016630, BC004978
    Consensus CDS
    CCDS12985.1
    UniProtKB/Swiss-Prot
    Q13263
    Related
    ENSP00000253024.4, ENST00000253024.9
    Conserved Domains (7) summary
    cd05502
    Location:696802
    Bromo_tif1_like; Bromodomain; tif1_like subfamily. Tif1 (transcription intermediary factor 1) is a member of the tripartite motif (TRIM) protein family, which is characterized by a particular domain architecture. It functions by recruiting coactivators and/or ...
    smart00502
    Location:252378
    BBC; B-Box C-terminal domain
    smart00336
    Location:148184
    BBOX; B-Box-type zinc finger
    cd00021
    Location:207245
    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.
    cd15623
    Location:627669
    PHD_TIF1beta; PHD finger found in transcription intermediary factor 1-beta (TIF1-beta)
    cd16765
    Location:62124
    RING-HC_TIF1beta; RING finger, HC subclass, found in transcription inknown asiary factor 1-beta (TIF1-beta)
    cl25756
    Location:525620
    BASP1; Brain acid soluble protein 1 (BASP1 protein)

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p12 Primary Assembly

    Range
    58544469..58550722
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024451309.1XP_024307077.1  transcription intermediary factor 1-beta isoform X1

    Conserved Domains (7) summary
    smart00502
    Location:252378
    BBC; B-Box C-terminal domain
    smart00336
    Location:148184
    BBOX; B-Box-type zinc finger
    cd00021
    Location:207245
    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.
    cd15623
    Location:627669
    PHD_TIF1beta; PHD finger found in transcription intermediary factor 1-beta (TIF1-beta)
    cd16765
    Location:62124
    RING-HC_TIF1beta; RING finger, HC subclass, found in transcription inknown asiary factor 1-beta (TIF1-beta)
    cl02556
    Location:696839
    Bromodomain; Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
    cl25756
    Location:525620
    BASP1; Brain acid soluble protein 1 (BASP1 protein)
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