Tbio TRIM28 Transcription intermediary factor 1-beta

Protein Classes

PANTHER Classes

Protein / ... / Transcription Cofactor / Transcription Intermediary Factor 1-Beta

Protein Summary

Description

Nuclear corepressor for KRAB domain-containing zinc finger proteins (KRAB-ZFPs). Mediates gene silencing by recruiting CHD3, a subunit of the nucleosome remodeling and deacetylation (NuRD) complex, and SETDB1 (which specifically methylates histone H3 at 'Lys-9' (H3K9me)) to the promoter regions of KRAB target genes. Enhances transcriptional repression by coordinating the increase in H3K9me, the decrease in histone H3 'Lys-9 and 'Lys-14' acetylation (H3K9ac and H3K14ac, respectively) and the disposition of HP1 proteins to silence gene expression. Recruitment of SETDB1 induces heterochromatinization. May play a role as a coactivator for CEBPB and NR3C1 in the transcriptional activation of ORM1. Also corepressor for ERBB4. Inhibits E2F1 activity by stimulating E2F1-HDAC1 complex formation and inhibiting E2F1 acetylation. May serve as a partial backup to prevent E2F1-mediated apoptosis in the absence of RB1. Important regulator of CDKN1A/p21(CIP1). Has E3 SUMO-protein ligase activity toward itself via its PHD-type zinc finger. Also specifically sumoylates IRF7, thereby inhibiting its transactivation activity. Ubiquitinates p53/TP53 leading to its proteosomal degradation; the function is enhanced by MAGEC2 and MAGEA2, and possibly MAGEA3 and MAGEA6. Mediates the nuclear localization of KOX1, ZNF268 and ZNF300 transcription factors. In association with isoform 2 of ZFP90, is required for the transcriptional repressor activity of FOXP3 and the suppressive function of regulatory T-cells (Treg) (PubMed:23543754). Probably forms a corepressor complex required for activated KRAS-mediated promoter hypermethylation and transcriptional silencing of tumor suppressor genes (TSGs) or other tumor-related genes in colorectal cancer (CRC) cells (PubMed:24623306). Also required to maintain a transcriptionally repressive state of genes in undifferentiated embryonic stem cells (ESCs) (PubMed:24623306). Associates at promoter regions of tumor suppressor genes (TSGs) leading to their gene silencing (PubMed:24623306). The SETDB1-TRIM28-ZNF274 complex may play a role in recruiting ATRX to the 3'-exons of zinc-finger coding genes with atypical chromatin signatures to establish or maintain/protect H3K9me3 at these transcriptionally active regions (PubMed:27029610). Acts as a corepressor for ZFP568 (By similarity). (Microbial infection) Plays a critical role in the shutdown of lytic gene expression during the early stage of herpes virus 8 primary infection. This inhibition is mediated through interaction with herpes virus 8 protein LANA1. 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]

Uniprot Accession IDs

• Q13263
• O00677
• Q7Z632
• Q93040
• Q96IM1
• TIF1-beta

Gene Name

• TRIM28

Ensembl ID

• ENST00000253024
• ENSP00000253024
• ENSG00000130726
• ENST00000341753
• ENSP00000342232

Symbol

• KAP1
• RNF96
• TIF1B
• KAP1
• TF1B
• RNF96
• TIF1B
• PPP1R157

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
drug perturbation	1
hub protein	1
interacting protein	1
co-expressed gene	0.99
protein domain	0.99

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IDG Development Level Summary

Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 166.92   (req: < 5)

Gene RIFs: 107   (req: <= 3)

Antibodies: 661   (req: <= 50)

Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 166.92   (req: >= 5)

Gene RIFs: 107   (req: > 3)

Antibodies: 661   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 40

Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligand: 0

Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 0

Orthologs (7)

1 – 5 of 7

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Macaque	tripartite motif containing 28		711982
Mouse	tripartite motif-containing 28	MGI:109274	21849
Rat	tripartite motif-containing 28	RGD:620289	116698
Dog	tripartite motif containing 28	VGNC:47811	403689
Horse	tripartite motif containing 28	VGNC:24499	100064831

Species	Name	OMA	EggNOG	Inparanoid
Macaque	tripartite motif containing 28
Mouse	tripartite motif-containing 28
Rat	tripartite motif-containing 28
Dog	tripartite motif containing 28
Horse	tripartite motif containing 28

Protein Structure (3 Structures, 1 AlphaFold Model)

Representation

  axes   backbone   ball+stick   cartoon   rocket   rope   spacefill

Color Scheme

  target   atomindex   bfactor   chainname   electrostatic   element   hydrophobicity   resname   sstruc

Click on a row in the table to change the structure displayed.
More information can be found at RCSB PDB

AF-Q13263-F1-model_v1

AlphaFold Structures Developed by DeepMind and EMBL-EBI

1 – 3 of 3

PDB Structure Id	Ligand	Method	Resolution (Å)	Residues	Fraction of Total Protein	Pub Year	Title

PDB Structure Id	Fraction of Total Protein	Resolution	Pub Year

Pathways (29)

Reactome (8)

PathwayCommons (4)

UniProt (1)

WikiPathways (16)

Gene expression (Transcription) (R-HSA-74160)

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Find Similar Targets

Items per page:

5

1 – 5 of 8

Data Source	Name	Explore in Pharos	Explore in Source
Reactome	Gene expression (Transcription)	1452 targets	R-HSA-74160
Reactome	Generic Transcription Pathway	1195 targets	R-HSA-212436
Reactome	Metabolism of proteins	2050 targets	R-HSA-392499
Reactome	Post-translational protein modification	1450 targets	R-HSA-597592
Reactome	RNA Polymerase II Transcription	1314 targets	R-HSA-73857

Name	Explore in Pharos	Explore in Source
Gene expression (Transcription)	1452 targets	R-HSA-74160
Generic Transcription Pathway	1195 targets	R-HSA-212436
Metabolism of proteins	2050 targets	R-HSA-392499
Post-translational protein modification	1450 targets	R-HSA-597592
RNA Polymerase II Transcription	1314 targets	R-HSA-73857

Gene Ontology Terms (46)

Functions (15)

Components (6)

Processes (25)

Find Similar Targets

Items per page:

10

1 – 10 of 15

GO Term	Evidence	Assigned by
SUMO transferase activity	Inferred from Experiment (EXP)	Reactome
chromatin binding	Inferred from Direct Assay (IDA)	UniProtKB
DNA binding	Inferred from Direct Assay (IDA)	UniProtKB
Krueppel-associated box domain binding	Inferred from Direct Assay (IDA)	UniProtKB
promoter-specific chromatin binding	Inferred from Direct Assay (IDA)	UniProtKB
transcription corepressor activity	Inferred from Direct Assay (IDA)	UniProtKB
ubiquitin protein ligase binding	Inferred from Direct Assay (IDA)	UniProtKB
ubiquitin-protein transferase activity	Inferred from Direct Assay (IDA)	UniProtKB
zinc ion binding	Inferred from Direct Assay (IDA)	UniProtKB
chromo shadow domain binding	Inferred from Physical Interaction (IPI)	BHF-UCL

Protein-Protein Interactions (510)

Explore Interacting Targets

1 – 10 of 510

• See Interactions on String-DB

POGK

Tbio

Novelty: 0.17276635

p_int: 0.999999959

p_ni: 3.9e-8

p_wrong: 2e-9

Data Source: BioPlex

ZNF30

Tdark

Family: TF

Novelty: 1.40379259

p_int: 0.999999194

p_ni: 8.06e-7

Score: 0.935

Data Source: BioPlex,STRINGDB

ZNF28

Tdark

Family: TF

Novelty: 0.60861294

p_int: 0.999998704

p_ni: 0.000001209

p_wrong: 8.7e-8

Score: 0.92

Data Source: BioPlex,STRINGDB

ZNF573

Tdark

Family: TF

Novelty: 2.6663167

p_int: 0.99999825

p_wrong: 0.000001749

Score: 0.934

Data Source: BioPlex,STRINGDB

ZNF250

Tdark

Family: TF

Novelty: 2.37207478

p_int: 0.999998171

p_ni: 0.000001829

Score: 0.944

Data Source: BioPlex,STRINGDB

ZNF274

Tbio

Family: TF

Novelty: 0.01432522

p_int: 0.999997858

p_ni: 0.000002142

Score: 0.981

Data Source: BioPlex,STRINGDB

ZNF112

Tdark

Family: TF

Novelty: 0.9242381

p_int: 0.999994182

p_wrong: 0.000005817

Score: 0.942

Data Source: BioPlex,STRINGDB

ZNF620

Tdark

Family: TF

Novelty: 2.57179565

p_int: 0.999990924

p_ni: 0.000009074

p_wrong: 3e-9

Score: 0.917

Data Source: BioPlex,STRINGDB

ZNF268

Tbio

Family: TF

Novelty: 0.0471762

p_int: 0.99998964

p_ni: 0.000010345

p_wrong: 1.5e-8

Score: 0.937

Data Source: BioPlex,STRINGDB

ZNF721

Tdark

Family: TF

Novelty: 0.47000061

p_int: 0.999988077

p_ni: 1.02e-7

p_wrong: 0.000011821

Score: 0.933

Data Source: BioPlex,STRINGDB

Publication Statistics

PubMed Score  166.92

PubMed score by year

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PubTator Score  184.38

PubTator score by year

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Amino Acid Sequence

Residue Counts

Protein Sequence

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UniProt Keyword Find Similar Targets

3D-structure
Acetylation
Alternative splicing
Chromatin regulator
Citrullination
Coiled coil
Complete proteome
Direct protein sequencing
Host-virus interaction
Isopeptide bond

MGI Phenotype Find Similar Targets

cardiovascular system phenotype
cellular phenotype
digestive/alimentary phenotype
embryo phenotype
endocrine/exocrine gland phenotype
growth/size/body region phenotype
mortality/aging
nervous system phenotype
reproductive system phenotype