Overview
| Uniprot ID | O08629 |
|---|
| Protein Name | Transcription intermediary factor 1-beta |
|---|
| Gene Name | Trim28 |
|---|
| Organism | Rattus norvegicus |
|---|
Kla Sites from experimental identification
| Position |
Flanking peptide |
| 780 |
FNKLTEDKADVQSII |
Function
E3 SUMO and ubiquitin ligase that plays a pivotal role in embryonic development, genomic imprinting, and maintenance of genomic stability through repression of repetitive and retroviral elements. Also involved in DNA repair, regulation of innate immunity or cellular energy homeostasis. Acts as a scaffold for assembling transcriptional repression complexes containing methyltransferases, histone deacetylases, and chromatin remodelers. Serves as a nuclear corepressor for KRAB domain-containing zinc finger proteins (KRAB-ZFPs), mediating gene silencing by recruiting CHD3, a subunit of the nucleosome remodeling and deacetylation (NuRD) complex, and SETDB1, which methylates histone H3 at Lys-9 (H3K9me), leading to heterochromatin formation. In collaboration with SETDB1, is also required for H3K9me3 and silencing of endogenous and introduced retroviruses in a DNA-methylation independent-pathway (By similarity). Functions as a coactivator for CEBPB and NR3C1 (glucocorticoid receptor) in transcriptional activation of ORM1, and as a corepressor for ERBB4. Inhibits E2F1 activity by promoting E2F1-HDAC1 complex formation and preventing E2F1 acetylation. This contributes to CDKN1A/p21(CIP1) regulation and provides a partial backup to suppress E2F1-mediated apoptosis in the absence of RB1. Mediates the nuclear localization of several KRAB-ZFP transcription factors including KOX1, ZNF268, and ZNF300 among others. 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). Required to maintain a transcriptionally repressive state of genes in undifferentiated embryonic stem cells (ESCs). Acts as a corepressor for ZFP568. Beyond its nuclear functions, acts as a positive regulator of type I interferon (IFN-I) signaling by promoting Lys-63-linked ubiquitination of TBK1, facilitating TBK1-IRF3 complex formation. Mediates TRAF6 SUMOylation to regulate its nucleo-cytoplasmic shuttling and modulate activation of the canonical NF-kappa-B signaling pathway. Facilitates SUMOylation of NLRP3, protecting it from 'Lys-48'-linked ubiquitination and proteasomal degradation and thereby enhancing inflammasome activation (By similarity)
Protein Sequence
10
MAASAAAATA
20
AASAATAASA
30
ASGSPGSGEG
40
SAGGEKRPAA
50
SSAAAASASA
60
SSPAGGGGEA
70
QELLEHCGVC
80
RERLRPERDP
90
RLLPCLHSAC
100
SACLGPATPA
110
AANNSGDGGS
120
AGDGAMVDCP
130
VCKQQCYSKD
140
IVENYFMRDS
150
GSKASSDSQD
160
ANQCCTSCED
170
NAPATSYCVE
180
CSEPLCETCV
190
EAHQRVKYTK
200
DHTVRSTGPA
210
KTRDGERTVY
220
CNVHKHEPLV
230
LFCESCDTLT
240
CRDCQLNAHK
250
DHQYQFLEDA
260
VRNQRKLLAS
270
LVKRLGDKHA
280
TLQKNTKEVR
290
SSIRQVSDVQ
300
KRVQVDVKMA
310
ILQIMKELNK
320
RGRVLVNDAQ
330
KVTEGQQERL
340
ERQHWTMTKI
350
QKHQEHILRF
360
ASWALESDNN
370
TALLLSKKLI
380
YFQLHRALKM
390
IVDPVEPHGE
400
MKFQWDLNAW
410
TKSAEAFGKI
420
VAERPGTNST
430
GPGPMAPPRA
440
PGPLSKQGSG
450
SSQPMEVQEG
460
YGFGTDDPYS
470
SAEPHVSGMK
480
RSRSGEGEVS
490
GLMRKVPRVS
500
LERLDLDLTS
510
DSQPPVFKVF
520
PGSTTEDYNL
530
IVIERGAAAA
540
AAGQAGTVPP
550
GAPGAPPLPG
560
MAIVKEEETE
570
AAIGAPPAAP
580
EGPETKPVLM
590
ALTEGPGAEG
600
PRLASPSGST
610
SSGLEVVAPE
620
VTSAPVSGPG
630
ILDDSATICR
640
VCQKPGDLVM
650
CNQCEFCFHL
660
DCHLPSLQDV
670
PGEEWSCSLC
680
HVLPDLKEED
690
GSLSLDGADS
700
TGVVAKLSPA
710
NQRKCERVLL
720
ALFCHEPCRP
730
LHQLATDSTF
740
SMEQPGGTLD
750
LTLIRARLQE
760
KLSPPYSSPQ
770
EFAQDVGRMF
780
KQFNKLTEDK
790
ADVQSIIGLQ
800
RFFETRMNDA
810
FGDTKFSAVL
820
VEPPPLNLPS
830
AGLSSQELSG
PGDGP
Gene Ontology
| Classification |
GO ID |
Description |
| Cellular Component |
GO:0000785 |
chromatin |
| Cellular Component |
GO:0000791 |
euchromatin |
| Cellular Component |
GO:0000792 |
heterochromatin |
| Cellular Component |
GO:0005654 |
nucleoplasm |
| Cellular Component |
GO:0005634 |
nucleus |
| Cellular Component |
GO:0032991 |
protein-containing complex |
| Cellular Component |
GO:0090575 |
RNA polymerase II transcription regulator complex |
| Molecular Function |
GO:0003682 |
chromatin binding |
| Molecular Function |
GO:0140463 |
chromatin-protein adaptor activity |
| Molecular Function |
GO:0070087 |
chromo shadow domain binding |
| Molecular Function |
GO:0003677 |
DNA binding |
| Molecular Function |
GO:0035851 |
Krueppel-associated box domain binding |
| Molecular Function |
GO:1990841 |
promoter-specific chromatin binding |
| Molecular Function |
GO:0004672 |
protein kinase activity |
| Molecular Function |
GO:0061665 |
SUMO ligase activity |
| Molecular Function |
GO:0019789 |
SUMO transferase activity |
| Molecular Function |
GO:0003713 |
transcription coactivator activity |
| Molecular Function |
GO:0003714 |
transcription corepressor activity |
| Molecular Function |
GO:0061630 |
ubiquitin protein ligase activity |
| Molecular Function |
GO:0031625 |
ubiquitin protein ligase binding |
| Molecular Function |
GO:0004842 |
ubiquitin-protein transferase activity |
| Molecular Function |
GO:0008270 |
zinc ion binding |
| Biological Process |
GO:0006325 |
chromatin organization |
| Biological Process |
GO:0060028 |
convergent extension involved in axis elongation |
| Biological Process |
GO:0006974 |
DNA damage response |
| Biological Process |
GO:0006346 |
DNA methylation-dependent constitutive heterochromatin formation |
| Biological Process |
GO:0006281 |
DNA repair |
| Biological Process |
GO:0006351 |
DNA-templated transcription |
| Biological Process |
GO:0007566 |
embryo implantation |
| Biological Process |
GO:0060669 |
embryonic placenta morphogenesis |
| Biological Process |
GO:0043045 |
epigenetic programming of gene expression |
| Biological Process |
GO:0001837 |
epithelial to mesenchymal transition |
| Biological Process |
GO:0071514 |
genomic imprinting |
| Biological Process |
GO:0001701 |
in utero embryonic development |
| Biological Process |
GO:0045087 |
innate immune response |
| Biological Process |
GO:0043124 |
negative regulation of canonical NF-kappaB signal transduction |
| Biological Process |
GO:0045892 |
negative regulation of DNA-templated transcription |
| Biological Process |
GO:0045869 |
negative regulation of single stranded viral RNA replication via double stranded DNA intermediate |
| Biological Process |
GO:0000122 |
negative regulation of transcription by RNA polymerase II |
| Biological Process |
GO:0045739 |
positive regulation of DNA repair |
| Biological Process |
GO:0045893 |
positive regulation of DNA-templated transcription |
| Biological Process |
GO:0042307 |
positive regulation of protein import into nucleus |
| Biological Process |
GO:0032481 |
positive regulation of type I interferon production |
| Biological Process |
GO:0043161 |
proteasome-mediated ubiquitin-dependent protein catabolic process |
| Biological Process |
GO:0046777 |
protein autophosphorylation |
| Biological Process |
GO:0006468 |
protein phosphorylation |
| Biological Process |
GO:0016925 |
protein sumoylation |
| Biological Process |
GO:0016567 |
protein ubiquitination |
| Biological Process |
GO:0044790 |
suppression of viral release by host |
Reference
[1] Sheng L, Xu H, Wang Y, Ni J, Xiang T et al.. Systematic analysis of lysine lactylation in nucleus pulposus cells.. iScience 27(11):111157. 2024 Nov 15. PMID: 39524337.