| 2018 |
SETD3 is the physiological actin histidine methyltransferase that methylates β-actin at His73 (N3 of histidine 73). Structural studies reveal an extensive network of interactions that clamps the actin peptide onto the surface of SETD3 to orient His73 correctly within the catalytic pocket. His73 methylation reduces the nucleotide-exchange rate on actin monomers and modestly accelerates actin filament assembly. Quantitative proteomics showed actin His73 methylation is the only detectable physiological substrate of SETD3. |
In vitro methyltransferase assay, X-ray crystallography, quantitative proteomics, SETD3 knockout mice |
Nature |
High |
30626964
|
| 2018 |
SETD3 is the actin-specific histidine N-methyltransferase that methylates β-actin at H73 in vertebrates and Drosophila. Knockout of SETD3 in human HAP1 cells and Drosophila abolished H73 methylation. SETD3-deficient HAP1 cells show less cellular F-actin and an increased glycolytic phenotype. |
CRISPR/Cas9 knockout in HAP1 cells and Drosophila, mass spectrometry, in vitro methyltransferase assay with recombinant rat and human SETD3 |
eLife |
High |
30526847
|
| 2011 |
Mouse SETD3 functions as a histone H3K4 and H3K36 methyltransferase with transcriptional activation activity; it is recruited to the myogenin gene promoter together with MyoD and activates transcription of muscle-related genes (myogenin, MCK, Myf6), promoting muscle cell differentiation. Knockdown of SETD3 retards muscle cell differentiation. |
Overexpression and shRNA knockdown in C2C12 cells, reporter assays, chromatin immunoprecipitation (ChIP) |
The Journal of biological chemistry |
Medium |
21832073
|
| 2019 |
SETD3 is required for enterovirus (EV) RNA replication independent of its methyltransferase activity. Cytosolic SETD3 specifically interacts with the viral 2A protease of multiple enteroviral species, and 2A mutants that retain protease activity but cannot interact with SETD3 are severely compromised in RNA replication. SETD3 is essential for in vivo EV replication and pathogenesis in mouse models. |
Genome-scale CRISPR screens, quantitative affinity purification-mass spectrometry (AP-MS), viral replication assays in SETD3-KO cells, in vivo mouse infection models |
Nature microbiology |
High |
31527793
|
| 2019 |
Crystal structures of SAH-bound SETD3 in complex with unmodified or His73-methylated β-actin peptides show that recognition and methylation are highly sequence-specific and that both SETD3 and β-actin undergo pronounced conformational changes upon binding. The catalytic mechanism involves histidine methylation at N3. |
X-ray crystallography, biochemical enzyme activity assays, mutagenesis |
eLife |
High |
30785395
|
| 2017 |
SETD3 protein levels are cell cycle-regulated, peaking in S phase and lowest in M phase. The E3 ubiquitin ligase FBXW7β mediates SETD3 degradation via recognition of a phosphodegron (CPD1) that is phosphorylated by GSK3β. Mutations of the phosphorylated residues in CPD1 abolish FBXW7β–SETD3 interaction and prevent degradation. |
Co-immunoprecipitation, mutagenesis, GSK3β inhibition/depletion, cell cycle synchronization, xenograft mouse model |
The Journal of biological chemistry |
High |
28442573
|
| 2019 |
SETD3 binds the N3-protonated form of actin His73 in a pre-reactive complex; after methyl transfer the product bears an N1-protonated, N3-methylated histidine. During catalysis the imidazole ring of His73 rotates ~105°, shifting the proton from N3 to N1 to deprotonate the target N3 atom prior to methyl transfer. Under conditions optimized for lysine deprotonation, SETD3 shows weak lysine methylation activity. |
X-ray crystallography (pre- and post-reactive complexes), in vitro methyltransferase assays |
Nature communications |
High |
31388018
|
| 2016 |
SETD3 binds and methylates the transcription factor FoxM1. Under basal conditions, SETD3 and FoxM1 are co-enriched on the VEGF promoter, and their dissociation under hypoxia correlates with increased VEGF expression. |
Proteomic interaction screen, Co-immunoprecipitation, methyltransferase assay, chromatin immunoprecipitation (ChIP) |
Scientific reports |
Medium |
27845446
|
| 2019 |
SETD3 is a positive regulator of DNA-damage-induced apoptosis; depletion from HCT-116 colon cancer cells significantly inhibits apoptosis after doxorubicin treatment. SETD3 binds p53 in cells upon doxorubicin treatment and its catalytic activity is required for p53 recruitment to target gene promoters and p53 target gene activation. |
Co-immunoprecipitation, ChIP, siRNA knockdown, apoptosis assays |
Cell death & disease |
Medium |
30683849
|
| 2015 |
SETD3 was identified as a PCNA-interacting protein; the interaction was validated by co-immunoprecipitation from human cell extracts and by interaction analysis using recombinant proteins. |
Bimolecular fluorescence complementation (BiFC) screen, co-immunoprecipitation, recombinant protein interaction assay |
Cell cycle |
Medium |
26030842
|
| 2020 |
SETD3 can methylate methionine in the context of an actin peptide in which His73 is substituted with methionine, generating S-methylmethionine. The 1.9 Å crystal structure reveals the thioether side chain is packed by aromatic rings of Tyr312 and Trp273 and the hydrocarbon side chain of Ile310 in the active site. |
X-ray crystallography (1.9 Å), in vitro methyltransferase assay, site-directed mutagenesis |
The Journal of biological chemistry |
High |
32503840
|
| 2020 |
Active-site engineering (N255F + W273A double substitution) of SETD3 switches its target specificity from histidine to lysine methylation, achieving a 13-fold preference for lysine. X-ray crystallography shows that the target N3 atom of histidine and the terminal ε-amino nitrogen of lysine occupy the same active-site position. |
Active-site mutagenesis, in vitro methyltransferase assays (kcat/Km measurements), X-ray crystallography |
The Journal of biological chemistry |
High |
31911441
|
| 2024 |
SETD3 is localized on the outer mitochondrial membrane and is a mechanosensitive enzyme regulated by extracellular matrix stiffness. SETD3 directly methylates actin at His73, enhances F-actin polymerization around mitochondria, and is required for oxidative phosphorylation and mitochondrial complex I assembly and function. Loss of SETD3 leads to diminished F-actin around mitochondria and decreased mitochondrial branch length, branch number, and movement. |
Live-cell imaging, fractionation/localization assays, SETD3 loss-of-function with mitochondrial functional readouts (OXPHOS, complex I assembly), ECM stiffness modulation |
Journal of cell science |
Medium |
38896010
|
| 2022 |
USP27, a deubiquitinase, specifically interacts with SETD3, negatively regulates its ubiquitination, and enhances its protein stability, thereby promoting hepatocellular carcinoma cell proliferation. |
Co-immunoprecipitation, ubiquitination assays, USP27 knockdown with SETD3 protein level measurement |
Cellular and molecular life sciences |
Medium |
35018513
|
| 2024 |
SETD3 methylates MCM7 at histidine-459 (H459me), which is required for CDT1-mediated chromatin loading of the MCM complex and replication origin firing. CDK2 phosphorylates SETD3 at Serine-21 during G1/S phase, which is required for DNA replication and cell cycle progression. |
Nascent-strand sequencing (NS-seq), biochemical co-immunoprecipitation, SETD3 enzymatic activity assays, H459 mutagenesis, CDK2 phosphorylation assays |
Science China. Life sciences |
Medium |
39455502
|
| 2024 |
SETD3 interacts with hnRNPK and collaboratively regulates pre-mRNA exon skipping. Together they regulate retention of exon 7 skipping in FNIP1, promoting FNIP1-mediated nuclear translocation of TFEB and subsequent induction of lysosomal and mitochondrial biogenesis. |
In situ proximity labeling/mass spectrometry, genome-wide RNA-seq, Co-immunoprecipitation, loss-of-function experiments |
Cell insight |
Medium |
39391005
|
| 2024 |
NUDT16-mediated dePARylation stabilizes SETD3 by reversing PARP1-mediated ADP-ribosylation. The E3 ligase CHFR recognizes PARylated SETD3 for degradation. SETD3 associates with BRCA2 and promotes its recruitment to stalled replication forks and DNA double-strand break sites. |
Co-immunoprecipitation, PARylation/dePARylation assays, SETD3 depletion with replication stress readouts, cell irradiation sensitivity assays |
The Journal of biological chemistry |
Medium |
38272222
|
| 2025 |
SETD3 dimethylates CHD1 at lysine 209 (K209). This dimethylation enhances CHD1 protein stability by reducing its ubiquitination. SETD3-mediated CHD1 methylation enhances H3K4me3 marks and promotes transcriptional activation of TNF-NFκB pathway genes. |
In vitro methyltransferase assay, Co-immunoprecipitation, ubiquitination assays, ChIP, gene expression analysis |
Cancer letters |
Medium |
41045985
|
| 2025 |
SETD3 interacts with α-centractin (ACTR1A), a key dynactin subunit, and methylates it in vitro. Fluorography of SETD3-KO cell lysates revealed at least five novel SETD3-dependent methylated proteins beyond β-actin. |
TurboID proximity labeling, mass spectrometry, CRISPR/Cas9 KO in three cell lines, radiochemical methyltransferase assay, fluorography |
PeerJ |
Medium |
41142317
|
| 2021 |
SETD3 depletion in neurons leads to decreased actin polymerization (F-actin), reduced cellular ATP, diminished mitochondrial membrane potential, and increased ROS production, resulting in mitochondrial dysfunction and neuronal death following oxygen-glucose deprivation. PTEN upregulation after ischemia causes SETD3 downregulation, and inhibiting PTEN protects neurons through restoration of SETD3 and actin polymerization. |
siRNA knockdown, OGD/R model, mitochondrial function assays (ATP, membrane potential, ROS), actin polymerization assay, in vivo cerebral I/R rat model |
Molecular neurobiology |
Medium |
34218417
|
| 2019 |
SETD3-deficient female mice show severe reduction in litter sizes due to primary maternal dystocia; depletion of SETD3 impairs signal-induced contraction in primary human uterine smooth muscle cells. Complete loss of actin His73 methylation was confirmed in multiple tissues of SETD3-null mice. |
SETD3 knockout mice, uterine smooth muscle contraction assays, SETD3 siRNA knockdown in primary human cells |
Nature |
High |
30626964
|
| 2025 |
SETD3 interacts with BRD2 in the nucleus of mouse ESCs, and this interaction depends on the RSB domain of SETD3. Loss of SETD3 leads to reduced BRD2 recruitment to chromatin and transcriptional changes; the interaction was confirmed by co-immunoprecipitation, domain deletion analysis, and proximity ligation assays. |
Mass spectrometry (nuclear pull-down), Co-immunoprecipitation, domain deletion analysis, proximity ligation assay (PLA) |
The FEBS journal |
Medium |
40944926
|
| 2024 |
In mouse ESCs, SETD3 interacts with β-catenin (proximity ligation assay), and loss of SETD3 reduces nuclear β-catenin levels (without changing total protein or mRNA), decreasing canonical Wnt transcriptional activity and causing endoderm differentiation defects that can be rescued by re-expressing SETD3 or activating canonical Wnt signaling. |
Proximity ligation assay (PLA), time-course RNA-seq, nuclear fractionation, Wnt reporter assay, SETD3 rescue experiments |
FASEB journal |
Medium |
38334393
|
| 2025 |
SETD3 promotes H3K4 methylation at the NLRP3 transcription start site in hippocampal microglia, activating the NLRP3-Caspase-1-IL-1β signaling pathway and enhancing neuroinflammation after surgery. |
SETD3 knockdown via lentiviral injection, ChIP for H3K4me3 at NLRP3 promoter, neuroinflammation cytokine assays, behavioral tests |
Experimental neurology |
Low |
41175962
|
| 2023 |
The Trp79 binding pocket of SETD3 plays an important role in efficient His73 methylation catalysis; substitution of Trp79 in β-actin peptides with less bulky or hydrophilic residues reduces SETD3 catalytic activity, and molecular dynamics simulations show the pocket is shaped to accommodate the large hydrophobic Trp79. |
In vitro methyltransferase assay (MALDI-TOF MS), molecular dynamics simulations, synthetic peptide substitutions |
Chembiochem |
Medium |
37581408
|
| 2025 |
The pathogenic G74S β-actin mutation (associated with BWCFF syndrome) disrupts SETD3-mediated His73 methylation; enzymatic assays confirm slower turnover of mutant actin peptides, and mass spectrometry reveals decreased His73 methylation in recombinant mutant β-actin and patient-derived fibroblasts. |
Enzymatic turnover assays, mass spectrometry (patient fibroblasts and recombinant protein), molecular docking |
FEBS letters |
Medium |
40490999
|