Rui Kamada

Rui Kamada
Hokkaido University | Hokudai · Department of Chemistry

Doctor of Philosophy

About

58
Publications
2,777
Reads
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580
Citations
Citations since 2017
22 Research Items
460 Citations
2017201820192020202120222023020406080100
2017201820192020202120222023020406080100
2017201820192020202120222023020406080100
2017201820192020202120222023020406080100

Publications

Publications (58)
Article
The nucleolus is a membrane-less structure that exists in the nucleus of cells and plays a crucial role in ribosome biogenesis. It is known to be formed through liquid-liquid phase separation (LLPS) caused by the interaction of various nucleolar proteins and nucleic acids. Recently, many studies on LLPS with nucleolar proteins in the presence of RN...
Article
Full-text available
Hypertrophy and hyperplasia of white adipocytes induce obesity, leading to diseases such as type 2 diabetes and hypertension, and even cancer. Hypertrophy of white adipocytes is attributed to the excessive storage of the energy form of triglycerides in lipid droplets (LDs). LDs are fat storage organelles that maintain whole-body energy homeostasis....
Preprint
The tumor suppressor p53 plays a central role in cellular stress responses by regulating transcription of multiple target genes. The temporal dynamics of p53 are thought to be important for its function: it encode input information and are decoded to induce distinct cellular phenotypes. However it remains unclear to what extent the temporal dynamic...
Preprint
Alternative transcription start sites (TSSs) usage plays a critical role in gene transcription regulation in mammals. However, precisely identifying alternative TSSs remains challenging at the genome-wide level. Here, we report a single-cell genomic technology for alternative TSSs annotation and cell heterogeneity detection. In the method, we utili...
Article
Reversible protein phosphorylation is a key mechanism for regulating numerous cellular events. The metal-dependent protein phosphatases (PPM) are a family of Ser/Thr phosphatases, which uniquely recognize their substrate as a monomeric enzyme. In the case of PPM1A, it has the capacity to dephosphorylate a variety of substrates containing different...
Article
Protein phosphatases and kinases control multiple cellular events including proliferation, differentiation, and stress responses through regulating reversible protein phosphorylation, the most important post-translational modification. Members of metal-dependent protein phosphatase (PPM) family, also known as PP2C phosphatases, are Ser/Thr phosphat...
Article
The human PIAS proteins are small ubiquitin-like modifier (SUMO) E3 ligases that participate in important cellular functions. Several of these functions depend on a conserved SUMO-interacting motif (SIM) located in the central region of all PIAS proteins (SIM1). Recently, it was determined that Siz2, a yeast homolog of PIAS proteins, possesses a se...
Article
The p53 protein plays a number of roles in protecting organisms from different genotoxic stresses and this includes DNA damage induced by acetaldehyde, a metabolite of alcohol. Since the common tree shrew ingests high levels of alcohol as part of its normal diet, this suggests that its p53 protein may possess unique properties. Using a combination...
Article
The protein phosphatase PPM1D (Wip1) was originally identified as a p53 target product. Activation of PPM1D through various mechanism promotes the tumorigenic potential of various cancers by suppressing p53 and other DNA damage response proteins. New functions of PPM1D have recently been revealed in physiological processes such as cell differentiat...
Article
Full-text available
Obesity is a worldwide public health problem, which is associated with various severe diseases including diabetes, hypertension, atherosclerosis, and cancer. Recent studies have revealed that combination treatment of several different compounds using low doses is effective to reduce side effects. Thus, there is a need to develop an efficient inhibi...
Data
Imaging of lipid droplets by Monodansylpentane. 3T3-L1 cells were differentiated for 8 days with 15 μM SL-104. (TIF)
Data
Inhibitory activity of SL-176 for His-mousePPM1D (1–413) in vitro. Phosphatase activity of His-mousePPM1D (1–413) for p53-derived peptide was measured. (TIF)
Data
Quantification of lipid droplets with 10 μM SL-104 and SL-188. Amount of lipid droplets was quantified by Oil Red O staining. (TIF)
Article
Epigenetic memory for signal-dependent transcription has remained elusive. So far, the concept of epigenetic memory has been largely limited to cell-autonomous, preprogrammed processes such as development and metabolism. Here we show that IFNβ stimulation creates transcriptional memory in fibroblasts, conferring faster and greater transcription upo...
Article
Introduction: Peptide-mediated biomineralization is a promising bioinspired technique of nanostructure formation. The biomineralization peptide is responsible for the regulation of the growth and morphology of the inorganic nanostructure. The 3D properties of the biomineralization peptide is a crucial factor in which the success of creating functi...
Article
p53 acts as a transcriptional factor for tumor suppression via tetramerization. Although the dominant-negative effect occurs by hetero-oligomerization between wild-type and mutant p53, the precise mechanism remains unclear. Here, we report an analysis of the transcriptional ability of each hetero-tetramer p53 at the physiological protein expression...
Article
Full-text available
On the role of H3.3 in retroviral silencing
Article
Protein phosphatase Magnesium-dependent 1, Delta (PPM1D) is a wild-type p53-inducible Ser/Thr phosphatase that acts as a negative regulator of the p53 tumor suppressor. Gene amplification and overexpression of PPM1D have been reported in various cancers including leukemia and neuroblastoma. Therefore, PPM1D is a promising target in cancer therapy....
Article
Coiled coils, consisting of at least two α-helices, have important roles in the regulation of transcription, cell differentiation, and cell growth. Peptides composed of d-amino acids (d-peptides) have received great attention for their potential in biomedical applications, because they give large diversity for the design of peptidyl drug and are mo...
Article
Full-text available
An increase of nucleolar number and size has made nucleoli essential markers for cytology and tumour development. However, the underlying basis for their structural integrity and abundance remains unclear. Protein phosphatase PPM1D was found to be up-regulated in different carcinomas including breast cancers. Here, we demonstrate for the first time...
Article
Full-text available
There has been considerable interest in the patterning of functionalized nanowires because of the potential applications of these materials to the construction of nanodevices. A variety of biomolecular building blocks containing amyloid peptides have been used to functionalize nanowires. However, the patterning of self-assembled nanowires can be ch...
Article
Full-text available
Nuclear and cytoplasmic morphological changes provide important information about cell differentiation processes, cell functions, and signal responses. There is a strong desire to develop a rapid and simple method for visualizing cytoplasmic and nuclear morphology. Here, we developed a novel and rapid method for probing cellular morphological chang...
Data
Temperature-dependent cellular uptake of TAP-4PH. HL-60 cells were incubated with 50 μM TAP-4PH for 30 min at 37 or 4°C. Cellular uptake of TAP-4PH was measured by flow cytometric analysis. Data represent the mean ± S.D., n = 3. **p < 0.005, Student’s t-test. (TIF)
Data
TAP-4PH visualization of PC-12 cells. Merged bright-field and TAP-4PH fluorescent (cyan) images of PC-12 cells. (TIF)
Data
Co-staining with Golgi apparatus and ER probes in A549 cells. A549 cells were stained with a Golgi apparatus probe and ER probe, followed by treatment with 50 μM TAP-4PH for 30 min. and then observed by fluorescence microscopy. Merged image was constructed with images of TAP-4PH (cyan), Golgi apparatus probe (yellow), and ER probe (magenta). Scale...
Data
Co-staining with the nuclear staining probe acridine orange and TAP-4PH in A549 cells. Left panel, TAP-4PH; middle panel, acridine orange; right panel, merged images of TAP-4PH (cyan) and acridine orange (magenta). Scale bar: 20 μm. (TIF)
Data
TAP-4PH visualization of HL-60 cells. (a) HL-60 cells before and after differentiation into neutrophil-like cells by ATRA for 5 days. After differentiation, the cells were co-stained with Nuclear Green LSC1 for nucleus and TAP-4PH. Left panels, TAP-4PH; middle panels, Nuclear Green LSC1; right panels, merged images of TAP-4PH (cyan) and Nuclear Gre...
Data
Cell cycle analysis of HL-60 cells after incubation for 48 h in the presence (left) or absence (right) of 10 or 50 μM TAP-4PH. Data shown are representative of three independent experiments. (TIF)
Data
TAP-4PH visualization of differentiated 3T3-L1 adipocytes. 3T3-L1 cells were induced to differentiate into adipocytes for 8 days. The cells were then treated with 50 μM TAP-4PH for 30 min and observed by fluorescence microscopy. Scale bar: 10 μm. (TIF)
Data
Fluorescence emission spectra of 10 μM TAP-4PH with the indicated concentrations of DNA in PBS. (TIF)
Article
Protein expression using Escherichia coli is a common and important method for recombinant protein production. Herein, we quantitatively analyzed the correlation between protein expression in vivo and thermodynamic structure stability in vitro using the tetramerization domain of tumor suppressor protein p53. We found a strong positive relationship...
Article
Tetramer formation of p53 is essential for its tumor suppressor function. p53 not only acts as a tumor suppressor protein by inducing cell cycle arrest and apoptosis in response to genotoxic stress, but it also regulates other cellular processes, including autophagy, stem cell self-renewal and reprogramming of differentiated cells into stem cells,...
Article
Protein phosphatase magnesium-dependent 1δ (PPM1D, Wip1) is a p53 inducible serine/threonine phosphatase. PPM1D is a promising target protein in cancer therapy since overexpression, missense mutations, truncating mutations, and gene amplification of PPM1D are reported in many tumors, including breast cancer and neuroblastoma. Herein, we report that...
Article
The physical and chemical properties of silver nanomaterials are highly dependent on their shape and size. Recently, Ag nanoparticles have been reported to be useful for medicinal and pharmaceutical applications including anticancer activity. In this study, we showed that Ag nanoplates possess significantly higher antiproliferative activity on huma...
Article
Cytokine signaling changes the epigenetic status of the genome and influences gene expression patterns and function of the cells for generations. In the whole animal cells and tissues in vivo are often exposed to repeated cytokine stimulation in response to chronic infection and inflammation. Under these conditions cells previously stimulated with...
Article
PPM1D is a p53-inducible Ser/Thr phosphatase. One of the main functions of PPM1D in normal cells is to act as a negative regulator of the p53 tumor suppressor by dephosphorylating p53 and several kinases. PPM1D is considered an oncoprotein owing to both its functions and the fact that gene amplification and overexpression of PPM1D are reported in s...
Article
Specific turn-on detection of enzyme activities is of fundamental importance in drug discovery research, as well as medical diagnostics. Although magnetic resonance imaging (MRI) is one of the most powerful techniques for noninvasive visualization of enzyme activity, both in vivo and ex vivo, promising strategies for imaging specific enzymes with h...
Chapter
Tumor suppressor protein p53 plays a central role in maintaining genomic integrity. p53 induces cell cycle arrest and apoptosis by transactivating the expression of downstream target genes in response to genotoxic stress. Tetramer formation of p53 is essential for its activity. The aims of this study were to reveal the dysfunction threshold of p53...
Chapter
The tumor suppressor p53, a 393 amino acid transcription factor, induces cell cycle arrest and apoptosis in response to genotoxic stress. Its inactivation via the mutation of its gene is a key step in tumor progression, and tetramer formation is critical for p53 post-translational modification and its ability to activate or repress the transcriptio...
Chapter
Induced pluripotent stem (iPS) cells can be generated by the expression of pluripotency factors and oncogenes; however, the efficiency of generating iPS cells is extremely low (less than 1 %). Activation of the p53-p21 pathway is responsible for this low efficiency and inactivation of p53 enhances the production of induced iPS cells 10–20 fold. Tet...
Chapter
Li-Fraumeni syndrome, a hereditary disorder characterized by familial clusters of early-onset multiple tumors, is caused by mutation of the TP53 gene, which encodes the p53 tumor suppressor protein. Mutation of Arg337 to histidine in the tetramerization domain of p53 is most frequently observed in Li-Fraumeni syndrome. This mutation is reported to...
Article
Tumor suppressor protein p53 induces cell cycle arrest, apoptosis, and senescence in response to cellular stresses. The p53 tetramer formation is essential for its functions. Despite of these crucial functions of p53 for integrity of genome, activation of the p53 signal pathway causes low induced pluripotent stem (iPS) cell generation efficiency. I...
Article
Stabilization of protein structures and protein-protein interactions are critical in the engineering of industrially useful enzymes and in the design of pharmaceutically valuable ligands. Hydrophobic interactions involving phenylalanine residues play crucial roles in protein stability and protein-protein/peptide interactions. To establish an effect...
Article
The tumor suppressor p53, a 393-amino acid transcription factor, induces cell cycle arrest and apoptosis in response to genotoxic stress. Its inactivation via the mutation of its gene is a key step in tumor progression, and tetramer formation is critical for p53 post-translational modification and its ability to activate or repress the transcriptio...
Article
Full-text available
The tumor suppressor p53, a 393-amino acid transcription factor, induces cell cycle arrest and apoptosis in response to genotoxic stress. Its inactivation via the mutation of its gene is a key step in tumor progression, and tetramer formation is critical for p53 post-translational modification and its ability to activate or repress the transcriptio...
Article
Li-Fraumeni syndrome, a hereditary disorder characterized by familial clusters of early-onset multiple tumors, is caused by mutation of the TP53 gene, which encodes the p53 tumor suppressor protein. Mutation of Arg337 to histidine in the tetramerization domain of p53 is most frequently observed in Li-Fraumeni syndrome. This mutation is reported to...
Article
Full-text available
Inactivation of the tumor suppressor p53 is central to carcinogenesis and acquisition of resistance to drug-induced apoptosis. The majority of alterations are missense mutations and occur within the DNA-binding domain. However, little is known about the point mutations in the tetramerization domain (TD). Here we investigated the properties of a new...
Article
To estimate the transcriptional activity of p53 in individual living mammalian cells, we constructed the enhanced green fluorescent protein-red fluorescent protein (EGFP-DsRed) reporter system with the EGFP-p53 expression vector and the reporter plasmid, which carried a p53-dependent promoter. The expression level and transcriptional activity of EG...
Article
The tumor suppressor protein p53 is a tetrameric phosphoprotein that induces cell cycle, development, and differentiation by regulating the expression of target genes. The tetramerization of p53 is essential for its tumor suppressor functions. It has been known that oxidation of proteins affects their structure and function. A methionine residue (M...

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