Updated on 2026/08/10

Information

 

写真a

 
NAKAGAWA NATSUMI
 
Organization
Faculty of Arts and Science Division for Experimental Natural Science Assistant Professor
Title
Assistant Professor

Papers

  • Dominant-Negative Effects of p53 R337 Variants in Li-Fraumeni Syndrome: Impact on Tetramer Formation and Transcriptional Activity Reviewed

    Kamada, R; Sakaguchi, S; Kanno, M; Ozawa, T; Nakagawa, N; Omichinski, JG; Sakaguchi, K

    CHEMBIOCHEM   26 ( 22 )   e202500330   2025.11   ISSN:1439-4227 eISSN:1439-7633

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    Language:English   Publisher:Chembiochem  

    Li–Fraumeni syndrome (LFS) is an inherited cancer predisposition disorder caused by heterozygous TP53 mutations. Among these, missense mutations at Arg337—such as R337C and R337H—are common in LFS patients. Although many studies have characterized individual p53 variants in LFS, the impact of tetramerization domain (TD) mutations on wild-type (WT) p53 function remains unclear. Herein, a novel FRET-based assay system that enables the simultaneous detection of heterotetramer formation and p53-dependent transcriptional activity in live cells is developed. These results show that the heteromultimerization of the R337C variant with WT p53 is only slightly reduced compared to WT homotetramers, yet its transcriptional activity is diminished by over 50%. In contrast, the R337H variant forms heterotetramers at near-normal levels but exhibits markedly compromised transcriptional activity. These findings reveal a previously unrecognized dominant-negative-like effect, suggesting reduced p53 function is due not only to decreased tetramer formation but also to diminished heterotetramer stability. Moreover, the LFS-associated p53TD variants show a greater loss of activity against the low-affinity, apoptosis-inducing bax response element than against the high-affinity, cell cycle arrest-related CDKN1A response element. Collectively, this study demonstrates that p53TD mutations can exert dominant-negative effects, advancing the understanding of p53 heteromultimer function in LFS pathogenesis. These mechanistic insights into p53 heterotetramer stability may not only inform genetic screening strategies for LFS but also support future therapeutic approaches aimed at restoring p53 function by stabilizing mutant tetramers.

    DOI: 10.1002/cbic.202500330

    Web of Science

    Scopus

    PubMed

  • Biomineralization through a Symmetry-Controlled Oligomeric Peptide Reviewed

    Sakaguchi, T; Nakagawa, N; Mine, K; Janairo, JIB; Kamada, R; Omichinski, JG; Sakaguchi, K

    BIOMIMETICS   8 ( 8 )   2023.12   eISSN:2313-7673

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    Language:English   Publisher:Biomimetics  

    Biomineralization peptides are versatile tools for generating nanostructures since they can make specific interactions with various inorganic metals, which can lead to the formation of intricate nanostructures. Previously, we examined the influence that multivalency has on inorganic structures formed by p53 tetramer-based biomineralization peptides and noted a connection between the geometry of the peptide and its ability to regulate nanostructure formation. To investigate the role of multivalency in nanostructure formation by biomineralization peptides more thoroughly, silver biomineralization peptides were engineered by linking them to additional self-assembling molecules based on coiled-coil peptides and multistranded DNA oligomers. Under mild reducing conditions at room temperature, these engineered biomineralization peptides self-assembled and formed silver nanostructures. The trimeric forms of the biomineralization peptides were the most efficient in forming a hexagonal disk nanostructure, with both the coiled-coil peptide and DNA-based multimeric forms. Together, the results suggest that the spatial arrangement of biomineralization peptides plays a more important role in regulating nanostructure formation than their valency.

    DOI: 10.3390/biomimetics8080606

    Web of Science

    Scopus

    PubMed

  • Highly Similar Tetramerization Domains from the p53 Protein of Different Mammalian Species Possess Varying Biophysical, Functional and Structural Properties Reviewed

    Sakaguchi, S; Nakagawa, N; Wahba, HM; Wada, J; Kamada, R; Omichinski, JG; Sakaguchi, K

    INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES   24 ( 23 )   2023.12   ISSN:1661-6596 eISSN:1422-0067

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    Language:English   Publisher:International Journal of Molecular Sciences  

    The p53 protein is a transcriptional regulatory factor and many of its functions require that it forms a tetrameric structure. Although the tetramerization domain of mammalian p53 proteins (p53TD) share significant sequence similarities, it was recently shown that the tree shrew p53TD is considerably more thermostable than the human p53TD. To determine whether other mammalian species display differences in this domain, we used biophysical, functional, and structural studies to compare the properties of the p53TDs from six mammalian model organisms (human, tree shrew, guinea pig, Chinese hamster, sheep, and opossum). The results indicate that the p53TD from the opossum and tree shrew are significantly more stable than the human p53TD, and there is a correlation between the thermostability of the p53TDs and their ability to activate transcription. Structural analysis of the tree shrew and opossum p53TDs indicated that amino acid substitutions within two distinct regions of their p53TDs can dramatically alter hydrophobic packing of the tetramer, and in particular substitutions at positions corresponding to F341 and Q354 of the human p53TD. Together, the results suggest that subtle changes in the sequence of the p53TD can dramatically alter the stability, and potentially lead to important changes in the functional activity, of the p53 protein.

    DOI: 10.3390/ijms242316620

    Web of Science

    Scopus

    PubMed

  • Structural and functional evolution of tetramerization in tumor suppressor protein p53 family Reviewed

    Sakaguchi, S; Nakagawa, N; Wahba, H; Kamada, R; Omichinski, JG; Sakaguchi, K

    JOURNAL OF PEPTIDE SCIENCE   28   2022.8   ISSN:1075-2617 eISSN:1099-1387

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Presentations

MISC

Research Projects

  • Mechanisms of the plateau rise phenomenon during the stationary phase and bacterial proliferation strategies for regulating the gut microbiota

    Grant number:26K17954  2026.4 - 2030.3

    Grants-in-Aid for Scientific Research  Grant-in-Aid for Early-Career Scientists

    中川 夏美

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    Grant type:Scientific research funding

    細菌は環境ストレスに応じて群集として増殖制御を行う。通常、閉鎖系培養における定常期細胞密度は増加しないが、申請者は酵母由来coiled-coil変異型ペプチドが大腸菌の定常期プラトーを上昇させる現象を見出した。本研究では、この外来ペプチドによる増殖制御機構を分子レベルで解明し、類似機能を持つ天然ペプチドの探索とともに、新たな細菌群集制御原理の確立を目指す。

    CiNii Research

  • Serious stress resistance mechanism by functional polypeptides encoded by latent ORFs in bacterial ribosomal RNA

    Grant number:23K26791  2024.4 - 2026.3

    Grants-in-Aid for Scientific Research  Grant-in-Aid for Scientific Research (B)

    坂口 和靖, 鎌田 瑠泉, 中川 夏美

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    Grant type:Scientific research funding

    翻訳装置であるリボソームを構成する主要構成分子であるリボソームRNAは、タンパク質をコードしないノンコーディングRNAとされている。本研究では、ノンコーディングRNAとされている細菌のrRNAが潜在的コード情報を内在し、生存危機などの特異な状況において翻訳され機能するポリペプチド(r-Peptide)の同定およびそれらの危機防御における機能とその機構解明を目指す。
    本研究により、この新規機構に基づいた薬剤開発へとつながることが期待される。

    CiNii Research

  • Novel mechanisms in the acquisition of bacterial antibiotics resistance

    Grant number:23K17966  2023.6 - 2026.3

    Grants-in-Aid for Scientific Research  Grant-in-Aid for Challenging Research (Exploratory)

    坂口 和靖, 鎌田 瑠泉, 中川 夏美

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    Grant type:Scientific research funding

    抗生物質およびそれらの合成誘導体などの抗菌薬は、細菌による感染症の治療において最も重要な薬剤である。しかしながら、多剤耐性菌の出現が世界的に拡大しており、医学的、社会的に極めて大きな問題となっている。本研究では、細菌rRNAに潜在的にコードされる機能性ポリペプチド(r-Peptide)の翻訳を介した、薬剤耐性機構解明を目指す。
    本研究により、細菌の多剤耐性菌の発生メカニズムに基づいた全く新しいタイプの抗生物質の開発へと展開されることが強く期待される。

    CiNii Research

  • Multivalency effects of biologically active molecules with controlled valance and orientation by oligomerization

    Grant number:23K13838  2023.4 - 2026.3

    Grants-in-Aid for Scientific Research  Grant-in-Aid for Early-Career Scientists

    中川 夏美

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    Grant type:Scientific research funding

    「多量体化」は、生物が獲得した極めて重要なストラテジーである。「多価効果」は、生物活性分子の機能増強を引き起こす現象として大きな注目を集めている。しかしながら、生体内という複雑系における多価効果を明らかとすることは困難であり、多価化制御による機能増強機構の解明が強く求められている。本研究では、「多量体化による価数と配向を制御した生物活性分子の評価と多価効果の解明」を目指す。

    CiNii Research

  • Deciphering the Molecular Regulation of Endogenous Carbon Monoxide Biosynthesis and Engineering Gasotransmitter-Based Therapeutic Platforms.

    Grant number:22K06136  2022.4 - 2025.3

    Grants-in-Aid for Scientific Research  Grant-in-Aid for Scientific Research (C)

    Higashimoto Yuichiro

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    Grant type:Scientific research funding

    Heme oxygenase (HO) was long regarded as an endoplasmic-reticulum-resident protein dedicated solely to heme catabolism. Recent evidence, however, shows that under various conditions HO also localizes to other organelles, most notably to the nucleus, where it contributes to transcriptional activity. Our data further suggest that the intracellular half-life of HO is regulated via interactions with proteins involved in the ubiquitin-proteasome system. In addition, carbon monoxide generated by HO appears to modulate the expression and induction of numerous proteins, thereby mediating anti-inflammatory and anti-tumor effects.

    CiNii Research

  • Development of a novel genome editing method through transient arrest control of the tumor suppressor protein p53

    Grant number:20H02873  2020.4 - 2023.3

    Grants-in-Aid for Scientific Research  Grant-in-Aid for Scientific Research (B)

    Sakaguchi Kazuyasu

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    Grant type:Scientific research funding

    Genome editing has attracted significant attention as a next-generation gene therapy method. However, CRISPR/Cas9 also preferentially edits genomes of cells with dysfunctional cancer suppressor protein p53, and therefore, the development of safer and more efficient genome editing methods is required. In this study, we investigated the structural stability of p53 tetramer formation and examined the conditions for various parameters. As a result, we succeeded in significantly enhancing genome editing efficiency by transiently inhibiting p53 function through the addition of p53 tetramer formation domain peptide analogues to target cells.

    CiNii Research

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FD Participation

  • 2026.4   Role:Participation   Title:令和8年度 第1回全学FD(新任教員FDの研修)The 1st All-University FD (training for new faculty members) in FY2026

    Organizer:University-wide