2025/05/21 更新

写真a

シマザキ トモミ
島崎 智実
Tomomi Shimazaki
所属
生命ナノシステム科学研究科 物質システム科学専攻 教授
理学部 理学科
職名
教授
プロフィール

理論・計算・情報化学を用いて『ものづくり』に貢献できることを目指しています。そのために、物理・化学シミュレーションに加え、機械学習のようなデータサイエンス手法の活用についても研究しています。

外部リンク

学位

  • 博士(工学) ( 2006年3月   東京大学 )

研究キーワード

  • 情報化学

  • 計算化学

  • 理論化学

研究分野

  • ナノテク・材料 / 基礎物理化学

  • 自然科学一般 / 生物物理、化学物理、ソフトマターの物理

  • 情報通信 / 計算科学

  • ナノテク・材料 / 複合材料、界面

  • ナノテク・材料 / エネルギー化学

  • ナノテク・材料 / グリーンサステイナブルケミストリー、環境化学

  • ナノテク・材料 / 高分子化学

  • ナノテク・材料 / 構造材料、機能材料

▼全件表示

論文

  • A theoretical study of the molecular passivation of p-/n-type defects on tin- and germanium-mixed perovskite surfaces using Lewis base/acid 査読

    Emi Kino, Makito Takagi, Takumi Naito, Masanori Tachikawa, Koichi Yamashita, Tomomi Shimazaki

    Physical Chemistry Chemical Physics   27 ( 14 )   7429 - 7439   2025年4月

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    掲載種別:研究論文(学術雑誌)   出版者・発行元:Royal Society of Chemistry (RSC)  

    Lewis base can effectively remove the p-type deep defect levels from Sn and Ge mixed perovskite surface, through interacting with the defect site and donating an electron pair toward the defect state.

    DOI: 10.1039/d4cp03817g

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  • Development of Hessian calculation using the combined plane wave and localized basis sets method and its application to adsorption of a water molecule on Pt(111) surface 査読

    Hiroki Sakagami, Makito Takagi, Takayoshi Ishimoto, Tomomi Shimazaki, Masanori Tachikawa

    Molecular Catalysis   572   114791 - 114791   2025年2月

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    掲載種別:研究論文(学術雑誌)   出版者・発行元:Elsevier BV  

    DOI: 10.1016/j.mcat.2024.114791

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  • Inclusion of Gold Ion in Tiara-Like Nickel Hexanuclear Nanoclusters 査読

    Kana Takemae, Shiho Tomihari, Takumi Naitou, Makito Takagi, Tomomi Shimazaki, Tokuhisa Kawawaki, Masanori Tachikawa, Yuichi Negishi

    Nanoscale   3721 - 3727   2025年

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    掲載種別:研究論文(学術雑誌)   出版者・発行元:Royal Society of Chemistry (RSC)  

    Tiara-like metal nanoclusters (TNCs) composed of group 10 transition metals and thiolates can easily change their number of polymerization and include various molecules and metal ions as guests within their...

    DOI: 10.1039/d4nr04579c

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  • A theoretical study on muoniated N-heterocyclic carbenes using path integral molecular dynamics 査読

    Satoshi Orikono, Kazuaki Kuwahata, Tomomi Shimazaki, Masanori Tachikawa

    The Journal of Chemical Physics   161 ( 18 )   184305   2024年11月

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    掲載種別:研究論文(学術雑誌)   出版者・発行元:AIP Publishing  

    Several N-heterocyclic carbenes (NHCs) are experimentally observed upon the addition of muonium (Mu), and the hyperfine coupling constants (HFCCs) of muon are measured. Theoretical investigation of Mu has been challenging due to significant quantum effects. Herein, we performed an ab initio path integral molecular dynamics (PIMD) simulation, which accurately considers multi-dimensional quantum effects, to theoretically investigate muoniated 1,3-dihydro-2H-imidazole-2-ylidene (Mu-IY). Our findings indicate that quantum effects have two contradictory contributions: the quantum effect of bond vibrations increases the HFCC values, whereas that of out-of-plane angular vibrations decreases the HFCC values. Moreover, we show that the HFCC values of other NHCs can be predicted without the PIMD simulations by applying the structural changes caused by the quantum effect derived from the PIMD simulations of Mu-IY.

    DOI: 10.1063/5.0234050

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  • One-dimensional C60 Arrays in Noncovalent Benzidine Networks 査読

    Takatsugu Wakahara, Chika Hirata, Dorra Mahdaoui, Kazuko Fujii, Yoshitaka Matsushita, Osamu Ito, Makito Takagi, Tomomi Shimazaki, Masanori Tachikawa, Shinjiro Yagyu, Yubin Liu, Yoshiyuki Nakajima, Takuro Nagai, Kazuhito Tsukagoshi

    Carbon   119838 - 119838   2024年11月

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    掲載種別:研究論文(学術雑誌)   出版者・発行元:Elsevier BV  

    DOI: 10.1016/j.carbon.2024.119838

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  • Metal single-atom interaction with graphitic C3N4 surface based on density functional theory calculations and linear regression analysis 査読

    Adie Tri Hanindriyo, Makito Takagi, Yuto Tanaka, Tokuhisa Kawawaki, Yuichi Negishi, Tomomi Shimazaki, Masanori Tachikawa

    Chemical Physics   112478 - 112478   2024年10月

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    掲載種別:研究論文(学術雑誌)   出版者・発行元:Elsevier BV  

    DOI: 10.1016/j.chemphys.2024.112478

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  • Ultrafine Spatial Modulation of Diazapyrene-Based Two-Dimensional Conjugated Covalent Organic Frameworks 査読

    Zhuowei Li, Takahiro Tsuneyuki, Rajendra Prasad Paitandi, Takumi Nakazato, Masahiro Odawara, Yusuke Tsutsui, Takayuki Tanaka, Yoshihiro Miyake, Hiroshi Shinokubo, Makito Takagi, Tomomi Shimazaki, Masanori Tachikawa, Katsuaki Suzuki, Hironori Kaji, Samrat Ghosh, Shu Seki

    Journal of the American Chemical Society   23497 - 23507   2024年8月

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    掲載種別:研究論文(学術雑誌)   出版者・発行元:American Chemical Society (ACS)  

    DOI: 10.1021/jacs.4c07091

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  • Theoretical study of short-range exchange interaction based on semiconductor dielectric function model toward time-dependent dielectric density functional theory. 査読 国際誌

    Tomomi Shimazaki, Masanori Tachikawa

    The Journal of chemical physics   161 ( 1 )   014107   2024年7月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    This study explores various models of semiconductor dielectric functions, with a specific emphasis on the large wavenumber spectrum and the derivation of the screened exchange interaction. Particularly, we discuss the short-range effect of the screened exchange potential. Our investigation reveals that the short-range effect originating from the high wavenumber spectrum is contingent upon the dielectric constant of the targeted system. To incorporate dielectric-dependent behaviors concerning the short-range aspect into the dielectric density functional theory (DFT) framework, we utilize the local Slater term and the Yukawa-type term, adjusting the ratio between these terms based on the dielectric constant. Additionally, we demonstrate the efficacy of the time-dependent dielectric DFT method in accurately characterizing the electronic structure of excited states in dyes and functional molecules. Several theoretical approaches have incorporated parameters dependent on the system to elucidate short-range exchange interactions. Our theoretical analysis and discussions will be useful for those studies.

    DOI: 10.1063/5.0207751

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  • Theoretical Study on Rate-Determining Reactions for Constructing Self-Assembling Molecular Cages Controlled by Distorted Ditopic Ligands 査読

    Yu Ichinose, Osamu Kobayashi, Tomomi Shimazaki, Shuichi Hiraoka, Masanori Tachikawa

    The Journal of Physical Chemistry C   128 ( 25 )   10643 - 10649   2024年6月

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    掲載種別:研究論文(学術雑誌)   出版者・発行元:American Chemical Society (ACS)  

    DOI: 10.1021/acs.jpcc.4c01525

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  • Theoretical and machine learning models for reaction-barrier predictions: acrylate and methacrylate radical reactions 査読

    Makito Takagi, Tomomi Shimazaki, Osamu Kobayashi, Takayoshi Ishimoto, Masanori Tachikawa

    Physical Chemistry Chemical Physics   1772 - 1777   2024年

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    掲載種別:研究論文(学術雑誌)   出版者・発行元:Royal Society of Chemistry (RSC)  

    The radical reaction of acrylate (ACR) and/or methacrylate (MA) is necessary for producing synthetic acrylic polymers. However, this synthesis requires sophisticated and precise control of employed radical reactions. As a...

    DOI: 10.1039/d4cp04656k

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  • Analysis of the structural H/D isotope effect with an excess proton/deuteron in light/heavy water solvent using path integral molecular dynamics simulations 査読

    Kazuki Tatenuma, Makito Takagi, Tomomi Shimazaki, Masanori Tachikawa

    Bulletin of the Chemical Society of Japan   97 ( 1 )   uoad009   2024年

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    掲載種別:研究論文(学術雑誌)   出版者・発行元:Oxford University Press (OUP)  

    Abstract

    We analyzed the difference in the structural H/D isotope effect between an excess proton in light water (H-body) and an excess deuteron in heavy water (D-body), including the nuclear quantum effect, using path integral molecular dynamics simulations. We found that the second peak of the H-body is shorter than that of the D-body in the radial distribution function of O*–O, where O* is the oxygen atom of the H3O+/D3O+ fragment. The main reason for this would be the difference in the ratio of the Zundel structure with the sp3-like configuration, where the Zundel structure in the H-body (14.0%) is greater than that in the D-body (12.0%). We also found rare occurrences of double H3O+/D3O+ configurations, mainly including Zundel–Zundel-like structures such as H7O3+/D7O3+ and H9O4+/D9O4+. The ratios of such configurations appearing in our simulations are 0.89% and 0.20% for the H-body and the D-body, respectively.

    DOI: 10.1093/bulcsj/uoad009

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    その他リンク: https://academic.oup.com/bcsj/article-pdf/97/1/uoad009/56616043/uoad009.pdf

  • Time-dependent dielectric density functional theory predictions for excited-state molecular properties using neural networks guided by lower-level quantum chemistry 査読

    Tomomi Shimazaki, Masanori Tachikawa

    Chemical Physics Letters   829   140744 - 140744   2023年10月

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    掲載種別:研究論文(学術雑誌)   出版者・発行元:Elsevier BV  

    DOI: 10.1016/j.cplett.2023.140744

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  • Theoretical Study of the Molecular Passivation Effect of Lewis Base/Acid on Lead-Free Tin Perovskite Surface Defects 査読

    Takumi Naito, Makito Takagi, Masanori Tachikawa, Koichi Yamashita, Tomomi Shimazaki

    The Journal of Physical Chemistry Letters   14   6695 - 6701   2023年7月

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    掲載種別:研究論文(学術雑誌)   出版者・発行元:American Chemical Society (ACS)  

    DOI: 10.1021/acs.jpclett.3c01450

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  • Theoretical Analysis of Hydrogen-Bonded Structures of the Enhanced Green Fluorescent Protein with Multi-Component Density Functional Theory 査読

    Mio Takakuwa, Yukiumi Kita, Tomomi Shimazaki, Yusuke Kanematsu, Takayoshi Ishimoto, Motoyasu Adachi, Masanori Tachikawa

    Bulletin of the Chemical Society of Japan   96 ( 7 )   711 - 716   2023年7月

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    掲載種別:研究論文(学術雑誌)   出版者・発行元:The Chemical Society of Japan  

    DOI: 10.1246/bcsj.20230085

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  • Computational analysis of H/D isotope effect on adsorption of water and its dissociated species on Pt(111) surface 査読

    Kazuma Nasu, Hiroki Sakagami, Yusuke Kanematsu, David S. Rivera Rocabado, Tomomi Shimazaki, Masanori Tachikawa, Takayoshi Ishimoto

    AIP Advances   13 ( 6 )   065305   2023年6月

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    掲載種別:研究論文(学術雑誌)   出版者・発行元:AIP Publishing  

    To understand the mechanism of the H–D exchange reaction for synthesizing various deuterium-labeled molecules on heterogeneous metal catalysts as a first step, we analyzed the effects of H/D isotopes on the adsorption of H2O/D2O and their dissociated OH/OD and H/D species on the Pt(111) surface. We applied the combined plane-wave and localized basis set method developed by us to directly treat the electronic structures of the surface and the localized adsorbed region and the nuclear quantum effect of H and D. The results showed that the adsorption energies for the D-compounds on the Pt surface were larger than those for the H-compounds. This is in keeping with the experimental observations. The difference in the distance between the adsorbates and the Pt surface induced by the H/D isotope effect depends on the bonding characteristics. While the distance between D2O and the Pt surface was longer than that in the H2O case, the distance between the D atom and the Pt surface was shorter than that for the H atom. This is the first report on the geometrical differences between H and D based on a systematic analysis of water and its dissociated species.

    DOI: 10.1063/5.0151660

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  • Stability and bonding nature of positronic lithium molecular dianion. 査読 国際誌

    Shumpei Ito, Daisuke Yoshida, Yukiumi Kita, Tomomi Shimazaki, Masanori Tachikawa

    The Journal of Chemical Physics   158 ( 20 )   204303   2023年5月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    We studied the stability of a system consisting of a positron (e+) and two lithium anions, [Li-; e+; Li-], using first-principles quantum Monte Carlo calculations combined with the multi-component molecular orbital method. While diatomic lithium molecular dianions Li22- are unstable, we found that its positronic complex can form a bound state with respect to the lowest energy decay into the dissociation channel Li2- and a positronium (Ps). The [Li-; e+; Li-] system has the minimum energy at the internuclear distance of ∼3 Å, which is close to the equilibrium internuclear distance of Li2-. At the minimum energy structure both an excess electron and a positron are delocalized as orbiting around the Li2- molecular anion core. A dominant feature of such a positron bonding structure is described as the Ps fraction bound to Li2-, unlike the covalent positron bonding scheme for the electronically isovalent [H-; e+; H-] complex.

    DOI: 10.1063/5.0150246

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  • Metal Single‐Atom Cocatalyst on Carbon Nitride for the Photocatalytic Hydrogen Evolution Reaction: Effects of Metal Species 査読

    Yuki Akinaga, Tokuhisa Kawawaki, Hinano Kameko, Yuki Yamazaki, Kenji Yamazaki, Yuhi Nakayasu, Kosaku Kato, Yuto Tanaka, Adie Tri Hanindriyo, Makito Takagi, Tomomi Shimazaki, Masanori Tachikawa, Akira Yamakata, Yuichi Negishi

    Advanced Functional Materials   33   2303321   2023年5月

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    掲載種別:研究論文(学術雑誌)   出版者・発行元:Wiley  

    DOI: 10.1002/adfm.202303321

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  • Molecular Dynamics Study on the Structure–Property Relationship of Self-Assembled Gear-Shaped Amphiphile Molecules with/without Methyl Groups 査読 国際誌

    Moe Murata, Takuya Koide, Osamu Kobayashi, Shuichi Hiraoka, Tomomi Shimazaki, Masanori Tachikawa

    The Journal of Physical Chemistry B   127 ( 1 )   328 - 334   2023年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1021/acs.jpcb.2c07444

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  • Improved activity for the oxygen evolution reaction using a tiara-like thiolate-protected nickel nanocluster 査読

    Sota Funaki, Tokuhisa Kawawaki, Tomoshige Okada, Kana Takemae, Sakiat Hossain, Yoshiki Niihori, Takumi Naitou, Makito Takagi, Tomomi Shimazaki, Soichi Kikkawa, Seiji Yamazoe, Masanori Tachikawa, Yuichi Negishi

    Nanoscale   15 ( 11 )   5201 - 5208   2023年

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    掲載種別:研究論文(学術雑誌)  

    DOI: 10.1039/D2NR06952K

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  • Decomposition analysis on the excitation behaviors of thiazolothiazole (TTz)-based dyes via the time-dependent dielectric density functional theory approach 査読 国際誌

    Takumi Naito, Yukiumi Kita, Tomomi Shimazaki, Masanori Tachikawa

    RSC Advances   12 ( 53 )   34685 - 34693   2022年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1039/d2ra06454e

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  • Development of anharmonic vibrational structure theory using backflow transformation 査読

    Kiriko Ishii, Tomomi Shimazaki, Masanori Tachikawa, Yukiumi Kita

    Chemical Physics Letters   787   139263 - 139263   2022年

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    掲載種別:研究論文(学術雑誌)   出版者・発行元:Elsevier BV  

    DOI: 10.1016/j.cplett.2021.139263

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  • Hydrogen/Deuterium Transfer from Anisole to Methoxy Radicals: A Theoretical Study of a Deuterium-Labeled Drug Model 査読 国際誌

    Yuka Kimura, Yusuke Kanematsu, Hiroki Sakagami, David S. Rivera Rocabado, Tomomi Shimazaki, Masanori Tachikawa, Takayoshi Ishimoto

    The Journal of Physical Chemistry A   126 ( 1 )   155 - 163   2022年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:American Chemical Society (ACS)  

    Recently, deuterium-labeled drugs, such as deutetrabenazine, have attracted considerable attention. Consequently, understanding the reaction mechanisms of deuterium-labeled drugs is crucial, both fundamentally and for real applications. To understand the mechanisms of H- and D-transfer reactions, in this study, we used deuterated anisole as a deutetrabenazine model and computationally considered the nuclear quantum effects of protons, deuterons, and electrons. We demonstrated that geometrical differences exist in the partially and fully deuterated methoxy groups and hydrogen-bonded structures of intermediates and transition states due to the H/D isotope effect. The observed geometrical features and electronic structures are ascribable to the different nuclear quantum effects of protons and deuterons. Primary and secondary kinetic isotope effects (KIEs) were calculated for H- and D-transfer reactions from deuterated and undeuterated anisole, with the calculated primary KIEs in good agreement with the corresponding experimental data. These results reveal that the nuclear quantum effects of protons and deuterons need to be considered when analyzing the reaction mechanisms of H- and D-transfer reactions and that a theoretical approach that directly includes nuclear quantum effects is a powerful tool for the analysis of H/D isotope effects in H- and D-transfer reactions.

    DOI: 10.1021/acs.jpca.1c08514

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  • Theoretical Study of the Isotope and Homologue Effects on Nuclear Magnetic Shielding in Water and Hydrogen Sulfide Molecules 査読

    Kiriko Ishii, Tomomi Shimazaki, Masanori Tachikawa, Yukiumi Kita

    Chemistry Letters   51 ( 3 )   342 - 344   2022年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:The Chemical Society of Japan  

    DOI: 10.1246/cl.210760

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  • Collaborative Approach between Explainable Artificial Intelligence and Simplified Chemical Interactions to Explore Active Ligands for Cyclin-Dependent Kinase 2 査読

    Tomomi Shimazaki, Masanori Tachikawa

    ACS Omega   7 ( 12 )   10372 - 10381   2022年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:American Chemical Society (ACS)  

    DOI: 10.1021/acsomega.1c06976

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  • Fullerene C70/porphyrin hybrid nanoarchitectures: single-cocrystal nanoribbons with ambipolar charge transport properties 査読 国際誌

    Takatsugu Wakahara, Kahori Nagaoka, Chika Hirata, Kun'ichi Miyazawa, Kazuko Fujii, Yoshitaka Matsushita, Osamu Ito, Makito Takagi, Tomomi Shimazaki, Masanori Tachikawa, Yoshiki Wada, Shinjiro Yagyu, Yubin Liu, Yoshiyuki Nakajima, Kazuhito Tsukagoshi

    RSC Advances   12 ( 30 )   19548 - 19553   2022年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1039/d2ra02669d

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  • Theoretical study of the effect of nonlocal short-range exchange on calculations of molecular excitation energies in the dielectric screened-exchange method 査読

    Tomomi Shimazaki, Masanori Tachikawa

    Chemical Physics Letters   802   139740 - 139740   2022年

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    掲載種別:研究論文(学術雑誌)  

    DOI: 10.1016/j.cplett.2022.139740

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  • A comprehensive theoretical study of positron binding and annihilation properties of hydrogen bonded binary molecular clusters 査読 国際誌

    Daisuke Yoshida, Yukiumi Kita, Tomomi Shimazaki, Masanori Tachikawa

    Physical Chemistry Chemical Physics   24 ( 43 )   26898 - 26907   2022年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1039/d2cp03813g

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  • Theoretical investigations of positron affinities and their structure-dependent properties of carbon dioxide clusters (CO2)n (n = 1–5) 査読

    Miku Furushima, Makito Takagi, Daisuke Yoshida, Yukiumi Kita, Tomomi Shimazaki, Masanori Tachikawa

    Physical Chemistry Chemical Physics   25 ( 1 )   625 - 632   2022年

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    掲載種別:研究論文(学術雑誌)  

    DOI: 10.1039/d2cp03788b

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  • A theoretical study on solvatofluorochromic asymmetric thiazolothiazole (TTz) dyes using dielectric-dependent density functional theory 査読

    Tomomi Shimazaki, Masanori Tachikawa

    Physical Chemistry Chemical Physics   23 ( 37 )   21078 - 21086   2021年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1039/d1cp02047a

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  • Positron Binding and Annihilation Properties of Amino Acid Systems 査読 国際誌

    Maya Ozaki, Daisuke Yoshida, Yukiumi Kita, Tomomi Shimazaki, Masanori Tachikawa

    ACS Omega   6 ( 44 )   29449 - 29458   2021年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:American Chemical Society (ACS)  

    Despite the fact that the positron annihilation has been used in biomedical applications, the detailed mechanism of the positron annihilation on biological molecules remains poorly understood so far. In this work, we investigated the positron binding and positron annihilation properties for both global minimum and hydrogen-bonded structures of 20 amino acid molecules using the multicomponent molecular orbital method. By regression analysis, we confirmed that positron affinity can increase with an increase of the permanent dipole moment of the parent amino acids as reported in previous studies, while the annihilation rate linearly increases with respect to the square root of positron affinity. By the one-particle property analyses for probabilities of electron-positron contacts, we found that delocalization characteristics of both electrons and positrons play key roles to enhance the positron annihilation rate arising from both the valence electrons in σ- and π-type molecular orbitals from 2p atomic orbitals but not from the highest occupied molecular orbital electrons, particularly for comparatively weakly bound positronic amino acid systems.

    DOI: 10.1021/acsomega.1c03409

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  • Role of OH Termination in Mitigating Friction of Diamond-like Carbon under High Load: A Joint Simulation and Experimental Study 査読

    Yang Wang, Kentaro Hayashi, Yusuke Ootani, Shandan Bai, Tomomi Shimazaki, Yuji Higuchi, Nobuki Ozawa, Koshi Adachi, Maria-Isabel De Barros Bouchet, Jean Michel Martin, Momoji Kubo

    Langmuir   37 ( 20 )   6292 - 6300   2021年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1021/acs.langmuir.1c00727

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  • Theoretical investigation of the enhancement of positron affinity by the vibration and dimerization of non-polar carbon disulfide 査読 国際誌

    Miku Furushima, Daisuke Yoshida, Yukiumi Kita, Tomomi Shimazaki, Masanori Tachikawa

    Physical Chemistry Chemical Physics   23 ( 38 )   21512 - 21520   2021年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:Royal Society of Chemistry (RSC)  

    We found that CS<sub>2</sub> obtains positron binding ability by dimerization with vibrational Feshbach resonance.

    DOI: 10.1039/d1cp02808a

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  • PubChemQC PM6: Data Sets of 221 Million Molecules with Optimized Molecular Geometries and Electronic Properties 査読

    Maho Nakata, Tomomi Shimazaki, Masatomo Hashimoto, Toshiyuki Maeda

    Journal of Chemical Information and Modeling   60 ( 12 )   5891 - 5899   2020年

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    掲載種別:研究論文(学術雑誌)  

    DOI: 10.1021/acs.jcim.0c00740

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  • Terahertz Spectroscopy for Characterization of Hydrogen Bonding and Cross-linked Structure Dynamics in Polyurethane 査読

    Hiromichi Hoshina, Yuichi Saito, Takumi Furuhashi, Tomomi Shimazaki, Manabu Sawada, Yasunori Hioki, Chiko Otani

    Journal of Infrared Millimeter and Terahertz waves   41 ( 3 )   265 - 275   2020年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1007/s10762-019-00667-0

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  • Theoretical study on mesoscopic-size impurity effects in the charge separation process of organic photocells 査読

    Tomomi Shimazaki, Motomichi Tashiro, Takahito Nakajima

    Physical Chemistry Chemical Physics   20 ( 21 )   14846 - 14854   2018年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1039/c7cp08125a

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  • A theoretical study on hot charge-transfer states and dimensional effects of organic photocells based on an ideal diode model 査読

    Tomomi Shimazaki, Takahito Nakajima

    Physical Chemistry Chemical Physics   19 ( 19 )   12517 - 12526   2017年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1039/c7cp01455d

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  • Group molecular orbital approach to solve the Huzinaga subsystem self-consistent-field equations 査読

    Tomomi Shimazaki, Kazuo Kitaura, Dmitri G. Fedorov, Takahito Nakajima

    Journal of Chemical Physics   146 ( 8 )   2017年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1063/1.4976646

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  • PubChemQC Project: A Large-Scale First-Principles Electronic Structure Database for Data-Driven Chemistry 査読

    Maho Nakata, Tomomi Shimazaki

    Journal of Chemical Information and Modeling   57 ( 6 )   1300 - 1308   2017年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1021/acs.jcim.7b00083

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  • Theoretical study on the cooperative exciton dissociation process based on dimensional and hot charge-transfer state effects in an organic photocell 査読

    Tomomi Shimazaki, Takahito Nakajima

    Journal of Chemical Physics   144 ( 23 )   2016年6月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1063/1.4953905

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  • Application of the dielectric-dependent screened exchange potential approach to organic photocell materials 査読

    Tomomi Shimazaki, Takahito Nakajima

    Physical Chemistry Chemical Physics   18 ( 39 )   27554 - 27563   2016年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1039/c6cp04863c

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  • Gaussian-based range-separation approach on Hartree-Fock exchange interaction and second-order perturbation theory 査読

    Tomomi Shimazaki, Takahito Nakajima

    Chemical Physics Letters   647   132 - 138   2016年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1016/j.cplett.2015.12.069

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  • Theoretical study of a screened Hartree-Fock exchange potential using position-dependent atomic dielectric constants 査読

    Tomomi Shimazaki, Takahito Nakajima

    Journal of Chemical Physics   142 ( 7 )   2015年2月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1063/1.4908061

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  • Theoretical study of exciton dissociation through hot states at donor-acceptor interface in organic photocell 査読

    Tomomi Shimazaki, Takahito Nakajima

    Physical Chemistry Chemical Physics   17 ( 19 )   12538 - 12544   2015年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1039/c5cp00740b

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  • Developing a high-performance quantum chemistry program with a dynamic scripting language 査読

    Tomomi Shimazaki, Masatomo Hashimoto, Toshiyuki Maeda

    Proceedings of the 3rd International Workshop on Software Engineering for High Performance Computing in Computational Science and Engineering - SE-HPCCSE '15   2015年

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    掲載種別:研究論文(国際会議プロシーディングス)   出版者・発行元:ACM Press  

    DOI: 10.1145/2830168.2830170

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  • Gaussian-based cutoff scheme on Hartree-Fock exchange term of dielectric-dependent potential 査読

    Tomomi Shimazaki, Takahito Nakajima

    Chemical Physics Letters   634   83 - 87   2015年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1016/j.cplett.2015.06.001

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  • Communication: Different behavior of Young's modulus and fracture strength of CeO2: Density functional theory calculations 査読

    Ryota Sakanoi, Tomomi Shimazaki, Jingxiang Xu, Yuji Higuchi, Nobuki Ozawa, Kazuhisa Sato, Toshiyuki Hashida, Momoji Kubo

    Journal of Chemical Physics   140 ( 12 )   2014年3月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1063/1.4869515

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  • Density functional theory analysis of methanation reaction of CO2 on Ru nanoparticle supported on TiO2 (101) 査読

    Satoshi Akamaru, Tomomi Shimazaki, Momoji Kubo, Takayuki Abe

    Applied Catalysis A-General   470   405 - 411   2014年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1016/j.apcata.2013.11.016

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  • Dielectric-dependent screened Hartree-Fock exchange potential and Slater-formula with Coulomb-hole interaction for energy band structure calculations 査読

    Tomomi Shimazaki, Takahito Nakajima

    Journal of Chemical Physics   141 ( 11 )   2014年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1063/1.4895623

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  • Range-Separation Density-Fitting Band Structure Calculation with Gaussian Auxiliary Function 査読

    Tomomi Shimazaki, Taichi Kosugi, Takahito Nakajima

    Journal of Physical Society of Japan   83 ( 5 )   2014年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.7566/JPSJ.83.054702

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  • Controlling Formation of Single-Molecule Junctions by Electrochemical Reduction of Diazonium Terminal Groups 査読

    Thomas Hines, Ismael Diez-Perez, Hisao Nakamura, Tomomi Shimazaki, Yoshihiro Asai, Nongjian Tao

    Journal of American Chemical Society   135 ( 9 )   3319 - 3322   2013年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1021/ja3106434

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  • Efficient density functional theory calculations with weak hydrogen quantum effect: Electron density analysis 査読

    Tomomi Shimazaki, Momoji Kubo

    Chemical Physics Letters   525-26   134 - 139   2012年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1016/j.cplett.2011.12.059

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  • Fate of methanol molecule sandwiched between hydrogen-terminated diamond-like carbon films by tribochemical reactions: tight-binding quantum chemical molecular dynamics study 査読

    Kentaro Hayashi, Seiichiro Sato, Shandan Bai, Yuji Higuchi, Nobuki Ozawa, Tomomi Shimazaki, Koshi Adachi, Jean-Michel Martin, Momoji Kubo

    Faraday Discussions   156   137 - 146   2012年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1039/c2fd00125j

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  • Density functional theory study on quasi-three-dimensional oxidized platinum surface: phase transition between alpha-PtO2-like and beta-PtO2-like structures 査読

    Tomomi Shimazaki, Toshiya Suzuki, Momoji Kubo

    THEORETICAL CHEMISTRY ACCOUNTS   130 ( 4-6 )   1031 - 1038   2011年12月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:SPRINGER  

    We investigate the oxidation process of a platinum surface by using the density functional theory approach under the periodic boundary condition. This oxidation process has received much attention because it is an initial step in the dissolution of platinum catalysts in polymer electrolyte fuel cells. In this research, we determine the optimized structure of alpha -PtO2-like and beta-PtO2-like oxidized platinum surfaces, which have recently been proposed on the basis of in situ X-ray diffraction analysis, at the Kohn Sham density functional theory (KS-DFT) generalized gradient approximation (GGA) level of theory. We discuss the phase transition from the alpha-PtO2-like surface to the beta-PtO2-like surface, including the place-exchange reaction between oxygen and platinum atoms. We propose an intermediate structure in the phase transition, and show that the beta-PtO2-like structure can be formed directly from this intermediate structure.

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  • Tribochemical Reaction Dynamics Simulation of Hydrogen on a Diamond-like Carbon Surface Based on Tight-Binding Quantum Chemical Molecular Dynamics 査読

    Kentaro Hayashi, Kotoe Tezuka, Nobuki Ozawa, Tomomi Shimazaki, Koshi Adachi, Momoji Kubo

    JOURNAL OF PHYSICAL CHEMISTRY C   115 ( 46 )   22981 - 22986   2011年11月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:AMER CHEMICAL SOC  

    Diamond-like carbon (DLC) has recently attracted much attention as a solid-state lubricant, because of its resistance to wear, low friction, and low abrasion. Several factors, such as the hydrogen atoms in DLC and transfer film formation are important for improving the tribological characteristics of DLC. In this paper, we discuss the low-friction mechanism of DLC by using our tight-binding quantum chemical molecular dynamics method. The method employs a DLC film sliding simulation in order to explore the effect of hydrogen atoms on the carbon-based transfer film. The formation of C-C bonds between DLC films increases friction, while surface hydrogen atoms suppress C-C bond formation, which results in the low-friction state. Moreover, the steric effect of hydrogen molecule generation was found to remove the load from the substrate, inhibiting C-C bond formation. In addition, we determined that surface hydrogen atoms play a key role in the cleavage of C-C bonds formed during sliding of DLC films.

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  • Analytical energy gradient of Gaussian and Fourier transform (GFT) method for periodic condensed systems 査読

    Tomomi Shimazaki, Momoji Kubo

    CHEMICAL PHYSICS LETTERS   503 ( 4-6 )   316 - 321   2011年2月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:ELSEVIER SCIENCE BV  

    We have proposed the Gaussian and Fourier transform (GFT) method as an efficient calculation technique for the Hartree term under the periodic boundary condition (PBC), and discuss its analytical energy-gradient formalism in this Letter. We also discuss a Fourier transform technique to estimate the matrix element of the density functional theory (DFT) exchange correlation term. A first-principles molecular dynamics (MD) simulation of water at ambient conditions is executed using those methodologies. (C) 2011 Elsevier B. V. All rights reserved.

    DOI: 10.1016/j.cplett.2010.12.089

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  • Communication: The reason why +c ZnO surface is less stable than -c ZnO surface: First-principles calculation 査読

    Seitaro Ito, Tomomi Shimazaki, Momoji Kubo, Hideomi Koinuma, Masatomo Sumiya

    Journal of Chemical Physics   135 ( 24 )   2011年

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1063/1.3675680

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  • Energy band structure calculations based on screened Hartree-Fock exchange method: Si, AlP, AlAs, GaP, and GaAs 査読

    Tomomi Shimazaki, Yoshihiro Asai

    JOURNAL OF CHEMICAL PHYSICS   132 ( 22 )   2010年6月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:AMER INST PHYSICS  

    The screening effect on the Hartree-Fock (HF) exchange term plays a key role in the investigation of solid-state materials by first-principles electronic structure calculations. We recently proposed a novel screened HF exchange potential, in which the inverse of the dielectric constant represents the fraction of the HF exchange term incorporated into the potential. We demonstrated that this approach can be used to reproduce the energy band structure of diamond well [T. Shimazaki and Y. Asai, J. Chem. Phys. 130, 164702 (2009)]. In the present paper, we report that the screened HF exchange method is applicable to other semiconductors such as silicon, AlP, AlAs, GaP, and GaAs. (C) 2010 American Institute of Physics. [doi:10.1063/1.3431293]

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  • On the Brillouin-Zone Integrations in Second-Order Many-Body Perturbation Calculations for Extended Systems of One-Dimensional Periodicity 査読

    Tomomi Shimazaki, So Hirata

    INTERNATIONAL JOURNAL OF QUANTUM CHEMISTRY   109 ( 13 )   2953 - 2959   2009年11月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:WILEY  

    The validity and accuracy of various ways of drastically reducing the number of k-points in the Brillouin zone integrations Occurring in second-order many-body perturbation calculations of one-dimensional solids has been investigated. The most promising approximation can recover correlation energies of polyethylene and polyacetylene within 1% of converged values at less than a tenth of usual computational cost. The quasi-particle energy bands have also been reproduced quantitatively with the same approximation. (C) 2009 Wiley Periodicals, Inc. Int J Quantum Chem 109: 2953-2959, 2009

    DOI: 10.1002/qua.22176

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  • Fast second-order many-body perturbation method for extended systems 査読

    So Hirata, Tomomi Shimazaki

    PHYSICAL REVIEW B   80 ( 8 )   2009年8月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:AMER PHYSICAL SOC  

    An application of second-order many-body perturbation theory to energies and energy bands of polymers is often hindered by the steep polynomial dependence of its computational cost on the number of wave vector sampling points (K) in the Brillouin zone (BZ). It is shown that a Hartree-Fock (HF) calculation with a large value of K (120 in the first BZ) followed by a second-order many-body perturbation calculation with a much smaller value (K=6) can lead to reliable, interpolated correlated energy bands and density of states of a polymer at less than 1% of the computational cost of the conventional approach. Quantitative simulations on photoelectron spectra of trans- and cis-polyacetylenes and polyethylene show that the correlated energy bands and densities of states thus obtained agree quantitatively with the observed and are significant (sometimes qualitative) improvements over the HF results. The energy bands and photoelectron spectra of polydiacetylene are predicted by this method to assist in the interpretation of future high-resolution measurements.

    DOI: 10.1103/PhysRevB.80.085118

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  • A Theoretical Study of Molecular Conduction. V. NEGF-Based MP2 Approach 査読

    Tomomi Shimazaki, Koichi Yamashita

    INTERNATIONAL JOURNAL OF QUANTUM CHEMISTRY   109 ( 9 )   1834 - 1840   2009年8月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:WILEY  

    The conductivity of single molecules has received much attention, because achieving it is a fundamental requirement for developing molecular-scale electronics. On the other hand, electron correlation is very important to investigate various features of molecules. We report on a nonequilibrium Green's function (NEGF)-based second-order Moller-Plesset (MP2) approach to accommodate the effect of electron correlation. The NEGF-based MP2 method reduces to an ordinary MP2 method for an isolated molecule, if the molecule does not interact with semi-infinite electrodes. Moreover, we calculate the theoretical current and the conductance of benzenedithiol and fluoro-benzenedithiol molecules using this technique. (c) 2009 Wiley Periodicals, Inc. Int J Quantum Chem 109: 1834-1840, 2009

    DOI: 10.1002/qua.21994

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  • First principles band structure calculations based on self-consistent screened Hartree-Fock exchange potential 査読

    Tomomi Shimazaki, Yoshihiro Asai

    JOURNAL OF CHEMICAL PHYSICS   130 ( 16 )   2009年4月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:AMER INST PHYSICS  

    A screened Hartree-Fock (HF) exchange potential with the dielectric constant was previously reported by Shimazaki and Asai [Chem. Phys. Lett. 466, 91 (2008)], in which the inverse of the dielectric constant was used to represent a fraction of the HF exchange term. In that report, the experimentally obtained value for the dielectric constant was employed. Herein, we discuss a self-consistent technique, in which the value of the dielectric constant can be automatically determined. This technique enables the energy band structure to be determined without using the experimental value. The band energy structure of diamond is calculated, a self-consistent procedure is determined to give closer bandgaps compared with the local density approximation and the generalized gradient approximation. (C) 2009 American Institute of Physics. [DOI: 10.1063/1.3119259]

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  • Chemical Synthesis and Properties of 5-Taurinomethyluridine and 5-Taurinomethyl-2-thiouridine 査読

    Toshihiko Ogata, Tomomi Shimazaki, Tadashi Umemoto, Shinya Kurata, Takashi Ohtsuki, Tsutomu Suzuki, Takeshi Wada

    JOURNAL OF ORGANIC CHEMISTRY   74 ( 6 )   2585 - 2588   2009年3月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:AMER CHEMICAL SOC  

    Unique taurine-containing Uridine derivatives, 5-taurinomethyluridine (tau m(5)U) and 5-taurinomethyl-2-thiouridine (tau m(5)s(2)U), which were discovered in mammalian mitochondrial tRNAs, exist at the first position of the anticodon. In this paper, we report the first efficient synthesis of tau m(5)U and tau m(5)s(2)U and describe their physicochemical properties. These modified ribonucleosides were synthesized by the reaction of 5-substituted uridine derivatives with a tetrabutylammonium salt of taurine that is highly reactive and well-soluble in common organic solvents. UV and H-1 NMR spectrometric studies revealed the structural properties of the taurine-containing base moieties and the Sugar conformations of these modified ribonucleosides.

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  • Electronic Structure Calculations under Periodic Boundary Conditions Based on the Gaussian and Fourier Transform (GFT) Method 査読

    Tomomi Shimazaki, Yoshihiro Asai

    JOURNAL OF CHEMICAL THEORY AND COMPUTATION   5 ( 1 )   136 - 143   2009年1月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:AMER CHEMICAL SOC  

    We developed the Gaussian and Fourier transform method for crystalline systems. In this method, the Hartree (Coulomb) term of valence electron contribution is taken into account by solving the Poisson equation based on Fourier transform technique. We compared the band structures obtained by the Hartee-Fock (HF) approximation and the density functional theory (DFT). We used three different types of density functional approximations such as the local density approximation (LDA), generalized gradient approximation (GGA), and hybrid density functional. In this paper, we confirm that our calculation technique yields similar results to previous studies.

    DOI: 10.1021/ct800329m

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  • Band structure calculations based on screened Fock exchange method 査読

    Tomomi Shimazaki, Yoshihiro Asai

    CHEMICAL PHYSICS LETTERS   466 ( 1-3 )   91 - 94   2008年11月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:ELSEVIER  

    We investigated the screening effect on the Fock exchange and argued that the effect strongly improves the bandgap description. In this Letter, we propose a screened Fock potential, and the screened Fock exchange method yields diamond's bandgap values which are very close to the experimentally obtained values. We also compared the band structures obtained by using the Hartee-Fock (HF) approximation and the density functional theory (DFT). (C) 2008 Elsevier B.V. All rights reserved.

    DOI: 10.1016/j.cplett.2008.10.012

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  • Modified uridines with c5-methylene substituents at the first position of the tRNA anticodon stabilize U center dot G wobble pairing during decoding 査読

    Shinya Kurata, Albert Weixlbaumer, Takashi Ohtsuki, Tomomi Shimazaki, Takeshi Wada, Yohei Kirino, Kazuyuki Takai, Kimitsuna Watanabe, V. Ramakrishnan, Tsutomu Suzuki

    JOURNAL OF BIOLOGICAL CHEMISTRY   283 ( 27 )   18801 - 18811   2008年7月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:AMER SOC BIOCHEMISTRY MOLECULAR BIOLOGY INC  

    Post-transcriptional modifications at the first ( wobble) position of the tRNA anticodon participate in precise decoding of the genetic code. To decode codons that end in a purine (R) (i.e. NNR), tRNAs frequently utilize 5-methyluridine derivatives (xm(5)U) at the wobble position. However, the functional properties of the C5-substituents of xm(5)U in codon recognition remain elusive. We previously found that mitochondrial tRNAs(Leu(UUR)) with pathogenic point mutations isolated from MELAS ( mitochondrial myopathy, encephalopathy, lactic acidosis, and stroke-like episodes) patients lacked the 5-taurinomethyluridine (tau m(5)U) modification and caused a decoding defect. Here, we constructed Escherichia coli tRNAs(Leu(UUR)) with or without xm(5)U modifications at the wobble position and measured their decoding activities in an in vitro translation as well as by A-site tRNA binding. In addition, the decoding properties of tRNA(Arg) lacking mnm(5)U modification in a knock-out strain of the modifying enzyme (Delta mnmE) were examined by pulse labeling using reporter constructs with consecutive AGR codons. Our results demonstrate that the xm(5)U modification plays a critical role in decoding NNG codons by stabilizing U center dot G pairing at the wobble position. Crystal structures of an anticodon stem-loop containing tau m(5)U interacting with a UUA or UUG codon at the ribosomal A-site revealed that the m(5)U center dot G base pair does not have classical U center dot G wobble geometry. These structures provide help to explain how the tau m(5)U modification enables efficient decoding of UUG codons.

    DOI: 10.1074/jbc.M800233200

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  • Theoretical study of the lineshape of inelastic electron tunneling spectroscopy 査読

    Tomomi Shimazaki, Yoshihiro Asai

    PHYSICAL REVIEW B   77 ( 11 )   2008年3月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:AMER PHYSICAL SOC  

    We have studied the lineshape of the inelastic electron tunneling spectroscopy (IETS) theoretically. In order to calculate vibronic currents including the inelastic effect, we have adopted the Keldysh Green's function method and the self-consistent Born approximation, which is applied to the electron-intramolecular-vibration couplings. The second derivative of the vibronic current taken against the bias voltage has peak and dip structures in the IETS. In this paper, we discuss intrinsic and extrinsic mechanisms which control and modify the lineshape of the IETS. The effect of the intrinsic physical parameters, i.e., the contact transfer integral between the molecule and the electrode and the energy gap between the molecular orbital energy and the Fermi level of the electrode, on the lineshape will be discussed first. Next, we will discuss an extrinsic factor, i.e., the effect of the macroscopic shape of the electrode. In order to take into account the shape effect, we use the envelope function method. Our theoretical study will be useful as a guideline to understand various lineshapes of the IETS observed in various experimental situations.

    DOI: 10.1103/PhysRevB.77.115428

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  • Bias voltage dependence on the vibronic electric current 査読

    Tomomi Shimazaki, Yoshihiro Asai

    PHYSICAL REVIEW B   77 ( 7 )   2008年2月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:AMER PHYSICAL SOC  

    We discuss bias voltage effects on the elastic and the inelastic currents in the tunneling region. We have derived and solved two self-consistent loops: one for electron-electron interaction within the Hartree-Fock approximation, and another for the electron-intramolecular vibration coupling within the Born approximation. The formalism is based on Keldysh Green's function theory; numerical calculations were made in terms of ab initio quantum chemistry techniques augmented with a model for the electrodes. While no remarkable voltage effect on the vibronic currents was found in the low-bias voltage region, we found significant bias voltage effect in the high-bias voltage region. The suppressive correlation between the elastic and the inelastic components of the current is reduced because of the molecular orbital energy shift in the latter region.

    DOI: 10.1103/PhysRevB.77.075110

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  • A theoretical study of molecular conduction: IV. A three-terminal molecular device 査読

    Tomomi Shimazaki, Koichi Yamashita

    NANOTECHNOLOGY   18 ( 42 )   2007年10月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:IOP PUBLISHING LTD  

    We discuss the features of a three-terminal molecular device and the control of electric current using a gate terminal. We introduce a capacitance model to investigate the effect of the gate terminal that could reduce to a two-terminal molecule for a very small gate capacitance. Therefore, this capacitance model can be used in the framework of ordinary ab initio quantum chemical methods. We show the effect of the gate terminal analytically using a simple Huckel method. Moreover, we used our capacitance model with a nonequilibrium Green's function (NEGF)-based Hartree-Fock (HF) approach to study the gate control features of the benzenedithiolate molecule, and we show that the current through the molecule can be modulated by the gate voltage in the case of a high gate control parameter. We also discuss the molecule's response to the applied bias voltage. It is found that the molecular charging effect has a strong influence on the behavior of molecular-based electronic devices.

    DOI: 10.1088/0957-4484/18/42/424012

    Web of Science

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  • A theoretical study of molecular conduction. III. A nonequilibrium-Green’s-function-based Hartree-Fock approach 査読

    Tomomi Shimazaki, Yongqiang Xue, Mark A. Ratner, Koichi Yamashita

    The Journal of Chemical Physics   124 ( 11 )   114708 - 114708   2006年3月

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    掲載種別:研究論文(学術雑誌)   出版者・発行元:AIP Publishing  

    DOI: 10.1063/1.2177652

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  • Theoretical study of molecular conduction: I. Effective Green's function based on perturbation theory 査読

    Tomomi Shimazaki, Koichi Yamashita

    International Journal of Quantum Chemistry   106 ( 4 )   803 - 813   2006年

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    掲載種別:研究論文(学術雑誌)   出版者・発行元:Wiley  

    DOI: 10.1002/qua.20819

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  • A theoretical study of molecular conduction. II. A Hartree-Fock approach to transmission probability 査読

    Tomomi Shimazaki, Hitoshi Maruyama, Yoshihiro Asai, Koichi Yamashita

    The Journal of Chemical Physics   123 ( 16 )   164111 - 164111   2005年10月

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    掲載種別:研究論文(学術雑誌)   出版者・発行元:AIP Publishing  

    DOI: 10.1063/1.2074127

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  • Theoretical Rate Constants of Super-Exchange Hole Transfer and Thermally Induced Hopping in DNA 査読

    Tomomi Shimazaki, Yoshihiro Asai, Koichi Yamashita

    The Journal of Physical Chemistry B   109 ( 3 )   1295 - 1303   2005年1月

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    掲載種別:研究論文(学術雑誌)   出版者・発行元:American Chemical Society (ACS)  

    DOI: 10.1021/jp047456d

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共同研究・競争的資金等の研究課題

  • 燃料電池触媒層の物質輸送機構解明に向けた、マルチスケール計算技術構築とその活用

    2023年 - 2025年

    文部科学省、スーパーコンピュータ「富岳」成果創出加速プログラム

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    担当区分:研究分担者 

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  • Giant CISS物質: 界面陽電子・電子の全運動量制御

    2023年

    科学技術振興機構(JST)  戦略的創造研究推進事業CREST

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    担当区分:連携研究者 

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  • 第一原理計算およびデバイス・モデルによる非フラーレン・アクセプター材料の機能 解明

    2022年4月 - 2024年3月

    日本学術振興会 科学研究費助成事業  基盤研究(C) 

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  • 鉛フリー・アロイ化錫ペロブスカイト・タンデム太陽電池の国際共同研究開発

    2021年 - 2024年

    産業技術総合開発機構(NEDO) 

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    担当区分:研究分担者 

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  • 第一原理計算に基づいた有機薄膜太陽電池の励起子拡散プロセス改善

    研究課題/領域番号:18K05051  2018年4月 - 2021年3月

    日本学術振興会  科学研究費助成事業 基盤研究(C)  基盤研究(C)

    島崎 智実

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    配分額:4290000円 ( 直接経費:3300000円 、 間接経費:990000円 )

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  • 第一原理計算による電子・ホール分離過程の有機薄膜太陽電池シミュレーション

    研究課題/領域番号:15K05403  2015年4月 - 2018年3月

    日本学術振興会  科学研究費助成事業 基盤研究(C)  基盤研究(C)

    島崎 智実

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    配分額:4550000円 ( 直接経費:3500000円 、 間接経費:1050000円 )

    有機薄膜太陽電池は、低い製造コスト、薄くて軽い構造、柔軟性、デザインなどのために、有望な再生可能エネルギーとして注目を集めている。しかしながら、有機薄膜太陽電池の電力変換効率は、無機デバイスと比較して低い。有機薄膜太陽電池の性能を向上させるためには、メカニズムをより深く知る必要がる。そのために、hot CT状態効果を用いた電荷分離過程扱うための理論的方法を報告した。また、CT状態を扱う手法をダイオードモデルに統合し、短絡電流、開回路電圧などの有機光電池デバイスのいくつかのデバイス特性を計算した。こららの研究から、hot CT状態が有機薄膜太陽電池の性能に強い影響を与えることを明らかにした。

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  • 大規模系のための水素の量子効果を含む第一原理量子化学法の開発と応用

    研究課題/領域番号:24550005  2012年4月 - 2015年3月

    日本学術振興会  科学研究費助成事業 基盤研究(C)  基盤研究(C)

    島崎 智実

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    配分額:5070000円 ( 直接経費:3900000円 、 間接経費:1170000円 )

    本研究において弱い水素の量子効果を効率的に計算できる手法を開発した。水素の量子効果とBorn-Oppenheimer近似との差は、短距離の一電子ポテンシャルの形で表されることを見いだした。本研究では、弱い水素の量子効果を持つDFT法に特に注力して研究を行った。加えて、水素の量子効果がもたらす複雑な計算結果について、電子密度の点から解析を行った。

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  • ab-initio法に基づいたBS触媒活性に関する理論研究

    2011年4月 - 2012年3月

    富山大学、富山大学水素同位体科学研究センター  一般共同研究A 

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    担当区分:研究代表者 

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  • 第一原理分子動力学法に基づくトライボ反応シミュレータの開発と自動車用潤滑剤の設計

    研究課題/領域番号:22360065  2010年 - 2012年

    日本学術振興会  科学研究費助成事業 基盤研究(B)  基盤研究(B)

    久保 百司, 島崎 智実

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    配分額:12350000円 ( 直接経費:9500000円 、 間接経費:2850000円 )

    近年、省エネルギー対策、地球温暖化対策に対する強い要請から、摩擦・摩耗・潤滑、いわゆるトライボロジーに関する社会的要求が厳しさを増している。具体的に自動車業界では、エンジン出力エネルギーの約30%が摩擦に消費されていることから、エンジンオイル用フリクション低減剤、摩耗防止剤の高性能化によるエンジン摺動部の低摩擦化・高耐摩耗性化の実現が社会的に急務の課題となっている。特に上記課題には迅速な対応が求められることから、実験研究に加え、理論的添加剤設計手法の確立が望まれている。そこで本研究では、経験的なパラメータを使用せずに電子状態計算を行うことが可能な第一原理計算手法に基づき、トライボ反応ダイナミクスを解明することが可能なトライボ反応シミュレータの開発を目的とした。また、近年の実験研究により、摩擦下における電子放出、いわゆるエキソエレクトロン現象がトライボケミカル反応に大きな影響を与えることが知られている。そこで本研究ではエキソエレクトロン現象を解明可能な第一原理分子動力学シミュレータの開発をも目的とした。
    初年度は、当研究室で開発済みのGaussian & Fourier Transform(GFT)法に基づく第一原理分子動力学計算プログラムに対して、摩擦プロセスのシミュレーションが可能な機能を追加することで、第一原理分子動力学法に基づくトライボ反応シミュレータを開発した。具体的には、2枚の基板で挟まれた潤滑膜に対して、片方の基板のみをスライドさせることで、摩擦プロセスにおける化学反応シミュレーションを可能とした。さらに、開発プログラムを活用することで、ダイヤモンドライクカーボンの摩擦プロセスにおける電子状態ダイナミクスを解明することに成功した。その結果、ダイヤモンドライクカーボンを水素終端することで、低摩擦を実現できることを明らかにした。

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  • ガウス基底・フーリエ変換法に基づいた第一原理分子動力学法の研究

    研究課題/領域番号:21850002  2009年 - 2010年

    日本学術振興会  科学研究費助成事業 研究活動スタート支援  研究活動スタート支援

    島崎 智実

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    配分額:1911000円 ( 直接経費:1470000円 、 間接経費:441000円 )

    本研究では研究代表者がこれまで開発を行ってきたGaussian & Fourier Transform(GFT)法を第一原理分子動力学法を実行できるように拡張し、凝集系シミュレーションを行った。この研究を遂行するために、GFT法の解析的微分法の理論を導出し、プログラムに実装した。ここで、大規模なシミュレーションを実行するために、プログラムにOpenMPおよびMPIを利用した混合並列化を施した。そして、開発したプログラムを用いて常温常圧のバルク水の第一原理分子動力学シミュレーションを実行し、水素の量子効果がバルク水を議論する上で重要であることを議論した。また、GFT 法の枠組みの中でhybrid-密度汎関数(DFT)法を検討し、新たなに遮蔽Hartree-Fock交換ポテンシャル法を提案した。提案した遮蔽Hartree-Fock交換ポテンシャル法は、従来の局所密度近似(LDA)や一般化勾配近似(GGA)が抱えていた半導体のバンドギャップを過小評価する問題点を解消できることを示した。さらに、遮蔽Hartree-Fock交換ポテンシャル法はhybird-DFT法の物理的解釈を与える上でも重要であることを議論した。

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