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J-GLOBAL ID：201601018129488930 Update date: Oct. 05, 2024

Kondo Hiroko X

コンドウヒロコ | Kondo Hiroko X

Affiliation and department：
Job title： Associate Professor
Research theme for competitive and other funds (5)：

2022 - 2026 Computational study on the secondary structure dependence of the interaction in protein tertiary structure formation and the development of a new force field
2019 - 2023 Elucidation of dependence of secondary structure on the formation of protein structure and development of new forcefield incorporating effects of secondary structure
2019 - 2022 Creation of air-water interface-modified region for drug separation and design of sustainable water-based reaction and separation engineering
2020 - 2021 ヘムタンパク質におけるポケット形状とヘムの歪みの相関解析に対する畳み込みニューラルネットワークの最適化
2019 - 2020 Global analysis of hemeproteins by machine learning and molecular simulation

Papers (28)：

Yu Takano, Hiroko X Kondo, Haruki Nakamura. Quantitative evaluation of noncovalent interactions with negative fragmentation approach including basis set superposition error correction. Bulletin of the Chemical Society of Japan. 2024. 97. 9
Hiroko X Kondo, Yu Takano. Structure comparison of heme-binding sites in heme protein predicted by AlphaFold3 and AlphaFold2. Chemistry Letters. 2024. 53. 8
Hiroko X. KONDO, Yu TAKANO. Hydrogen Bond Energies in Helical Peptides Investigated by Negative Fragmentation Approach with Density Functional Theory. Seibutsu Butsuri. 2024. 64. 2. 89-93
Yusuke Kanematsu, Hiroko X. Kondo, Yu Takano. Computational Exploration of Minimum Energy Reaction Pathway of N2O Formation from Intermediate I of P450nor Using an Active Center Model. International Journal of Molecular Sciences. 2023. 24. 24. 17172-17172
Hinako Fujikawa, Hiroko X. Kondo, Yusuke Kanematsu, Yu Takano. Random Forest Classifier of Heme Proteins Using Porphyrin Distortions and Axial Ligands of Heme. Chemistry Letters. 2023. 52. 6. 503-507

MISC (7)：

近藤寛子, 飯塚博幸, 舛本現, 兼松佑典, 鷹野優. ヘム蛋白質における構造機能相関の解明に向けた蛋白質ポケットとヘムの歪みの相関解析. 日本蛋白質科学会年会プログラム・要旨集. 2021. 21st
鷹野優, 近藤寛子, 近藤寛子, 近藤寛子, 兼松佑典, 兼松佑典, 舛本現. ヘムの構造歪みデータベースおよび解析ツールPyDISHの開発. 日本コンピュータ化学会年会講演予稿集. 2020. 2020
近藤寛子, 兼松佑典, 藤井理則, 石井学, 舛本現, 今田康博, 吉田孝, 鷹野優. ヘムの構造歪みに着目した統計解析・電子状態計算による構造機能相関の解明とデータベースの構築. 生体分子科学討論会講演要旨集. 2019. 46th
Hiroko X. Kondo, Noriaki Okimoto, Makoto Taiji. Improvement of Sampling Efficiency through Combined use of Molecular Dynamics Simulations with Implicit and Explicit Solvent Models. BIOPHYSICAL JOURNAL. 2013. 104. 2. 170A-171A
Hiroko Kondo, Noriaki Okimoto, Gentaro Morimoto, Makoto Taiji. Exploration of Free-Energy Profiles With Conformational Changes of Proteins. BIOPHYSICAL JOURNAL. 2010. 98. 3. 26A-26A

Lectures and oral presentations (11)：

ヘムタンパク質における構造機能相関の解明に向けた構造データの網羅解析
(生物工学会北日本支部シンポジウム 2021)
ヘム蛋白質における構造機能相関の解明に向けた蛋白質ポケットとヘムの歪みの相関解析
(第21回日本蛋白質科学会 2021)
Analysis of an effect of mutations on the structure of CDR-H3 in the anti-HIV neutralizing antibody PG16
(The 58th Annual Meeting of the Biophysical Society of Japan 2020)
電位依存性カリウムチャネル Kv1.2 における C 型不活性化の分子機構の解析
(凝縮系の理論化学 2019)
Molecular dynamics study on the mechanism of voltage dependent inactivation in a mutant of the voltage-gated potassium channel
(2018)

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