Publications by authors named "Tomoki Nakayoshi"

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Comprehensive functional characterization of rare and known CYP2E1 allelic variants identified in a Japanese population.
Yuki Ohmori, Eiji Hishinuma, Yuma Suzuki, Akiko Ueda, Caroline Mwendwa Kijogi, Tomoki Nakayoshi

Biochem Pharmacol· December 2025

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Reduction-Induced Structural and Motional Changes of Plant-Type Ferredoxin Using Molecular Dynamics and Umbrella Sampling Simulations.
Tomoki Nakayoshi, Yusuke Ohnishi, Hideaki Tanaka, Genji Kurisu, Yu Takano

J Comput Chem· August 2025

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Investigation of the Effect of C-Terminal Adjacent Phenylalanine Residues on Asparagine Deamidation by Quantum Chemical Calculations.
Koichi Kato, Haruka Asai, Tomoki Nakayoshi, Ayato Mizuno, Akifumi Oda

Int J Mol Sci· July 2025

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Molecular Dynamics Simulations of Monomeric and Tetrameric Amyloid β Peptides with d-Aspartic Acid Residues.
Ayato Mizuno, Tomoki Nakayoshi, Kenju Inaoka, Ayumi Shingaki, Eiji Kurimoto

Chembiochem· June 2025

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Quantum Chemical Calculations of the Nonenzymatic Bicarbonate Ion-Catalyzed Lactamization of Ornithine Residues to Identify the Components of Primitive Proteins.
Ayato Mizuno, Tomoki Nakayoshi, Eiji Kurimoto, Koichi Kato, Akifumi Oda

J Phys Chem A· March 2025

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Functional significance of CYP2B6 gene rare allelic variants identified in Japanese individuals.
Shuki Yamazaki, Eiji Hishinuma, Yuma Suzuki, Akiko Ueda, Caroline Kijogi, Tomoki Nakayoshi

Biochem Pharmacol· November 2024

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Highly regio- and stereoselective (3 + 2) annulation reaction of allenoates with 3-methyleneindolin-2-ones catalyzed by a planar chiral [2.2]paracyclophane-based bifunctional phosphine-phenol catalyst.
Shinji Kitagaki, Tomoki Nakayoshi, Sota Masunaka, Akane Uchida, Mai Inano

Org Biomol Chem· October 2024

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Theoretical Studies on the Reaction Mechanism of Schiff Base Formation from Hexoses.
Koichi Kato, Tomoki Nakayoshi, Yasuro Shinohara, Eiji Kurimoto, Akifumi Oda

J Phys Chem B· May 2024

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Computational Estimation of Residues Involving Resistance to the SARS-CoV-2 Main Protease Inhibitor Ensitrelvir Based on Virtual Alanine Scan of the Active Site.
Ayato Mizuno, Tomoki Nakayoshi, Koichi Kato, Eiji Kurimoto, Akifumi Oda

Biol Pharm Bull· May 2024

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Structural Impact Assessment of Cytochrome P450 2A13 Polymorphisms Using Molecular Dynamics Simulations.
Koichi Kato, Tomoki Nakayoshi, Sho Hioki, Masahiro Hiratsuka, Yoshinobu Ishikawa

Biol Pharm Bull· March 2024

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Functional Characterization of 29 Cytochrome P450 4F2 Variants Identified in a Population of 8380 Japanese Subjects and Assessment of Arachidonic Acid -Hydroxylation.
Yu Sato, Eiji Hishinuma, Shuki Yamazaki, Akiko Ueda, Masaki Kumondai, Tomoki Nakayoshi

Drug Metab Dispos· December 2023

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Identification of the Most Impactful Asparagine Residues for γS-Crystallin Aggregation by Deamidation.
Koichi Kato, Tomoki Nakayoshi, Yuki Kitamura, Eiji Kurimoto, Akifumi Oda

Biochemistry· June 2023

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Functional Characterization of 12 Dihydropyrimidinase Allelic Variants in Japanese Individuals for the Prediction of 5-Fluorouracil Treatment-Related Toxicity.
Eiji Hishinuma, Yoko Narita, Evelyn Marie Gutiérrez Rico, Akiko Ueda, Kai Obuchi, Tomoki Nakayoshi

Drug Metab Dispos· February 2023

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Effect of the Addition of the Fifth Amino Acid to [GADV]-Protein on the Three-Dimensional Structure.
Koichi Kato, Tomoki Nakayoshi, Ryota Oyaizu, Natsuko Noda, Eiji Kurimoto

Life (Basel)· January 2023

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Structural investigation of pathogenic variants in dihydropyrimidinase using molecular dynamics simulations.
Koichi Kato, Tomoki Nakayoshi, Ayuka Nagura, Eiji Hishinuma, Masahiro Hiratsuka

J Mol Graph Model· December 2022

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Effects of Active-Center Reduction of Plant-Type Ferredoxin on Its Structure and Dynamics: Computational Analysis Using Molecular Dynamics Simulations.
Tomoki Nakayoshi, Yusuke Ohnishi, Hideaki Tanaka, Genji Kurisu, Hiroko X Kondo

Int J Mol Sci· December 2022

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Predicting Reaction Mechanisms for the Threonine-Residue Stereoinversion Catalyzed by a Dihydrogen Phosphate Ion.
Tomoki Nakayoshi, Koichi Kato, Eiji Kurimoto, Yu Takano, Akifumi Oda

ACS Omega· June 2022

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Theoretical Studies on the Effect of Isomerized Aspartic Acid Residues on the Three-Dimensional Structures of Bovine Pancreatic Ribonucleases A.
Tomoki Nakayoshi, Koichi Kato, Eiji Kurimoto, Akifumi Oda

Biol Pharm Bull· December 2021

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Computational Analysis of the Mechanism of Nonenzymatic Peptide Bond Cleavage at the C-Terminal Side of an Asparagine Residue.
Koichi Kato, Tomoki Nakayoshi, Yoshinobu Ishikawa, Eiji Kurimoto, Akifumi Oda

ACS Omega· November 2021

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Effects of substituent pattern on the intracellular target of antiproliferative benzo[b]thiophenyl chromone derivatives.
Yohei Saito, Yukako Taniguchi, Sachika Hirazawa, Yuta Miura, Hiroyuki Tsurimoto, Tomoki Nakayoshi

Eur J Med Chem· October 2021

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Virtual Alanine Scan of the Main Protease Active Site in Severe Acute Respiratory Syndrome Coronavirus 2.
Tomoki Nakayoshi, Koichi Kato, Eiji Kurimoto, Akifumi Oda

Int J Mol Sci· September 2021

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Deciphering Structural Alterations Associated with Activity Reductions of Genetic Polymorphisms in Cytochrome P450 2A6 Using Molecular Dynamics Simulations.
Koichi Kato, Tomoki Nakayoshi, Rika Nokura, Hiroki Hosono, Masahiro Hiratsuka

Int J Mol Sci· September 2021

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Functional Characterization of 21 Rare Allelic Variants Identified in a Population of 4773 Japanese Individuals by Assessing Phenacetin -Deethylation.
Masaki Kumondai, Evelyn Marie Gutiérrez Rico, Eiji Hishinuma, Yuya Nakanishi, Shuki Yamazaki, Tomoki Nakayoshi

J Pers Med· July 2021

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Modification of the pH Dependence of Assembly of Yeast Cargo Receptor Emp47p Coiled-Coil Domains: Computational Design and Experimental Mutagenesis.
Koichi Kato, Tomoki Nakayoshi, Eiji Kurimoto, Akifumi Oda

J Phys Chem B· March 2021

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Functional Assessment of 12 Rare Allelic Variants Identified in a Population of 4773 Japanese Individuals.
Masaki Kumondai, Akio Ito, Evelyn Marie Gutiérrez Rico, Eiji Hishinuma, Akiko Ueda, Tomoki Nakayoshi

J Pers Med· February 2021

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