| ColabFold: making protein folding accessible to all M Mirdita, K Schütze, Y Moriwaki, L Heo, S Ovchinnikov, M Steinegger Nature methods 19 (6), 679-682, 2022 | 8985 | 2022 |
| Extracellular pH sensing by plant cell-surface peptide-receptor complexes L Liu, W Song, S Huang, K Jiang, Y Moriwaki, Y Wang, Y Men, D Zhang, ... Cell 185 (18), 3341-3355. e13, 2022 | 123 | 2022 |
| Easy and accurate protein structure prediction using ColabFold G Kim, S Lee, E Levy Karin, H Kim, Y Moriwaki, S Ovchinnikov, ... Nature Protocols 20 (3), 620-642, 2025 | 117 | 2025 |
| Molecular Basis of Recognition of Antibacterial Porphyrins by Heme-Transporter IsdH-NEAT3 of Staphylococcus aureus Y Moriwaki, JMM Caaveiro, Y Tanaka, H Tsutsumi, I Hamachi, K Tsumoto Biochemistry 50 (34), 7311-7320, 2011 | 61 | 2011 |
| Mechanism of self/nonself-discrimination in Brassica self-incompatibility K Murase, Y Moriwaki, T Mori, X Liu, C Masaka, Y Takada, R Maesaki, ... Nature communications 11 (1), 4916, 2020 | 45 | 2020 |
| Prediction of antifungal peptides by deep learning with character embedding C Fang, Y Moriwaki, C Li, K Shimizu IPSJ Transactions on Bioinformatics 12, 21-29, 2019 | 37 | 2019 |
| An iterative compound screening contest method for identifying target protein inhibitors using the tyrosine-protein kinase Yes S Chiba, T Ishida, K Ikeda, M Mochizuki, R Teramoto, YH Taguchi, ... Scientific Reports 7 (1), 12038, 2017 | 32 | 2017 |
| Heme Binding Mechanism of Structurally Similar Iron-Regulated Surface Determinant Near Transporter Domains of Staphylococcus aureus Exhibiting Different … Y Moriwaki, T Terada, JMM Caaveiro, Y Takaoka, I Hamachi, K Tsumoto, ... Biochemistry 52 (49), 8866-8877, 2013 | 32 | 2013 |
| Understanding the Molecular Mechanism Underlying the High Catalytic Activity of p-Hydroxybenzoate Hydroxylase Mutants for Producing Gallic Acid Y Moriwaki, M Yato, T Terada, S Saito, N Nukui, T Iwasaki, T Nishi, ... Biochemistry 58 (45), 4543-4558, 2019 | 30 | 2019 |
| Selective binding of antimicrobial porphyrins to the heme‐receptor IsdH‐NEAT3 of Staphylococcus aureus NT Vu, Y Moriwaki, JMM Caaveiro, T Terada, H Tsutsumi, I Hamachi, ... Protein Science 22 (7), 942-953, 2013 | 30 | 2013 |
| A prospective compound screening contest identified broader inhibitors for Sirtuin 1 S Chiba, M Ohue, A Gryniukova, P Borysko, S Zozulya, N Yasuo, ... Scientific reports 9 (1), 19585, 2019 | 24 | 2019 |
| Structural and Molecular Basis of the Catalytic Mechanism of Geranyl Pyrophosphate C6‐Methyltransferase: Creation of an Unprecedented Farnesyl Pyrophosphate C6‐Methyltransferase H Tsutsumi, Y Moriwaki, T Terada, K Shimizu, K Shin‐ya, Y Katsuyama, ... Angewandte Chemie International Edition 61 (1), e202111217, 2022 | 22 | 2022 |
| EXPRORER: Rational cosolvent set construction method for cosolvent molecular dynamics using large-scale computation K Yanagisawa, Y Moriwaki, T Terada, K Shimizu Journal of Chemical Information and Modeling 61 (6), 2744-2753, 2021 | 22 | 2021 |
| Identifying short disorder-to-order binding regions in disordered proteins with a deep convolutional neural network method C Fang, Y Moriwaki, A Tian, C Li, K Shimizu Journal of Bioinformatics and Computational Biology 17 (01), 1950004, 2019 | 21 | 2019 |
| Elucidation of potential sites for antibody engineering by fluctuation editing S Yanaka, Y Moriwaki, K Tsumoto, K Sugase Scientific reports 7 (1), 9597, 2017 | 20 | 2017 |
| Prediction and analysis of antifreeze proteins R Miyata, Y Moriwaki, T Terada, K Shimizu Heliyon 7 (9), 2021 | 18 | 2021 |
| Rapid Heme Transfer Reactions between NEAr Transporter Domains of Staphylococcus aureus: A Theoretical Study Using QM/MM and MD Simulations Y Moriwaki, T Terada, K Tsumoto, K Shimizu PLoS One 10 (12), e0145125, 2015 | 17 | 2015 |
| Insights into stereoselective ring formation in canonical strigolactone: Identification of a dirigent domain-containing enzyme catalyzing orobanchol synthesis M Homma, T Wakabayashi, Y Moriwaki, N Shiotani, T Shigeta, K Isobe, ... Proceedings of the National Academy of Sciences 121 (26), e2313683121, 2024 | 14 | 2024 |
| Feedback-AVPGAN: Feedback-guided generative adversarial network for generating antiviral peptides K Hasegawa, Y Moriwaki, T Terada, C Wei, K Shimizu Journal of Bioinformatics and Computational Biology 20 (06), 2250026, 2022 | 14 | 2022 |
| Prediction of protein mononucleotide binding sites using AlphaFold2 and machine learning S Yamaguchi, H Nakashima, Y Moriwaki, T Terada, K Shimizu Computational Biology and Chemistry 100, 107744, 2022 | 13 | 2022 |
