Former Koga Group Achievements
- Koya Sakuma, Naohiro Kobayashi, Toshihiko Sugiki, Toshio Nagashima,Toshimichi Fujiwara, Kano Suzuki, Naoya Kobayashi, Takeshi Murata, Takahiro Kosugi, Rie Tatsumi-Koga, and Nobuyasu Koga
Design of complicated all-α protein structures
Nature Structural and Molecular Biology; doi.org/10.1038/s41594-023-01147-9 (2024).
- S. Minami, N. Kobayashi, T. Sugiki, T. Nagashima, T. Fujiwara, R. Tatsumi-Koga, G. Chikenji, N. Koga
Exploration of novel αβ-protein folds through de novo design
Nature Structural & Molecular Biology 30, 1132-1140; doi.org/10.1038/s41594-023-01029-0 (2023).
- T. Kosugi, T. Iida, M. Tanabe, R. Iino, N Koga.
Design of allosteric sites into rotary motor V1-ATPase by restoring lost function of pseudo-active sites
Nature Chemistry, 15, 1591-1598; doi.org/10.1038/s41557-023-01256-4 (2023).
- Akihiro Otomo, Takahiro Kosugi
Tackle "Molecular Engine" by early-career researchers
Biophysics and Physicobiology 19, e190039; doi.org/10.2142/biophysico.bppb-v19.0039 (2022).
- Makito Miyazaki, Takahiro Kosugi
Uncovering the design principles of supramolecular assemblies through manipulation of the structures, dynamics, and functions
Biophysics and Physicobiology 19, e190031; doi.org/10.2142/biophysico.bppb-v19.0031 (2022).
- M. Mitsumoto, K. Sugaya, K. Kazama, R. Nakano, T. Kosugi, T. Murata, N. Koga,
State-Targeting Stabilization of Adenosine A2A Receptor by Fusing a Custom-Made De Novo Designed α-Helical Protein
International Journal of Molecular Sciences 22, 23, 12906 (13 pages) ; doi.org/10.3390/ijms222312906 (2021).
- H. Murata, H. Imakawa, N. Koga, G. Chikenji
The register shift rules for βαβ-motifs for de novo protein design
PLoS ONE 16, 8, e0256895 (24 pages); doi.org/10.1371/journal.pone.0256895 (2021).
- A. Nakamura, N. Kobayashi, N. Koga, R. Iino,
Positive Charge Introduction on the Surface of Thermostabilized PET Hydrolase Facilitates PET Binding and Degradation
ACS Catalysis 11, 14, 8550-8564; doi.org/10.1021/acscatal.1c01204 (2021).
- Nobuyasu Koga, Rie Koga, Gaohua Liu, Javier Castellanos, Gaetano T. Montelione & David Baker
Role of backbone strain in de novo design of complex α/β protein structures
Nature Communications volume 12, Article number: 3921; doi.org/10.10.38/s41467-021-2450-7 (2021)
- Rie Koga, Mami Yamamoto, Takahiro Kosugi, Naohiro Kobayashi, Toshihiko Sugiki, Toshimichi Fujiwara, and Nobuyasu Koga
Robust folding of a de novo designed ideal protein even with most of the core mutated to valine
Proceedings of the National Academy of Sciences of the United States of America ,doi.org/10.1073/pnas.2002120117（2020）
- Rie Koga , Nobuyasu Koga
Consistency principle for protein design
Biophysics and Physicobiology 16, 304-309; doi.org/10.2142/biophysico.16.0_304(2019)
- H. Murakoshi, H. Horiuchi, T. Kosugi, M. Onda, A. Sato, N. Koga, J. Nabekura
ShadowR: a novel chromoprotein with reduced non-specific binding and improved expression in living cells
Scientific Reports 9, 12072; doi.org/ 10.1038/s41598-019-48604-4 (2019).
- S. Basak, R. P. Nobrega, D. Tavella, L.M. Deveau, N. Koga, R. Tatsumi-Koga, D. Baker, F. Massi, C. R. Matthews
Networks of electrostatic and hydrophobic interactions modulate the complex folding free energy surface of a designed βα protein
Proceedings of the National Academy of Sciences of the United States of America 116, 14, 6806-6811; doi.org/10.1073/pnas.1818744116 (2019).
- Y.-R. Lin, N. Koga, R. Tatsumi-Koga, G. Liu, A. F. Clouser, G. T. Montelione and D.Baker
Cyclic oligomer design with de novo αβ-proteins
PROTEIN SCIENCE 26(11),2187-2194 , doi:10.1002/pro.3270（2017）
- R. KOGA and N. KOGA
De Novo Computational Protein Design: Toward Custom Made Generation of Protein Structures
Kagaku 71, 42-46 (2016) (in Japanese)
- Yu-Ru Lin, Nobuyasu Koga, Rie Tatsumi-Koga, Gaohua Liu, Amanda F. Clouser, Gaetano T. Montelione, David Baker
Control over overall shape and size in de novo designed proteins
Proceedings of the National Academy of Sciences of the United States of America 112(40), E5478-5485 (2015)
- Koya Sakuma, Naohiro Kobayashi, Toshihiko Sugiki, Toshio Nagashima,Toshimichi Fujiwara, Kano Suzuki, Naoya Kobayashi, Takeshi Murata, Takahiro Kosugi, Rie Tatsumi-Koga, and Nobuyasu Koga