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Genomics & Informatics|March 27, 2026
VLMs struggle to extract definitions of structural segments from MSA images: toward the design of a human-in-the-loop annotation pipeline for the PDB-Descriptome projectKoya SakumaBiophysics and Physicobiology|June 28, 2021
Limitations of the ABEGO-based backbone design: ambiguity between αα-corner and αα-hairpinKoya SakumaBMC Bioinformatics|September 28, 2021
Enumeration and comprehensive in-silico modeling of three-helix bundle structures composed of typical αα-hairpinsKoya Sakuma, Shintaro MinamiMethods in Molecular Biology (Clifton, N.J.)|November 14, 2024
Statistical Analysis of Walker-A Motif-Containing β-α-β Supersecondary Structures in the Protein Data BankKoya Sakuma, George Chikenji, Motonori OtaProtein Science : a Publication of the Protein Society|March 19, 2024
Dual-wield NTPases: A novel protein family mined from AlphaFold DBKoya Sakuma, Ryotaro Koike, Motonori OtaBiology|February 25, 2023
How AlphaFold2 Predicts Conditionally Folding Regions Annotated in an Intrinsically Disordered Protein Database, IDEALHiroto Anbo, Koya Sakuma, Satoshi Fukuchi, et al.Proteins|July 25, 2026
Structural and Stability Analysis of de Novo Designed Proteins Incorporating a Plant Self-Incompatibility MotifHakuto Miyoshi, Koya Sakuma, Yoshitaka Moriwaki, et al.Protein Science : a Publication of the Protein Society|May 5, 2026
Intrinsically dominant conformational diversity in PDZ1 within the tandem PDZ1-PDZ2 of human syntenin-1 underlined by crystal structuresNatsuno Ando, Yuya Hanazono, Koya Sakuma, et al.Nature Structural & Molecular Biology|January 4, 2024
Design of complicated all-α protein structuresKoya Sakuma, Naohiro Kobayashi, Toshihiko Sugiki, et al.Pageof 1