Accès ouvert
2026
article
OpenAlex
Hakuto Miyoshi, Koya Sakuma, Yoshitaka Moriwaki, Naoki Aoyama et autres
Artificial protein design enables the creation of stable scaffolds beyond those evolved in nature. Incorporation of native functional motifs into de novo scaffolds provides a promising strategy to mimic natural interactions while altering structural frameworks. Here, we designed de novo S-locus Protein …
jp
(code pays fourni par la source)
Accès ouvert
2026
dataset
OpenAlex
Koya Sakuma, Yoshitaka Moriwaki, Shinya Fushinobu
Relevant data in "Structural and stability analysis of de novo designed proteins incorporating a plant self-incompatibility motif" (under review)This repository contains following materials: sp11_design_Rosetta_Input.tar.gz : Rosetta input files original-SP11-like-structures.zip : de novo designed models of SP11-A, SP11-B, and SP11-C fold_sp11_a_his6.zip : AlphaFold3 …
jp
(code pays fourni par la source)
Accès ouvert
2026
dataset
OpenAlex
Koya Sakuma, Yoshitaka Moriwaki, Shinya Fushinobu
Relevant data in "Structural and stability analysis of de novo designed proteins incorporating a plant self-incompatibility motif" (under review)This repository contains following materials: sp11_design_Rosetta_Input.tar.gz : Rosetta input files original-SP11-like-structures.zip : de novo designed models of SP11-A, SP11-B, and SP11-C fold_sp11_a_his6.zip : AlphaFold3 …
jp
(code pays fourni par la source)
Accès ouvert
2026
article
OpenAlex
Aiko Watanabe, Kai Kanematsu, Yohei Hizukuri, Tatsuki Hori et autres
Reactive α-oxoaldehydes, such as glyoxal (GO) and methylglyoxal (MGO), are cytotoxic glycolysis byproducts that induce cellular dysfunction by nonenzymatically modifying diverse macromolecules. Although DJ-1 (PARK7), a protein linked to Parkinson's disease, acts as a type-III glyoxalase/methylglyoxalase, the physiological function(s) of its prokaryotic …
us, jp, no
(code pays fourni par la source)
Accès ouvert
2026
article
OpenAlex
Tatsuki Hori, Yoshitaka Moriwaki, Ryuichiro Ishitani
Protein conformational dynamics and ligand binding processes are fundamental to biological function, yet their systematic sampling and thermodynamic characterization remain challenging. Here, we present a distance-restraint-guided inference method that extends AlphaFold3-like diffusion model frameworks to predict protein structures at specified conformational states. …
jp
(code pays fourni par la source)
Accès ouvert
2026
article
OpenAlex
Yuto Hasegawa, Yoshitaka Moriwaki, Yuri Takeda, K Okada et autres
It is well-known that momilactones are diterpenoids that play important roles in the survival strategy of cultivated rice (Oryza sativa). Momilactones serve not only as phytoalexins against pathogens but also as allelopathic substances against other plant species. It has been reported that …
jp
(code pays fourni par la source)
Accès ouvert
2026
article
OpenAlex
Delyana Vasileva, Chiho Suzuki-Minakuchi, T. Arakawa, Yoshitaka Moriwaki et autres
ABSTRACT Histone-like protein H1 (H-NS) proteins are key regulators of horizontally acquired genes in enterobacteria. Functional analogs of H-NS, collectively known as H-NS family proteins, have been discovered in diverse bacteria and on large transmissible plasmids. These proteins share the ability to …
br, jp, cn
(code pays fourni par la source)
Accès ouvert
2026
software
OpenAlex
Sergey Ovchinnikov, Martin Steinegger, Milot Mirdita, konsti et autres
Fix compatibility with numpy 2.4 by pulling in fix from AF2 upstream
kr, jp, si, de, us, cl, it, in, gb
(code pays fourni par la source)
Accès ouvert
2026
article
OpenAlex
Yoshitaka Moriwaki, Taro Shiraishi, Yohei Katsuyama, Kenichi Matsuda et autres
Biosynthetic gene clusters (BGCs) are contiguous genomic regions that encode diverse proteins responsible for natural product biosynthesis. These proteins collectively produce various secondary metabolites with complex chemical structure, including antibiotics and mycotoxins, yet the complete biosynthetic pathways have been experimentally elucidated for …
no, jp, us
(code pays fourni par la source)
Accès ouvert
2026
preprint
OpenAlex
Tatsuki Hori, Yoshitaka Moriwaki, Ryuichiro Ishitani
Protein conformational dynamics and ligand binding processes are fundamental to biological function, yet their systematic sampling and thermodynamic characterization remain challenging. Here, we present a distance-restraint-guided inference method that extends AlphaFold3-like diffusion model frameworks to predict protein structures at specified conformational states. …
jp
(code pays fourni par la source)
Accès ouvert
2026
article
OpenAlex
Nayuta Nagano, KOICHI KIUCHI, Atsushi Minato, Shusuke Sato et autres
High Resolution Image Download MS PowerPoint Slide 4-Methylazetidinecarboxylic acids (MeAZEs) are unusual nonproteinogenic amino acids found in nonribosomal peptides, such as bonnevillamide D and vioprolide A. The biosynthesis of MeAZEs is thought to proceed from S -adenosyl- l -methionine (SAM) via C …
jp, us, de
(code pays fourni par la source)
Accès ouvert
2026
article
OpenAlex
Ryo Akiba, Yoshitaka Moriwaki, Ryuichiro Ishitani, Naruki Yoshikawa
Recent advances in artificial intelligence technologies have accelerated the development of computational protein design techniques. Although the structure of the designed proteins has been the primary focus, diversity of designed amino acid sequences is another important aspect of protein design. To address …
jp
(code pays fourni par la source)