Frontiers for Development of Protein Redesign Strategy in the Era of AI

Protein design has become a central focus in contemporary biology and chemistry. This review highlights recent advances in protein redesign, a strategy that generates artificial proteins by introducing multiple mutations into template protein. We first examine sequence‑based approaches—ancestral sequence reconstruction (ASR) and consensus design (CD)—that are now widely adopted. We then discuss two next‑generation methods: (i) hybrid strategies that couple CD with structure‑guided rational design, and (ii) state‑of‑the‑art platforms that integrate generative artificial intelligence with conventional redesign workflows.

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Publication Details

Journal
Nihon Kessho Gakkaishi
Published
2025-08-31
DOI
https://doi.org/10.5940/jcrsj.67.176
Primary Topic
Genomics and Phylogenetic Studies
Type
article
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article

Frontiers for Development of Protein Redesign Strategy in the Era of AI

Shogo Nakano
Nihon Kessho Gakkaishi
Genomics and Phylogenetic Studies
article

Frontiers for Development of Protein Redesign Strategy in the Era of AI

Shogo Nakano
article en

Abstract

Protein design has become a central focus in contemporary biology and chemistry. This review highlights recent advances in protein redesign, a strategy that generates artificial proteins by introducing multiple mutations into template protein. We first examine sequence‑based approaches—ancestral sequence reconstruction (ASR) and consensus design (CD)—that are now widely adopted. We then discuss two next‑generation methods: (i) hybrid strategies that couple CD with structure‑guided rational design, and (ii) state‑of‑the‑art platforms that integrate generative artificial intelligence with conventional redesign workflows.

Nihon Kessho GakkaishiVol. 67(3)
University of Shizuoka (JP)
Openalex Percentile: Top 78%
Genomics and Phylogenetic Studies
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