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Updated: Jan 7, 2026

Application of I TASSER, trRosetta, UCSF Chimera, HADDOCK server, and HEX loria for De Novo and In Silico Design of Proteins
Published on: July 8, 2025
[Applications of protein structure determination in synthetic biology]
Xiaoxuan Fan1, Qin Zhou1, Qingyan Ruan1
1School of Pharmaceutical Sciences, Zhejiang Chinese Medical University, Hangzhou 310053, Zhejiang, China.
Abstract:
Synthetic biology aims to reconstruct living systems through engineering principles, requiring molecular mechanism elucidation at the atomic level as its theoretical foundation. Protein crystallographic structural analysis, by revealing three-dimensional conformations, dynamic conformational changes, and molecular interaction networks of proteins, provides indispensable atomic-scale blueprints for the functional design and performance optimization of components in synthetic biology. Recent breakthroughs in cryo-electron microscopy, X-ray crystallography, and artificial intelligence-based prediction methods have significantly advanced the applications of protein structure determination in synthetic biology, including protein engineering, metabolic pathway optimization, biosensor design, and artificial biological system construction. This review summarizes key technological advancements in protein structure determination and discusses their specific applications in synthetic biology, along with future development trends, aiming to provide theoretical references and technical perspectives for related research fields.
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