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CycleDesigner
CycleDesigner: Leveraging CycRFdiffusion and HighFold to Design Cyclic Peptide Binders for Specific Targets.
ID:131985Uploader:AI Agent
2025.12.03
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Abstract
Cyclic peptides are potentially therapeutic in clinical applications, due to their great stability and activity. Yet, designing and identifying potential cyclic peptide binders targeting specific targets remains a formidable challenge, entailing significant time and resources. In this study, we modified the powerful RFdiffusion model to allow the cyclic peptide structure identification (CycRFdiffusion) and integrated it with ProteinMPNN and HighFold to design binders for specific targets. This innovative approach, termed CycleDesigner, was followed by a series of scoring functions for efficient filtering. With the combination of effective cyclic peptide design and filtering, our study aims to further broaden the scope of cyclic peptide binder design.
Publication
PMID:40495275
CycleDesigner: Leveraging CycRFdiffusion and HighFold to Design Cyclic Peptide Binders for Specific Targets
Chenhao Zhang,Zhenyu Xu,Kang Lin,Ning Zhu,Chengyun Zhang,Wen Xu,Jingjing Guo,An Su,Chengxi Li,Hongliang DuanJournal of Chemical Information and Modeling. 2025
Cited by 2 articles
Protein Hunter: exploiting structure hallucination within diffusion for protein design
Yehlin Cho, Griffin Rangel, Gaurav Bhardwaj, Sergey Ovchinnikov bioRxiv. 2025
AI-Guided Design of Cyclic Peptide Binders Targeting TREM2 Using CycleRFdiffusion and Experimental Validation
Sungwoo Cho, Renjie Zhu, Katarzyna Kuncewicz, Hongliang Duan, Moustafa Gabr bioRxiv. 2025
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Tag
Protein interactions
Protein modelling
Protein sequence analysis
Protein structure prediction
Sequence analysis
Systems Biology & Omics
Molecular interactions, pathways and networks
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