ArticleSynthetic and systems biotechnology2021
PCPD: Plant cytochrome P450 database and web-based tools for structural construction and ligand docking.
Article in Synthetic and systems biotechnology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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28 citing papers in PubMed.
- A Review of Plant-Derived Diterpenoid Biosynthesis: From Structural Scaffold Diversity and Lineage-Associated Distribution to Enzyme Mining and Discovery Strategies.Molecules (Basel, Switzerland) · 2026Review
- PlantGATA: a comprehensive database for plant GATA transcription factors.Functional & integrative genomics · 2026Article
- Engineering yeast for sustainable bioproduction of tryptophan-derived aromatic compounds.FEMS yeast research · 2026Review
- MARTS-DB: a database of mechanisms and reactions of terpene synthases.BMC bioinformatics · 2025Article
- Protein design drives synthetic biology research of plant natural products.Biodesign research · 2025Review
- Gymnosperm-specific CYP90Js enable biflavonoid biosynthesis and microbial production of amentoflavone.Nature communications · 2025Article
- Exploring P450 superfamily diversity with P450Atlas - Online tool for automated subfamily assignment.Protein science : a publication of the Protein Society · 2025Article
- Genome-Wide Association Study and Genomic Predictions for Hydroxycinnamate Concentrations in Maize Stover.Journal of agricultural and food chemistry · 2025Article
- Comprehensive Review on Plant Cytochrome P450 Evolution: Copy Number, Diversity, and Motif Analysis From Chlorophyta to Dicotyledoneae.Genome biology and evolution · 2024Review
- A Computational Pipeline Observes the Flexibility and Dynamics of Plant Cytochrome P450 Binding Sites.International journal of molecular sciences · 2024Article
- A Syringa pinnatifolia genome assembly reveals the zerumbone biosynthesis machinery with a cytochrome P450-catalysed epoxidation reaction in eudicots.Plant biotechnology journal · 2024Article
- P450Rdb: A manually curated database of reactions catalyzed by cytochrome P450 enzymes.Journal of advanced research · 2024Article
- Identification and Expression Analysis of Cytochrome P450 Genes Probably Involved in Triterpenoid Saponins Biosynthesis inInternational journal of molecular sciences · 2024Article
- Review
- Identification of a Unique Genomic Region in Sweet Chestnut (Plants (Basel, Switzerland) · 2024Article
- An integrative database and its application for plant synthetic biology research.Plant communications · 2024Article
- Article
- Sequence-Structure Analysis Unlocking the Potential Functional Application of the Local 3D Motifs of Plant-Derived Diterpene Synthases.Biomolecules · 2024Article
- Cytochrome P450 Enzyme Design by Constraining the Catalytic Pocket in a Diffusion Model.Research (Washington, D.C.) · 2024Article
- Genome-wide analysis of theFrontiers in plant science · 2024Article
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11 authors.
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Abstract
Plant cytochrome P450s play key roles in the diversification and functional modification of plant natural products. Although over 200,000 plant P450 gene sequences have been recorded, only seven crystalized P450 genes severely hampered the functional characterization, gene mining and engineering of important P450s. Here, we combined Rosetta homologous modeling and MD-based refinement to construct a high-resolution P450 structure prediction process (PCPCM), which was applied to 181 plant P450s with identified functions. Furthermore, we constructed a ligand docking process (PCPLD) that can be applied for plant P450s virtual screening. 10 examples of virtual screening indicated the process can reduce about 80% screening space for next experimental verification. Finally, we constructed a plant P450 database (PCPD: http://p450.biodesign.ac.cn/), which includes the sequences, structures and functions of the 181 plant P450s, and a web service based on PCPCM and PCPLD. Our study not only developed methods for the P450-specific structure analysis, but also introduced a universal approach that can assist the mining and functional analysis of P450 enzymes.
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