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Retrosynthetic Analysis

Field
Field
Field

Ligand design requires molecules to be synthetically accessible.  Retrosynthetic analysis is a strategy used in organic chemistry that iteratively deconstructs a molecule into precursors until commercially available or easily synthesizable starting materials are identified. This process involves working backward from the target molecule to identify possible synthetic routes, focusing on bond disconnections and functional group transformations.

Importance in Computational Drug Discovery

  1. Efficient Synthesis Planning: It helps chemists devise efficient synthetic routes, reducing the number of steps and improving overall yield.
  2. Cost-Effectiveness: By identifying simpler and more readily available starting materials, retrosynthetic analysis can significantly reduce the cost of drug synthesis.
  3. Scalability: It facilitates the planning of scalable synthetic routes, which is crucial for the large-scale production of pharmaceutical compounds.
  4. Innovation: Encourages creative thinking and the discovery of novel synthetic pathways that might not be immediately obvious.
  5. Integration with Computational Tools: Modern computational tools can automate retrosynthetic analysis, providing rapid and accurate predictions of synthetic routes and potential challenges.

Key Tools

  1. Chematica (now part of Merck): A software tool for automated retrosynthetic analysis that uses a combination of algorithms and expert chemical knowledge to propose synthetic routes.
  2. SynRoute: An AI-driven tool that provides retrosynthetic analysis and synthetic planning, integrating data from various chemical databases.
  3. Reaxys: A comprehensive database that includes retrosynthetic analysis capabilities, helping chemists design synthetic routes for complex molecules.
  4. ASKCOS: An open-source tool developed at MIT that uses machine learning for retrosynthetic planning and prediction of synthetic pathways.
  5. IBM RXN for Chemistry: A cloud-based platform for AI-driven retrosynthetic analysis, allowing chemists to input target molecules and receive proposed synthetic routes.

Literature

"Computer-Assisted Synthetic Planning: The End of the Beginning"

  • Publication Date: 2018-01-12
  • DOI: https://doi.org/10.1002/anie.201506101
  • Summary: This review discusses the evolution of computer-assisted synthetic planning (CASP), highlighting advances in algorithmic retrosynthesis, the integration of reaction databases, and the growing role of machine learning. The paper provides a perspective on the challenges and future directions of automated retrosynthetic analysis in drug discovery.

"Planning chemical syntheses with deep neural networks and symbolic AI"

  • Publication Date: 2018-12-21
  • DOI: https://doi.org/10.1038/nature25978
  • Summary: This landmark study demonstrates the use of deep neural networks combined with symbolic artificial intelligence to predict retrosynthetic pathways. The approach significantly improves the efficiency and accuracy of synthetic route planning, with applications in the design of drug-like molecules.

"A Review of Computer-Assisted Synthesis Planning Tools"

  • Publication Date: 2021-07-14
  • DOI: https://doi.org/10.1002/anie.202101060
  • Summary: This review provides a comprehensive overview of current computer-assisted synthesis planning tools, comparing their methodologies, strengths, and limitations. The paper discusses the impact of these tools on medicinal chemistry and their integration into drug discovery workflows.