New molecule-creation method a ‘powerful tool’ to accelerate drug synthesis and discovery

A team of chemists from Scripps Research and Rice University has unveiled a novel method to simplify the synthesis of piperidines, a key structural component in many pharmaceuticals. The study, published in Science, combines biocatalytic carbon-hydrogen oxidation and radical cross-coupling, offering a streamlined and cost-effective approach to create complex, three-dimensional molecules. This innovation could help accelerate drug discovery and enhance the efficiency of medicinal chemistry.

Modern medicinal chemists face increasing challenges as they target complex molecules to address difficult biological targets. Traditional methods for synthesizing flat, two-dimensional molecules, such as pyridines, are well established, but strategies for their 3D counterparts, like piperidines, have been far more elusive.

To bridge this gap, the team introduced a two-stage process to modify piperidines, which are important in many pharmaceuticals. The first step uses biocatalytic carbon-hydrogen oxidation, a method where enzymes selectively add a hydroxyl group to specific sites on piperidine molecules. This process is similar to a common chemical technique called electrophilic aromatic substitution, which works for flat molecules like pyridines, but here it is applied in a 3D structure.

In the second step, these newly functionalized piperidines undergo radical cross-coupling with nickel electrocatalysis. This approach forms new carbon-carbon bonds efficiently by connecting different molecular fragments without the need for extra steps, like adding protective groups that shield parts of the molecule during synthesis or using expensive precious metal catalysts such as palladium. This two-step process dramatically simplifies how complex piperidines are built.

“We’ve essentially created a modular approach to simplify piperidine synthesis, analogous to how palladium cross-coupling revolutionized pyridine chemistry decades ago,” said Hans Renata, study co-author and associate professor of chemistry at Rice. “This represents a powerful tool to unlock new molecular spaces for drug discovery.”

The research demonstrated the streamlined synthesis of numerous high-value piperidines used in natural products and pharmaceuticals, including neurokinin receptor antagonists, anticancer agents and antibiotics. The approach reduced multistep processes from 7-17 steps to just 2-5, drastically improving efficiency and cost.

This achievement is significant for both medicinal and process chemists. By offering a generalizable strategy to rapidly access complex 3D molecules, the method reduces reliance on costly precious metals like palladium and simplifies traditionally challenging synthetic pathways. For pharmaceutical development, this means faster access to life-saving medicines, reduced production costs and a sustainable approach to synthesizing drug candidates.

“This work demonstrates the power of combining enzymatic transformation for selective carbon-hydrogen oxidation and modern cross-couplings for unlocking new molecular spaces for drug discovery,” Renata said.

“By combining biocatalytic oxidation and radical cross-coupling, we are enabling access to molecules previously considered inaccessible or prohibitively expensive,” said Yu Kawamata, a co-author and institute investigator in the Department of Chemistry at Scripps Research.

The method opens new possibilities for drug design and synthesis, particularly as the industry shifts toward 3D molecular architectures to enhance drug specificity and performance. Patients and health care systems may also benefit from faster, more efficient routes to critical medications, potentially reducing costs and increasing access to new therapies.

In addition to Renata and Kawamata, Phil Baran, a professor in the Department of Chemistry at Scripps Research, was also a co-corresponding author. Scripps Research postdoctoral associate Jiayan He and Rice postdoctoral researcher Kenta Yokoi were first authors on the paper. Breanna Wixted, a student in Renata’s lab at Rice studying under a National Science Foundation Research Experiences for Undergraduates grant, and Benxiang Zhang, a postdoctoral researcher at Scripps Research, also contributed.

Financial support for this work was provided by National Institutes of Health (GM-118176 and GM-128895), the Welch Foundation (C2159), fellowship support from the Naito Foundation and NSF REU grant 2150216.