Novel computer-assisted chemical synthesis method cuts research time and cost

Hokkaido University scientists have succeeded in synthesizing an α,α-difluoroglycine derivative, a type of α-amino acid, based on a reaction path predicted by quantum chemical calculations. This novel method, combining experimental chemistry and computational chemistry, could innovate the development of new chemical reactions.

In addition to being the basic constituents of peptides and proteins in our body, α-amino acids are essential for our daily life. They are used for nutritional supplements, food additives and many other products. While natural α-amino acids can be cheaply synthesized through conventional fermentation processes, non-natural α-amino acids, which could add new properties to peptides and proteins, are generally made through chemical syntheses.

In the current study published in Chemical Science, a group of scientists at the university’s Institute for Chemical Reaction Design and Discovery (WPI-ICReDD) focused on the chemical synthesis of α,α-difluoroglycine, a non-natural fluorinated α-amino acid, which could enhance the molecule’s metabolic stability and biological activity. However, an effective synthesis method for the amino acid has been elusive.

Designing new reactions based on conventional organic synthesis requires numerous trials and errors in experiments and the insights of expert chemists. Consequently, a huge amount of time and money has been required to develop an innovative reaction.

To overcome this problem, WPI-ICReDD, the university’s new research hub, adopted its core technology dubbed Artificial Force Induced Reaction (AFIR) method. The AFIR is a computational method applying virtual intermolecular or intramolecular forces to perform systematic search for chemical reaction pathways. The group applied the AFIR method to conduct so-called retrosynthetic analysis which uses quantum chemical calculations to find the decomposition paths of a desired product before proposing synthetic pathways in a reverse manner.

They searched for decomposition pathways of α,α-difluoroglycine and selected a group including three basic and simple compounds — amine, difluorocarbene, and carbon dioxide. Their calculation predicted these three compounds are capable of producing the target compound in 99.99% yield.

The new computational method enables retrosynthetic analysis which searches for the decomposition paths of a desired product before proposing synthetic pathways in a reverse manner. (Tsuyoshi Mita, Yu Harabuchi, and Satoshi Maeda. Chemical Science, May 22, 2020)

After having fine-tuned various reaction conditions, the experimental chemists successfully synthesized an α,α-difluoroglycine derivative in 80% yield. “We first failed to obtain the target product, but we were still confident that the synthesis was successful because the computational prediction was so concrete. It encouraged us to go on,” says Tsuyoshi Mita of the group. “It took only two months to achieve the synthesis, which is significantly faster than a typical development process. It saves significant research time because a computer predicts the feasibility of synthesizing target compounds and their chemical yields.”

“The AFIR method is instrumental in conducting next-generation organic syntheses,” says Satoshi Maeda, who devised the method. “We expect our method will be applied to effectively producing fine chemicals, functional materials, and discovering new drugs.” The group is making a database of pathways found through the AFIR method and hopes to use it with information scientists to accelerate the development of novel chemical reactions.

From the left: Satoshi Maeda, Tsuyoshi Mita, and Yu Harabuchi of the research team at Hokkaido University’s WPI-ICReDD
Original article

Tsuyoshi Mita, Yu Harabuchi, and Satoshi Maeda. Discovery of a synthesis method of difluoroglycine derivative based on a path generated by quantum chemical calculations. Chemical Science, May 22, 2020.
DOI: 10.1039/DOSCO2089C

Funding Information

This study was supported by a Grant-in-Aid for Scientific Research (C) (18K05096), JST-CREST (JPMJCR14L5), JST-PRESTO (JPMJPR16N8), JST-ERATO (JPMJER1903), and JSPS-WPI. The Astellas Foundation for Research on Metabolic Disorders also provided financial support.


Specially Appointed Associate Professor Tsuyoshi Mita
Institute for Chemical Reaction Design and Discovery (WPI-ICReDD)
Hokkaido University
Email: tmita[at]

Professor Satoshi Maeda
Institute for Chemical Reaction Design and Discovery (WPI-ICReDD)
Department of Chemistry, Faculty of Science
Hokkaido University
Email: smaeda[at]

Naoki Namba
Institute for International Collaboration
Hokkaido University
Tel: +81-11-706-2185
Email: en-press[at]