The Synthesizability Gap Has Moved: Route Existence Is Not Chemistry

Abstract Synthesis-constrained generative models now guarantee that every proposed molecule carries a route to purchasable building blocks, and recent campaigns have carried such designs to synthesized, biologically active compounds. I argue that this genuine success has relocated the synthesizability gap rather than closed it: a route a planner certifies is not yet chemistry a bench reproduces. Three deficits persist─stereochemical settability, chemoselectivity and functional-group tolerance, and a novelty tax that returns constrained generators to flat, amide- and biaryl-rich space─and none is a search problem. I propose that molecular design needs for synthesis what PoseBusters supplied for docking: a cheap, standardized chemistry-validity layer that scores routes rather than molecules and reports executed make-rate as the headline result.

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Publication Details

Journal
Journal of Chemical Information and Modeling
Published
2026-09-16
DOI
https://doi.org/10.1021/acs.jcim.6c02895
Primary Topic
Chemical Synthesis and Analysis
Type
article
Field-Weighted Citation Impact
0.00
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article

The Synthesizability Gap Has Moved: Route Existence Is Not Chemistry

Ahmed Elshewy
Journal of Chemical Information and Modeling
Chemical Synthesis and Analysis
article

The Synthesizability Gap Has Moved: Route Existence Is Not Chemistry

Ahmed Elshewy
article en

Abstract

Abstract Synthesis-constrained generative models now guarantee that every proposed molecule carries a route to purchasable building blocks, and recent campaigns have carried such designs to synthesized, biologically active compounds. I argue that this genuine success has relocated the synthesizability gap rather than closed it: a route a planner certifies is not yet chemistry a bench reproduces. Three deficits persist─stereochemical settability, chemoselectivity and functional-group tolerance, and a novelty tax that returns constrained generators to flat, amide- and biaryl-rich space─and none is a search problem. I propose that molecular design needs for synthesis what PoseBusters supplied for docking: a cheap, standardized chemistry-validity layer that scores routes rather than molecules and reports executed make-rate as the headline result.

Journal of Chemical Information and Modeling
Cairo University (EG)
Openalex Percentile: Top 18%
Chemical Synthesis and Analysis
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