Widespread Misinterpretation of p <i>K</i> <sub>a</sub> Terminology for Zwitterionic Compounds and Its Consequences
The acid dissociation constant (p<i>K</i><sub>a</sub>), which quantifies the propensity for a solute to donate a proton to its solvent, is crucial for drug design and synthesis, environmental fate studies, chemical manufacturing, and many other fields. Unfortunately, the terminology used for describing acid-base phenomena is sometimes inconsistent, causing large potential for misinterpretation. In this work, we examine a systematic confusion underlying the definition of "acidic" and "basic" p<i>K</i><sub>a</sub> values for zwitterionic compounds. Due to this confusion, some p<i>K</i><sub>a</sub> data are misrepresented in data repositories, including the widely used and highly trusted ChEMBL database. Such datasets are frequently used to supply training data for p<i>K</i><sub>a</sub> prediction models, and hence, confusion and errors in the data make the model performance worse. Herein, we discuss the intricacies of this issue. We make suggestions for describing acid-base phenomena, training p<i>K</i><sub>a</sub> prediction models, and stewarding p<i>K</i><sub>a</sub> datasets, given the high potential for confusion and potentially high impact in downstream applications.
Authors
- William H. Green (ORCID: https://orcid.org/0000-0003-2603-9694)
- Jonathan W. Zheng (ORCID: https://orcid.org/0000-0002-4863-1325)
- Ivo Leito (ORCID: https://orcid.org/0000-0002-3000-4964)
Institutions
- University of Tartu (EE)
- Massachusetts Institute of Technology (US)
Publication Details
- Journal
- Journal of Chemical Information and Modeling
- Published
- 2024-11-19
- DOI
- https://doi.org/10.1021/acs.jcim.4c01420
- Citations
- 2
- Primary Topic
- Computational Drug Discovery Methods
- Type
- article
- Field-Weighted Citation Impact
- 0.72
Funders
- Eesti Teadusagentuur