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Quantum-Centric Alchemical Free Energy Calculations.

Milana Bazayeva1, Zhen Li1, Danil Kaliakin1

  • 1Center for Computational Life Sciences, Lerner Research Institute, The Cleveland Clinic, Cleveland, Ohio 44106, United States.

Journal of Chemical Theory and Computation
|June 15, 2026
PubMed
Summary

This study integrates quantum computing into alchemical free energy (AFE) predictions using a hybrid quantum-classical workflow. Configuration interaction (CI) calculations on quantum hardware improve hydration free energy predictions, showing promise for future drug discovery and biomolecular simulations.

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Area of Science:

  • Computational Chemistry
  • Quantum Computing
  • Biomolecular Simulations

Background:

  • Alchemical free energy (AFE) predictions are crucial for understanding molecular interactions.
  • Current methods often rely on classical approximations, limiting accuracy for systems with significant electronic correlation.
  • Integrating high-level electronic structure methods into AFE workflows is challenging.

Purpose of the Study:

  • To develop and validate a hybrid quantum-classical workflow for AFE predictions.
  • To incorporate configuration interaction (CI) calculations into the book-ending framework.
  • To assess the feasibility of using quantum processing units (QPUs) for accurate free energy calculations.

Main Methods:

  • Extended the book-ending framework with a hybrid quantum-classical workflow.
  • Developed an interface for CI calculations using classical (PySCF) and quantum-centric (SQD, ext-SQD) backends.
  • Computed book-ending corrections for hydration free energies (HFEs) of small organic molecules using quantum hardware.

Main Results:

  • Successfully incorporated CI-level electronic structure calculations into AFE workflows.
  • CI-corrected HFEs showed reasonable agreement with experimental values.
  • Demonstrated the feasibility of QPU-accelerated free energy predictions.

Conclusions:

  • Hybrid quantum-classical workflows can enhance the accuracy of AFE predictions.
  • Quantum hardware offers a scalable route to CI-quality electronic structure data.
  • This approach has potential applications in modeling molecular recognition, enzyme catalysis, and drug-receptor interactions.