| BP86 | GGA functional with Becke exchange and Perdew correlation |
| B3PW91 | Hybrid functional with Becke exchange and Perdew Wang correlation |
| COSMO | Conductor-like Screening Model for solvation |
| Cys | Cysteine |
| DFT | Density Functional Theory |
| DHA | Dehydroalanine |
| GAPDH | Glyceraldehyde 3-phosphate dehydrogenase |
| GGA | Generalized Gradient Approximation |
| GPx | Glutathione Peroxidase |
| GTO | Gaussian Type Orbital |
| IMPase | Inositol MonoPhosphatase |
| OLYP | GGA functional with OPTX exchange and LYP correlation |
| OPBE | GGA functional with OPTX exchange and PBEc correlation |
| D3(BJ) | Dispersion correction (D3) by Grimme with damping function |
| HOMO | Highest Occupied Molecular Orbital |
| LUMO | Lowest Unoccupied Molecular Orbital |
| MeCys | Methyl Cysteine |
| MEP | Molecular Electrostatic Potential |
| MPn | Møller Plesset perturbative method of order n |
| MeSec | Methyl Selenocysteine |
| NMR | Nuclear Magnetic Resonance |
| PC | Product Complex |
| PCM | Polarizable Continuum Model |
| PES | Potential Energy Surface |
| QCISD(T) | Quadratic Configuration Interaction with Single Double (Triple) excitations |
| QM | Quantum Mechanics |
| QZ4P | uncontracted set of Slater-type orbitals of quadruple-ζ quality, augmented with four sets of polarization functions per atom |
| RC | Reactant Complex |
| SAPE | Solvent Assisted Proton Exchange |
| Sec | Selenocysteine |
| S-GPx | Sulfur mutant of glutathione peroxidase |
| SMD | Solvation Model based on Density |
| STO | Slater Type Orbital |
| Tec | Tellurocysteine |
| Te-GPx | Tellurium mutant of glutathione peroxidase |
| TS | Transition State |
| TZP | uncontracted set of Slater-type orbitals of triple-ζ quality, augmented with one set of polarization functions per atom |
| TZ2P | uncontracted set of Slater-type orbitals of triple-ζ quality, augmented with two sets of polarization functions per atom |
| XC | Exchange- Correlation |
| ZORA | Zeroth Order Regular Approximation |