Molecular descriptor is a result of standardized numerical calculation from logical and mathematical interpretation of chemical information, such as chemical formula, molecular structure, interaction and etc., from a molecule. [Roberto Todeschini and Viviana Consonni, “Handbook of Molecular Descriptors”, Wiley-VCH, 2000] In this section, the methods and definitions of calculating molecular descriptors are introduced. PreADMET supports 2D molecular descriptors and/or 3D molecular descriptors due to its input.
Theoretical molecular descriptor are categorized into the following categories.
Constitutional descriptors | |
No. of atoms, No. of bonds, Molecular weight, the number of rotatable bonds, the number of H bond acceptors/donors etc. | |
Topological descriptors | |
wiener index, connectivity indices, valence connectiviry indices, kappa shape indices, kappa alpha indices, balaban indices etc. | |
Lipophilic descriptors | |
Ocatanol-water partition coefficient (ClogP, AlogP, XlogP etc.), logD etc. | |
Geometrical descriptors | |
moments of inertia distance relateddescriptors surface area relateddescriptors (polar surface area, van der Waals surface area etc.) volume relateddescriptors etc. (van der Waals volume, solvent accessible volume etc.) |
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Electronic descriptors | |
partial charge(Zefirov, Delphi, Gasteiger-Marsili method), palarity parameter, Apol(sum of atomic polarizabilities), dipole moment, HOMO, LUMO etc. | |
Thermodynamic descriptors | |
Hf(Heat of formation), molar refractivity etc. | |
Otherdescriptors | |
conformational descriptors, quantum chemical descriptors, receptor descriptors, molecular field analysis(MFA) descriptors, receptor surface analysis(RSA) descriptors, molecular shape analysis(MSA) descriptors etc. |