“… - Three model S N 2 Cl-substitution reactions, with methyl chloride (Cl + CH 3 Cl → ClCH 3 + Cl, six atoms, labeled ‘S N 2, C1’), α-chlorotoluene (‘S N 2, Ar1′, 16 atoms), and an α-chlorotoluene derivative consisting of five additional phenyl rings (‘S N 2, Ar6′, 66 atoms) . As the S N 2 reactions are symmetric, we only consider half of the reaction (TS to product) when constructing the X true matrix.
- Three hydrogen atom transfer reactions – CF 3 CH 3 + OH → CF 3 CH 2 + H 2 O, C 6 H 6 + CH 3 /C 2 H 5 → C 6 H 5 + CH 4 /C 2 H 6 , consisting of 10, 16, and 19 atoms, respectively.
- An example of metal–ligand cooperative homogeneous catalysis, in which the reaction step of isopropyl alcohol oxidation consists of concerted hydride transfer to the Ir metal center and proton transfer via solvent-assisted proton shuttle to the ligand (Ir catalysis, 46 atoms) . This is by far the most complex reaction we could identify with the most number of internal degrees of freedom changing significantly over the course of the reaction step.
- A proton transfer step in the oxidation of methylamine by methylamine dehydrogenase (MADH, 64 atoms)
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