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What is a protonation?

What is a protonation? Here are some definitions.

Noun
  1. (chemistry) the addition of a proton (hydrogen ion) to an atom, molecule or ion, normally to generate a cation
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Examples
This implies that chromophore protonation precedes the exposure of hydrophobic surface.
The protonation of amino acid side chains was supposed to cause the reorganization of the native state into the so-called A-state.
Protic eutectic ILs that is a protic eutectic mixture of hydrochloride salts and complexing agents produced via protonation and complexation.
However, the protonation of the substance was not accounted for during categorization.
Very few porphyrins are known to form J-aggregates, the main requisite being the zwitterionic character with the protonation of the pyrrole nitrogen in the macrocycle.
The protonation state of the catalytic aspartates was determined theoretically.

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