We report the first nonperturbative calculation of proton electromagnetic form factors in the random instanton liquid model and in the interacting instanton liquid model. By calculating the ratio of appropriate three-point to two-point functions, we divide out the coupling constants and compare our results directly to some integral of the form factors. Using various parametrizations of the electric form factor ${G}_{E}{(Q}^{2})$ at large ${Q}^{2}>3.5{\mathrm{GeV}}^{2},$ where it is not yet measured, we compare those with expected theoretical dependence. We find from this comparison that some distributions of charge are clearly excluded (e.g., the same as of the magnetic moment, $\ensuremath{\mu}{G}_{E}{/G}_{M}=1,$ as well as the opposite scenario in which $\ensuremath{\mu}{G}_{E}{/G}_{M}$ rapidly approach zero), restricting possible behavior of the form factor to a rather narrow band. Furthermore, we found that our calculation of the nucleon form factors is dominated by a configuration in which two out of three quarks interact with a single instanton, in spite of the fact that the evaluated three-point function has rather large distances $(\ensuremath{\sim}1.2\mathrm{fm})$ between points. We also estimate the size of the scalar diquark and found it to be very small, comparable to the typical instanton size.
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