We studied a 3-compartment dynamic model of talaporfin sodium pharmacokinetics in silico. Drug distribution might change after intravenous injection from plasma to interstitial space and then into myocardial cells. We have developed a new cardiac ablation using photosensitization reaction with laser irradiation shortly after talaporfin sodium injection. We think that the major cell-killing factor in our cardiac ablation would be an oxidation by singlet oxygen produced in the interstitial space in myocardium with laser irradiation shortly after the photosensitizer administration. So that the talaporfin sodium concentration change in time in the interstitial space should be investigated. We constructed the pharmacokinetics dynamic model composed by 3-compartments, that is, plasma, interstitial space, and cell. We measured talaporfin sodium fluorescence time change in human skin by our developed fluorescence measurement system in vivo. Using the measured concentration data in plasma and skin in human, we verified the calculation accuracy of our in silico model. We compared the simulated transition tendency of talaporfin sodium concentration from interstitial space to cells in our in silico model with the reported uptake tendency using cultured myocardial cell. We identified the transition coefficients between plasma, interstitial space, and cell compartment, and metabolization coefficient from plasma by the fitting with measured data.