In particular, such NCs present molar absorption coefficients similar to those of MALDI matrices (compare Tables and). Thus, following laser irradiation, the internal energy in protein-templated metal nanoclusters is certainly higher than for bare proteins. This higher internal energy in the system may open new channels, in particular extensive fragmentation. We also reported in this study a strong matrix effect on the fragmentation in protein-templated metal nanoclusters. In particular, CHCA matrix lead to the observation of the stronger reduction of the average number of metal atoms in NCs. This effect might be related to the very high molar absorption coefficients at 355 nm as compared to DHB and SA matrices. Also, we cannot exclude a matrix-dependent specific interaction with metal nanoclusters, probably related to crystallization/desolvation processes issues, facilitating energy transfer process.