More than a decade ago, at the end of the 80's, the different molecular modelling programs have started widely to spread. These programs use different file formats to hold the coordinate and atomic data, and each formats follows unique syntax rules, which prevents the direct transfer of the molecules between the different applications. It was a serious drawback of the early programs, but even today there is a need for the transformation of molecule files. This led to the development of the original Mol2Mol several years ago.