Based on the existing experiment, Gaussian 03 package to study the adsorption of microscopic behavior between thiophene molecule and three transition metals as M= (Mo, Pd, Sn) were used, which combine with the quantum chemistry method and the genecp basis set. It is showed that there are many different molecular adsorb patterns between the different transition metal atoms and thiophene. The transition metal Mo is given more priority to occur the 13 and 0 adsorbing model, and the decreased energy was 328. 795 and 327. 868 kJ/mol respectively, ...