In the present work, the MeOH extract from stem barks of Calophyllum brasiliense Cambess. (Clusiaceae) displayed activity against amastigote forms of Trypanosoma cruzi and Leishmania infantum and was subjected to a bioactivity-guided fractionation to give two structurally related coumarins -calanolides E1 (1) and E2 (2). Compounds 1 and 2 were lethal to T. cruzi with EC 50 values of 12.1 and 8.2 μM, respectively. When tested against L. infantum, the EC 50 values were 37.1 and 29.1 μM, respectively. Compound 2, corresponding to anti isomer, showed the best selectivity index (SI) with values > 24.4 to T. cruzi and > 6.9 to L. infantum in comparison to the syn isomer 1. Furthermore, using an in silico multi-parametric prediction, both compounds did not contain any PAINS substructures. Therefore, these data suggest that related coumarins 1 and 2 may contribute as scaffolds for the design of novel drug candidates for leishmaniasis and Chagas disease.