The proposed structures of (–)‐protubonine A and (–)‐protubonine B, which are pyrrolidinoindoline diketopiperazine alkaloids that were isolated from the marine‐derived fungus Aspergillus sp. SF‐5044, have been synthesized and correspond to diastereomers of the natural isolates. The total syntheses, herein, established the stereostructures of the alkaloids as the C‐11 epimers of the purported structures.