Such libraries can be used as building blocks for de novo design and build pseud-natural products that have yielded promising results of new active compounds. In previous studies, we generated, analyzed, and made publicly fragmented libraries from natural products. In the first study, an NPs-based fragment library generated from COCONUT was compared with two fragment libraries obtained from extensive collections of compounds relevant to drug discovery. The first with more than 1 million drug-like compounds tested for biological activity, represented by ChEMBL, and the second database with more than 15 million synthetically accessible yet novel molecules, represented by the drug-like set of Enamine-Real. This study found a large diversity of unique fragments derived from natural products, and that the compounds and fragments derived from natural products were the most diverse and structural complex than biological activity compounds and synthetically accessible compounds. In another study, we generated, analyzed, and made publicly available a fragment library obtained from natural products and food chemicals. In a follow up work the natural product fragments from COCONUT were used to generate a virtual focused library of HIV-1 protease inhibitors thorough de novo design. Colombia is a country with a large biodiversity of plants, with more than 28,900 species reported, distributed across all its bioregions and ecosystems. Natural products from Colombia Coffee Region (NPDBEjeCol) is a recently constructed database that contains a unique and attractive set of compounds for drug discovery. NPDBEjeCol is a collection of over 200 natural products isolated and characterized in Colombia derived from plants, specifically from the Coffee Region. NPDBEjeCol is part of a collective effort in Latin America to assemble a unified natural product database. As shown in this study, the distinctive structural features of compounds in the NPDBEjeCol database make them very attractive sources for generating fragment libraries.