Holothuria scabra is one of the commercial sea cucumber species harvested in Indonesia. The objective of this study is to analyze nutritional value and heavy metals content of H. scabra collected from 4 different locations, Bungin Island (West Nusa Tenggara), Belitung Island, Lampung, and Makassar. Proximate composition, mineral, and heavy metal were analyzed by the AOAC standard method. Amino acid profiles were analyzed by UPLC, fatty acid contents were determined by GC, and vitamin were detected by HPLC. The results show that all H. scabra from different locations have high protein and low fat content. Protein content in H. scabra from Bungin Island showed the highest percentage with 6.95%. Vitamins (A, B1, and B12) and heavy metals examined in this study were not detected, while vitamin B2 from Belitung, Makassar and Lampung were 0.06 mg/100 g, 0.06 mg/100 g, and 0.04 mg/100 g respectively and vitamin E from Bungin and Belitung were 0.18 mg/100g and 0.35 mg/100g. The calcium content was higher than other minerals followed by sodium. Total 18 amino acids were identified where glycine was the major constituent (5798.80–16789.18) mg/kg). In the case of fatty acids, omega-6 from Bungin Island and Makassar were the major constituent with 0.1834 % and 0.1377 %. Meanwhile, omega-9 from Belitung Island and Lampung were the major constituent with 0.2466 % and 0.1773 %. Therefore, it could be inferred that the sea cucumber H. scabra from all sampling locations is safely to consume and could be utilized as a source of functional food in the future.