In silico investigations of the natural bioactive compounds in the microalgae from mangrove tropical estuaries showed influence on heat shock protein -70 production. Incorporation of algae with such compounds in copepod high density culture might lead towards enhanced egg production. For this study, the structure of the ligands (bioactive compounds from microalgae in the region of mangrove estuary) and X-ray crystal structure of hsp-70 complex was taken from PDB (3P9Y) with its resolution 2.10 Å. The molecular docking study was performed using GOLD software. In the present study, totally ten bioactive compounds showed good molecular interaction with hsp-70 protein. Among these bioactive compounds, Quercetin from the microalga, Chlamydomonas eugametos exhibited highest molecular interaction and this compound is potential for enhancement of hsp-70 protein compared to other bioactive compounds and considered as a good nutrient enrichment for copepod culture as well as enhancement of hsp-70 protein against ROS and adverse environmental conditions. Successful high density copepod culture might lead to scaling up of hatchery rearing of marine finfish larvae.