'Prajapati' is the story of Sukhen who grows up neglected to become a rough person with a heart of gold. Shikha, Sukhen's beloved wants him to lead a normal and healthy life. His elder brothers are political leaders who work only for their personal gains. His eldest brother Keshav runs a drug business behind his medical business. His second brother Purnendu is a corrupt man who kills the young maid of their house. Sukhen attempts to stop the fatal rift growing between his brothers but is killed while doing so.
Ajit, a driver, decides to take care of Chandu after an accident changes his perspective of life. He gives up everything in order to devote his time to Chandu's upbringing.
The life of Padma, a woman who is sold into prostitution by her husband, becomes worse after she is raped by a gang of men on the night of his death of cancer. However, she decides to continue living for her handicapped son.
A wealthy industrialist, despite his wealth, drinks alone at night. His wife, deprived of love, meets a past love interest, leading to unfortunate events.