The layout of the company is that Stark Industries has some of of the latest sites where they build various new technologies for the better future.
Tony Stark gave Spider-Man a tour around the company, showing the inventions. After that Tony Stark gave the Iron Spider Armor to him. After Living Laser hacked Iron Man's armor, he broke in the company and tried to steal the company's invention designs. But he got ambushed by Iron Spider and the other trainees and freed Iron Man from Living Laser and transported him in another reality by the molecular disruption chamber.