This is a great question. The structure of a company does have a huge bearing on motivation and productivity. If employees feel little ownership and incentive to perform well, then they will not perform well at all. In other words, if employees feel as though their level of performance does not make a difference, then there is little incentive to work harder.
In light of this, if a company structures itself in a way that acknowledges and rewards employees for a job well done, then it will motivate employees to excel. Here is an example, many companies have a bonus structure in place. If employees do well, then they will be compensated well. Other companies give stock shares to its employees. If the company does well and the shares go up, then all the employees will benefit.