Answers
If you withdraw the deposit, you will lose the residence permit.
Regarding the option of a deposit of at least 400,000 euros in a domestic credit institution, the duration is set at least annually, with a standing renewal order onwards. Every change in the investment has to be announced to the Ministry of Development within two months. For the renewal of the related residence permit, the investor also requires to submit a recent certification as to the holding of this one investment as above. So the duration of the residence permit is depending on the fact that you keep the initial investment deposited.
Termed deposit of a minimum amount of 400,000 euros must be made at a domestic credit institution of at least a one-year duration, with a standing order for renewal. As long as the deposit lasts, you are still qualified for permanent residency in Greece.