Yes, I think this qualifies, just like Greens -- an outstanding restaurant, beautiful bay views and very close to the water. However, it's a big restaurant and relatively few tables have that view.

http://www.boulevardrestaurant.com/gallery_int.html
(click on the photo of the Bay Bridge)

Before dinner, you could stroll along the Embarcadero, and visit the Ferry Building.
http://www.ferrybuildingmarketplace.com/