This probably isn't going to help you - sorry! But I have 1998 1.9tdi VW engine and there is no electric water pump, indeed I've not heard of one and can't think why one would be needed given that there is a mechanical one (you do have one don't you?) Are you sure it's water and not oil? I have heard of electric oil pumps which run on after the engine stops -I believe to help cool turbos. I would imagine they run either on a temperature sensor from the turbo or more simply for a preset time. I haven't got one of these on my engine either!
Puzzled, December 2008