Om,

I have a south facing home where in the north east corner there is a toilet can I reconstruct a pooja room there by demolishing the toilet

Naveen

Please clarify your question

Does a pooja room require a northeast orientation?
I see no reason why you can't remove the toilet, if you know how to cap the plumbing.

joypulv is right.

U can make that area a pooja room but will have to cap the waste line for the toilet.

The water line can be left but cap the outlet of valve so it does not get turned on by mistake.

Chuck