You could test each organ or body site for the mRNA for the protein using qPCR.

 Sree,

There are number of ways of getting the information. To some degree, it depends on the protein(s) of your interest and their abundance. Ideally, you would attempt to detect protein(s) in each organ/tissue that interests you.

You can probably begin with literature survey, including databases which already have information about expression of many proteins in a variety of tissues.

[By the way, I enjoyed my time at your institute in the previous century!] 

Here's some supplements to other comments.

If your protein of interest is human protein, you may find "Human Protein Atlas" informative.  Even if you protein of interest is not human protein, you may get some idea.

http://www.proteinatlas.org