Stamp duty & registration query

I have purchased house in the year 2011 and I have the Resale Agreement. I have paid the stamp Duty and other legal charges related to the purchase. However , I was a second purchaser of the property, the person from whom I have purchased the house have not given me the original agreement i.e. First Agreement he have received from the builder in year 1989. Later on we inquired for the same and we came to know the same is been lying at Registration Office. I Went to get my agreement and the officers working there have notified me that the stamp duty for the same is not paid. So I need to know whether can an individual can register a property without paying stamp duty ? and If so I am Ready to pay the stamp duty along with the penalties and interest.