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Hello, I am Keith, one of the experts on Just Answer, and pleased to be able to help you with your question.
It is pretty simple, you just tell your VAT office and ask to de-register for VAT. You do it on line, the procedure is here in VAT Notice 700/11:
I do hope that you have found my reply of assistance.
You will have to make your peace with the Vatman. Write and explain what has happened. What happened to your accountant?
Write a letter to the VAT Office explaining the situation and telling them about your accountant's unfortunate demise and ask for advice. HMRC can, of course, cancel you registration themselves which would solve all you problems. In the circumstances HMRC are likely to waive all penalties.