[AMBER] why removal of terminal phosphate group is required?

From: Asmita Gupta <asmita4des.gmail.com>
Date: Mon, 17 Dec 2012 11:52:39 +0530

Dear users,

  It is usually suggested that while preparing a nucleic acid system for
simulation, 5' terminal phosphate group must be removed; or any terminal
charged phosphate group should be removed...

Can you please explain why it should be like that??
If i am extracting a small RNA helix from a large molecule e.g. ribosomal
RNA, do i have to still remove those flanking phosphate groups?

Asmita
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Received on Sun Dec 16 2012 - 22:30:05 PST
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