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We used VOIDOO recently and it worked well Kleywegt, G. J. & Jones, T. A. (1994). Detection, delineation, measurement and display of cavities in macromolecular structures. Acta Crystallogr. D Biol. Crystallogr. 50, 178-185. On Thu, May 31, 2012 at 12:41 PM, Zhou, Tongqing (NIH/VRC) [E] <[log in to unmask]> wrote: > Dear All, > > > > I am looking for a way to calculate the size of a protein cavity which is > occupied by a loop from a ligand protein. The goal is to see what’s the > maximum length of peptide allowed in this cavity. > > > > Thanks, > > > > Tongqing > > > > Tongqing Zhou, Ph.D. > > Staff Scientist > > Structural Biology Section > > Vaccine Research Center, NIAID/NIH > > Building 40, Room 4609B > > 40 Convent Drive, MSC3027 > > Bethesda, MD 20892 > > (301) 594-8710 (Tel) > > (301) 793-0794 (Cell) > > (301) 480-2658 (Fax) > > ****************************************************************************** > > The information in this e-mail and any of its attachments is confidential > and may contain sensitive information. It should not be used by anyone who > is not the original intended recipient. If you have received this e-mail in > error please inform the sender and delete it from your mailbox or any other > storage devices. National Institute of Allergy and Infectious Diseases shall > not accept liability for any statements made that are sender's own and not > expressly made on behalf of the NIAID by one of its representatives. > > ****************************************************************** > >