AMBER Archive (2009)

Subject: [AMBER] Re: Residues

From: KIRTANA S (skirtana4_at_gmail.com)
Date: Fri Jun 12 2009 - 20:15:20 CDT

Hi ,

Need suggestion,as I am facing the following issue :To be of my effort have
put the scenerios as Below

I have attached my .pdb and library files too.To make the connectivity using
xleap I need to bring three residues into the same sequence.
U1=sequence{t1 t2 t3 t3 t3 }
Here it automatically makes the connectivity with the head and tail only
.Though I specify
set t2.1 connect2 t2.1.O3
Where t2 is my residue to connect to three t3 residues at different branches
.And another thing is how should I parametrize the new connectivity so made.
Any suggestion is highly appreciated .

Thanks and Regards
Kirtana



  • chemical/x-pdb attachment: t2.pdb

  • chemical/x-pdb attachment: t2.pdb

  • chemical/x-pdb attachment: t3.pdb

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