VMD-L Mailing List

From: Yongmei Wang (yongmei_at_ncat.edu)
Date: Wed Apr 16 2003 - 17:08:15 CDT

I have a pdb file that contains only the P atoms of RNA, but the residue
sequence has insertion. residue sequence would have something like: 10, 10A,
10B, 10C,... WHen I do trace, it does not connect the P atoms on 10, 10A,
10B, 10C,... It only connects residue sequence like 7,8,9,10.

Is there anyway I can fix its connection?

The strange thing is when I have full coordinates for the nuecleotides (i
have coordinates for all atoms in a nucleotide), this time even though the
residue sequence still has insertion like: 10, 10A, 10B, 10C..but when I ask
it to trace, it will connect P atoms on 10,10A, 10B, 10C... no breaking.

I just want to fix the connection between these inserted residues when I
only have P atoms of the residue.

Anyone can help me?

Thanks
Yongmei