[Chimera-users] Command line syntax questions

Nabil Abid nabilabidbensalem.2014 at yahoo.fr
Thu May 31 13:20:51 PDT 2018


Hi all,As mentioned you can use pdb Editor to change the residue numbers.

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  On Thu, May 31, 2018 at 9:03 PM, Elaine Meng<meng at cgl.ucsf.edu> wrote:   Hi Divita,
I believe you just have to text-edit the PDB file to change the residue number if other atoms already have that same residue number.  As you said, “bond” only adds the bond without changing any numbering.
Best,
Elaine
-----
Elaine C. Meng, Ph.D.
UCSF Chimera(X) team
Department of Pharmaceutical Chemistry
University of California, San Francisco

> On May 31, 2018, at 8:42 AM, Divita Mathur, Contractor Code 6910, FN <divita.mathur.ctr.in at nrl.navy.mil> wrote:
> 
> Hi Elaine
> 
> Thank you for your response. I am using the bond function to bind a molecule to DNA. But the bond function is not changing the residue number of the new molecule (which has a residue number 1), which is causing issues (as there is base #1 in the DNA). So far I am editing the pdb file as a text document like you said, but I was just wondering if there was another way.
> 
> Thank you, again! The Split function is working for me!


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