Hi Gustavo,
I am glad you found a suitable solution !
Just for the record of this thread, I want to mention that around the
swapna function in Chimera a wrapper script can also be written to
process any DNA structure/sequence. We are using a self-written small
perl program that does exactly that ...
Cheers
Vlad
On 13/05/2021 20:25, Gustavo Seabra wrote:
> Hi everyone,
>
> Thanks a lot to everyone who answered, all suggestions were very good!
>
> Just to give an update, Carlos's program has the advantage of automatically
> handling a full sequence,while in Chimera (with `swapna`) I need to
> do one-by-one. I don't know PyMol enough to have an opinion.
>
> Thanks!
> --
> Gustavo Seabra.
>
>
> On Wed, May 12, 2021 at 9:01 PM Gustavo Seabra <gustavo.seabra.gmail.com>
> wrote:
>
>> Friends,
>>
>> I'm looking for a tool that allows me to, starting from a PDB file with a
>> double-strand DNA on it, mutate some nucleic acids but keeping the original
>> backbone. Extra points if it can automatically apply the complementary
>> mutations on the second strand.
>>
>> Does anyone know of such a tool?
>>
>> Thanks!
>>
>> --
>> Gustavo Seabra
>>
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--
Vlad Cojocaru, PD (Habil.), Ph.D.
-----------------------------------------------
Project Group Leader
Department of Cell and Developmental Biology
Max Planck Institute for Molecular Biomedicine
Röntgenstrasse 20, 48149 Münster, Germany
-----------------------------------------------
Tel: +49-251-70365-324; Fax: +49-251-70365-399
Email: vlad.cojocaru[at]mpi-muenster.mpg.de
http://www.mpi-muenster.mpg.de/43241/cojocaru
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Received on Fri May 14 2021 - 09:30:02 PDT
