[gmx-users] single strand DNA in hairpin conformation

[Erik Marklund]

Dear Ursula,

Try macromolecular builder. It will require a bit of work, essentially building a helix with an unstructured loop that you relax according to a potential function.

Kind regards,
Erik


Erik Marklund, PhD
Postdoctoral Research Fellow, Fulford JRF

Department of Chemistry
Physical & Theoretical Chemistry Laboratory
University of Oxford
South Parks Road
Oxford
OX1 3QZ

On 12 Feb 2015, at 13:02, Urszula Uciechowska <urszula.uciechowska at biotech.ug.edu.pl<mailto:urszula.uciechowska at biotech.ug.edu.pl>> wrote:

Hi gromacs users,

Does anyone know how to build a ssDNA in hairpin conformation?
Does anyone know maybe other free software where I could do this?

Thank you in advance for any suggestions

Best regards
Urszula

University of Gdansk and Medical Univesity of Gdansk
Department of Molecular and Cellular Biology
ul. Kladki 24
80-822 Gdansk
Poland


-----------------------------------------
Ta wiadomość została wysłana z serwera Uniwersytetu Gdańskiego
http://www.ug.edu.pl/

--
Gromacs Users mailing list

* Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before posting!

* Can't post? Read http://www.gromacs.org/Support/Mailing_Lists

* For (un)subscribe requests visit
https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or send a mail to gmx-users-request at gromacs.org.