[Chimera-users] force field for G-quadruplexes

Gilmar Salgado gfjsalgado at gmail.com
Thu Jul 4 00:56:15 PDT 2013

recently I was looking into the capabilities of Chimera minimization tools
to minimize the structure of a DNA G-quadruplex molecule.
The problem is that all G-quadruplexes have an ion (K+ or Na+) in-between
and stabilizing the tetrads. I wonder if the force field available in
chimera are "decent" to water-minimize this kind of structures? ...and
which one is more adapted, after all those are non-conventional DNA
Thanks in advance for your input

Gilmar Salgado

Université Segalen
Laboratoire ARNA (INSERM U869)
Institut Européen de Chimie et Biologie
2 rue Robert Escarpit
33 076 Pessac Cedex
+33(0) 540 0022 24
+33(0) 557 571 015 (fax)
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