Dear Jorge,
recently I saw an interesting paper that might help you to do exactly
what you need: Bioinformatics doi: 10.1093/bioinformatics/bty347.
BW,
Oliviero
On 28.08.2018 15:03, Jorge Iulek wrote:
> Dear all,
>
>
> I am working currently on a structure that, nicely, presents two
> different orientations between its domains when one compares monomers
> of the tetramer in the asymmetric unit.
>
> I notice, in this nature gift, that a helix, probably central (in
> its role) for the relation (orientation) between the two domains,
> assumes different relation to other one (helix, that belongs to one of
> the domains) such that they are (significantly) more or less
> "coiled-coiled"one to another, once the domains are in the "close" or
> "open" conformation. We have already analyzed the hydrogen bonds and
> salt bridges that are disrupted (or formed) due to the different
> (domain and helix) conformations.
>
> I wonder whether there is a metric (easy to evaluate) to
> characterize how much the two helix are "around each other" (id est,
> how much "coiled-coiled" they are) and, preferably, a software to
> calculate this metric.
>
> Thank you,
>
>
> Jorge
>
> State University of Ponta Grossa
>
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