Hey Bipin
Thanks. yes, I have calculated the native contacts as well as the fraction
of native contacts using the vmd extension earlier.
so, now I need to compare the two contact matrices? ( one of native and
the other after 200ns)
as in superimpose or just by observing?
Thanks
On Wed, Jan
Hey Bipin
Thanks. yes, I have calculated the native contacts as well as the fraction
of native contacts using the vmd extension earlier.
so, now I need to compare the two contact matrices? ( one of native and
the other after 200ns)
as in superimpose or just by observing?
Thanks
On Wed, Jan
Once you identify the number and identity of the non-native contacts (after
comparing the two matrices), then you can extract the probability of their
formation from your trajectory.
On Mon, Jan 20, 2014 at 8:23 PM, suhani nagpal suhani.nag...@gmail.comwrote:
okay.
Basically i want to make a
First define and calculate the native contacts (contacts which were present
in native reference structure and exist for significant amount of time
during simulation). Then you can identify the contacts which exist for
significant amount of time but were not present in native reference
structure
Hi,
I have never done this before. But is this a possibility?
http://www.pymolwiki.org/index.php/Contact_map_visualizer
On Wed, Jan 15, 2014 at 8:41 PM, bipin singh bipinel...@gmail.com wrote:
Hello Dr. Justin,
Yes, there is no in-built module in Gromacs to get the information about
native
