Dear AMBER users,
I am modelling an O2'-methyle RNA. I loaded the all_modrna08.lib and the
all_modrna08.frcmod. Upon loading the frcmod file I get something like this:
Unknown keyword: O -C -N*-C in parameter file.
Unknown keyword: O -C -N*-C in parameter file.
Unknown keyword: O -C -NA-C in parameter file.
Unknown keyword: O -C -NA-C in parameter file.
Unknown keyword: O -C -NA-H in parameter file.
Unknown keyword: O -C -NC-C in parameter file.
Unknown keyword: O -C -OS-C in parameter file.
Unknown keyword: O -P -OS-C in parameter file.
Unknown keyword: O2-P -OS-C in parameter file.
Unknown keyword: OH-C -CT-C in parameter file.
Unknown keyword: OH-C -CT-H in parameter file.
Unknown keyword: OH-CT-C -O in parameter file.
Unknown keyword: OH-CT-CM-C in parameter file.
Unknown keyword: OH-CT-CM-H in parameter file.
Unknown keyword: OH-CT-CT-C in parameter file.
Unknown keyword: OH-CT-CT-C in parameter file.
Unknown keyword: OH-CT-CT-H in parameter file.
Unknown keyword: OH-CT-CT-H in parameter file.
Unknown keyword: OH-CT-CT-H in parameter file.
Moreover, the structure was geometrically not good and extensively folded,
and the backbone comes through some bases and I have new bonds. I tried to heat
it up, but the problem was not solved. What I have to do to solve this problem?
Thank you
Waleed
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Received on Thu Aug 19 2010 - 06:00:03 PDT
