Marcus,
Here is one way (courtesy Kyle Lassila):
Check out VOIDOO:
http://xray.bmc.uu.se/usf/voidoo.html
Then:
Use VOIDOO to make a map of the cavity. That gives a
map in one of the electron density formats, .ezd. Then use MAPMAN (also
found as Uppsala Software Factory) to
convert to
Anyone who works with nucleic acids will certainly prefer the current
situation. From the PDB format guidelines:
* The asterisk (*) is used in place of the prime character (')
for naming atoms of the sugar group. The prime was avoided historically
because of non-uniformity of its external
9.752 1.00 10.35 C
ATOM 93 C SER A 13
1.623 10.233 19.278 1.00 9.48 C
ATOM 94 O SER A 13
1.775 10.681 18.144 1.00 10.31 O
As far as I can tell it only happens with those sidechains with
multiple conformations. Anyone else have this problem? Is there a
quick fix?
Pymol 0.93 on Fedora Core 1.
Th
