http://www.imb-jena.de/cgi-bin/SCOPlnk.exe?JMOL=1mno
restrict protein;
set radius 1.0; # currently not implemented
set solvent on;
dots on;
# should generate a Connolly surface of the protein part as if alone
restrict within(4.2, ligand );
# cut the surface to show only the binding pocket
select [HEM];
wireframe 80;
select [O2];
cpk;
# some nice rendering of the ligand
select protein;
cartoon
# some rendering of the protein part
should generate a nice surface of the HEM and O2 binding pocket of the protein.
further more I cite a Jmol user who was confused about the
mesh
abstract biopolymer rendering style, which looks nice, but often he insist, mesh was a surface rendering style, InsightII, Grasp e.g.:
http://honiglab.cpmc.columbia.edu/grasp/gram_srf_bnd.html
Regards, Jan
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