Current icon is a bit small for gnome-shell overview... I have seen that Fedora is providing this bigger one (that also looks a bit more elegant to me ;) Maybe it could be considered as a replacement https://src.fedoraproject.org/cgit/rpms/pymol.git/plain/pymol.png Thanks!
commit 4252a802ac78527b992745cd631c082d7599158f Author: Justin Lecher <jlec@gentoo.org> Date: Sun Feb 12 19:35:12 2017 +0000 sci-chemistry/pymol: Update icon Gentoo-Bug: https://bugs.gentoo.org/show_bug.cgi?id=608744 Package-Manager: Portage-2.3.3, Repoman-2.3.1 Signed-off-by: Justin Lecher <jlec@gentoo.org> https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=4252a802ac78527b992745cd631c082d7599158f