To remove just chemical-structures package itself from Debian 9 (Stretch) execute on terminal:
sudo apt-get remove chemical-structures
Uninstall chemical-structures and it's dependent packages
To remove the chemical-structures package and any other dependant package which are no longer needed from Debian Stretch.
sudo apt-get remove --auto-remove chemical-structures
If you also want to delete configuration and/or data files of chemical-structures from Debian Stretch then this will work:
sudo apt-get purge chemical-structures
To delete configuration and/or data files of chemical-structures and it's dependencies from Debian Stretch then execute:
sudo apt-get purge --auto-remove chemical-structures
More information about apt-get remove
apt-get remove is identical to install except that packages are removed instead of installed. Note that removing a package leaves its configuration files on the system. If a plus sign is appended to the package name (with no intervening space), the identified package will be installed instead of removed.