Coot is based on the concept of molecules. Maps and coordinates are different representations of molecules. The access to the molecule is via the molecule number. It is often important therefore to know the molecule number of a particular molecule.
The Molecule Number of a molecule can be found by clicking on an atom of that molecule (if it has coordinates of course). The first number in brackets in the resulting text in the status bar and console is the Molecule Number. The Molecule Number can also be found in Display Control window (Section Display Manager). It is also displayed on the left-hand side of the molecule name in the option menus of the “Save Coordinates” and “Go To Atom” windows.