IncludeWaters

is an option that specifies whether disconnected water molecules should be included in the results.

Details

IncludeWaters is an option for functions such as BioMoleculePlot3D and MoleculeMesh.
Crystal structures for large biomolecules often contain water molecules that are not bonded directly to the biomolecule. Since hydrogen atoms are too small to be detected, the waters in a crystal structure only show the position of the oxygen atoms. It is often useful to exclude them during visualization.

Make a 3D plot of the small protein crambin:

Visualize the same protein including the waters:

Top