HyperProtein combines both molecular modeling and bioinformatics for proteins. It includes most of HyperChem capability with regard to modeling proteins but adds capabilities such as sequence alignment and phylogenetic tree creation for families of proteins. The product includes many of the sequence manipualtion capabilities that other products may have but combines them with a stong multi-windowed graphical user interface that allows one-dimensional sequence information to be related to three-dimensional protein structure. It is unique in its combining of multiple bioinformatics operations and molecular modeling operations in a single graphically-oriented product.