Proteins are the main building blocks of all living organisms. The important parts of them are secondary structure elements (SSEs). Molecules or ions can attach to proteins. They are called protein ligands or ligands. Ligands are in the external space near the protein or in cavities inside the protein. The protein cavities are called tunnels.
The visualization of protein domain secondary structure via a 2D diagram of SSEs is realized by the 2DProt tool. The 2DProts diagram database generated by the 2DProt tool contains 2D SSEs diagrams for protein domains and protein families from CATH. This database is hosted on https://2dprots.ncbr.muni.cz.
The new version of the 2DProt tool enables us to create diagrams for protein families and protein domains that contain ligand and tunnel structures as well. 
The thesis aims to design web pages that show diagrams generated by a new version of 2DProt containing SSEs, ligands, and tunnels of protein in one diagram. This new version should enable users to show/hide some types of elements. The web pages should enable users to interactively show detailed information about protein elements as well.

Objectives: 
Design and implement a web pages for proteins, domains, families, and clusters: 

• Proteins, domains,  families, and clusters web pages show individual types of elements or their combinations (ligands, tunnels, SSEs, average SSEs).
• Proteins and domains web pages show details about individual elements (ligands, tunnels, SSEs).