Visualizing Molecular Components

This option enables the display and analysis of specific elements in a molecular structure, such as atoms, residues, and chains. Users can highlight or isolate parts to better understand composition and interactions, using various representations (e.g., sticks, spheres, surfaces) for enhanced clarity. Examples are provided below.

Visualize by Structural Type:

This method highlights different structural types, including helix, sheet, turn (not helix and not sheet), all, sidechain, backbone, and polymer.

Visualize Molecules by Residue Type:

This method categorizes residues into types such as nucleophilic, hydrophobic, aromatic, amide, acidic, basic, charged, polar, nonpolar, cyclic, aliphatic, and small.

Visualize by Residue Name:

This method allows for visualization based on specific residue names, such as alanine (ala or A), arginine (arg or R), and others.

Visualize Molecules by Chain Name:

This method visualizes molecules based on their chain names, such as A, B, C, and so on.

Visualize Based on Molecule Type:

This method categorizes visualization according to molecule types, including protein, nucleic acid, DNA, RNA, hetero, ligand, ion, saccharide/sugar, polymer, and water.

Visualize by Atom Type:

This method visualizes molecules based on atom types, including carbon (C), alpha carbon (CA), oxygen (O), nitrogen (N), hydrogen, and others.

Visualize by Residue Number:

This method visualizes molecules based on specific residue numbers, such as 1, 2, 100, or ranges like 300-500.

Visualize by Model Number:

This method allows visualization based on model numbers, such as 0, 1, 2, and so on, typically used for NMR structures.