3D Mol Viewer

About the tool

Visualization is a key aspect of molecular modeling. It helps to understand the structure of molecules and their properties.

Many of the popular tools for 3D molecular visualization are not free or not available in the browser, or both. This is why I've created this online tool.

You can use this tool to open PDB files on your computer and view them in 3D. The tool uses Three.js to render the 3D scene in the browser.

Demo

See also

• PDB Editor - Edit PDB files online.
• PDB to FASTA - Extract protein/nucleotide sequences from PDB files.
• RDKit WASM - Running RDKit in the browser with WebAssembly.
• Awesome cheminformatics - A curated list of awesome cheminformatics resources.
• Cheminformatics Crossword - A daily crossword puzzle for cheminformatics terms.
• Organic chemistry pronunciation guide - A pronunciation guide for organic chemistry terms.
• IUPAC Multiplicative Prefix Generator - Generate IUPAC multiplicative prefixes for naming chemical compounds.
• IUPAC to Structure - Convert IUPAC names to 2D structures.
• Canonical SMILES Generator - Convert a SMILES string to its canonical (kekulized) form.
• SMILES Parse Tree Viewer - Visualize the parse tree of a SMILES string.
• SMILES to Structure - Convert SMILES (simplified molecular-input line-entry system) to a structure online.
• SMILES to Structure API - A web service for converting SMILES (simplified molecular-input line-entry system) to MOL.
• Awesome SMILES - A curated list of awesome resources on SMILES (simplified molecular-input line-entry system).
• SMILES to IUPAC - Convert SMILES to IUPAC name online.
• IUPAC to SMILES - Convert IUPAC names to SMILES strings.
• SMILES to InChI - Convert SMILES to InChI string online.
• InChIKey to SMILES - An online tool for converting (resolving) InChIKeys to SMILES strings.
• Structural Formula Viewer - View structural formulas of chemical compounds.
• Working with ChemDraw JS - ChemDraw JS makes it possible to create, view, and edit chemical structures in the browser.
• Awesome ChemDraw - A curated list of awesome ChemDraw resources, tutorials, and more.
• Mol Editor - An online editor for Mol files.
• Molecule of the Day - Discover a new molecule every day.
• Chemical kerning - Improving the appearance of chemical structures by carefully adjusting the spacing between atoms and bonds.
• Periodic Table - View the periodic table of the elements.
• Supramolecular chemistry pronunciation guide - A pronunciation guide for terms in supramolecular chemistry.
• Chemical elements pronunciation guide - A pronunciation guide for chemical elements.
• Big Chemical Structures - A book of chemical structures presented in a big format.
• Big Chemical Elements - A book of chemical elements presented in a big format.
• Biochemistry pronunciation guide - A pronunciation guide for biochemistry terms.