Software tools and databases to view molecules.

POLYVIEW-MM
Web

POLYVIEW-MM

Integrates high-quality animation of molecular motion (MM) with structural and…

Integrates high-quality animation of molecular motion (MM) with structural and functional analysis of macromolecules.

mmView
Web
Desktop

mmView

A web-based application which allows to comfortably explore the structural data…

A web-based application which allows to comfortably explore the structural data of biomacromolecules stored in the mmCIF format. The mmView software system is primarily intended for educational…

ChemBioServer
Web

ChemBioServer

A publicly available web application for effectively mining and filtering…

A publicly available web application for effectively mining and filtering chemical compounds used in drug discovery. ChemBioServer provides researchers with the ability to (i) browse and visualize…

chemfig
Desktop

chemfig

A TeX package for drawing molecules. chemfig allows user to draw molecules…

A TeX package for drawing molecules. chemfig allows user to draw molecules using the tikz package. While the diagrams produced are essentially 2-dimensional, the package supports many of the…

LeView
Desktop

LeView Ligand Environment Viewer

Generates 2D diagrams of biomacromolecule/ligand interactions. LeView produces…

Generates 2D diagrams of biomacromolecule/ligand interactions. LeView produces customised and high-quality figures, with a good compromise between a faithful representation of the 3D data (structures…

Molecule World
Desktop
Mobile

Molecule World

An application to explore thousands of biological and chemical structures…

An application to explore thousands of biological and chemical structures easily on an iPad. Molecule World permits to view and manipulate chemical structures, sequences and structures of proteins…

BALLView
Desktop

BALLView

A molecular viewer and modelling framework. BALLView combines state-of-the-art…

A molecular viewer and modelling framework. BALLView combines state-of-the-art visualization capabilities with powerful modelling functionality including implementations of force field methods and…

Molsketch
Desktop

Molsketch

A 2D molecular editing tool. Molsketch helps users to draw molecules quickly…

A 2D molecular editing tool. Molsketch helps users to draw molecules quickly and easily. It opens, saves and imports files in all formats supported by the OpenBabel(tm) library. Creations can be…

ProteinVis
Desktop

ProteinVis

A visualization tool which supports fast rendering of proteins in different…

A visualization tool which supports fast rendering of proteins in different molecular representations. For the primary structure representations, the spherical element is applied to the space-fill…

NGL Viewer
Web

NGL Viewer

A web application for the visualization of macromolecular structures. By fully…

A web application for the visualization of macromolecular structures. By fully adopting capabilities of modern web browsers, such as WebGL, for molecular graphics, the viewer can interactively…

3Dmol.js
Desktop

3Dmol.js

A modern, object-oriented JavaScript library that uses the latest web…

A modern, object-oriented JavaScript library that uses the latest web technologies to provide interactive, hardware-accelerated three dimensional representations of molecular data without the need to…

POLYVIEW-3D
Web

POLYVIEW-3D

A tool for protein structure analysis, with the focus on annotation and…

A tool for protein structure analysis, with the focus on annotation and visualization of protein complexes.

QuteMol
Desktop

QuteMol

An open source (GPL), interactive, high quality molecular visualization system.

An open source (GPL), interactive, high quality molecular visualization system.

RasMol
Desktop

RasMol

An interactive molecular graphics program, for the display of biomolecular…

An interactive molecular graphics program, for the display of biomolecular structures.

YASARA
Desktop

YASARA

A molecular graphics, modeling and simulation program.

A molecular graphics, modeling and simulation program.

Zeus
Desktop

Zeus

A molecular visualization tool that supports PDB, MOL, MOL2/SYBYL and XYZ file…

A molecular visualization tool that supports PDB, MOL, MOL2/SYBYL and XYZ file formats.

Molecules
Desktop

Molecules

An application for the iPhone, iPod touch, and now iPad that allows you to view…

An application for the iPhone, iPod touch, and now iPad that allows you to view three-dimensional renderings of molecules and manipulate them using your fingers.

MolScript
Desktop

MolScript

A program for displaying molecular 3D structures, such as proteins, in both…

A program for displaying molecular 3D structures, such as proteins, in both schematic and detailed representations.

PocketMol
Desktop

PocketMol

Allows you to view and manipulate Protein Data Bank (pdb) files on a PocketPC.

Allows you to view and manipulate Protein Data Bank (pdb) files on a PocketPC.

POLYVIEW-2D
Web

POLYVIEW-2D

It can be used to generate amino acid sequence annotations, such as secondary…

It can be used to generate amino acid sequence annotations, such as secondary structure, relative solvent accessibility, evolutionary conservation, and physico-chemical property profiles.

PMV
Desktop

PMV Python Molecular Viewer

A powerful molecular viewer that has a number of customizable features and…

A powerful molecular viewer that has a number of customizable features and comes with many pluggable commands ranging from displaying molecular surfaces to advanced volume rendering.

ZMM
Desktop

ZMM

A molecular modeling program for theoretical studies of systems of any…

A molecular modeling program for theoretical studies of systems of any complexity: small molecules, peptides, proteins, nucleic acids, and ligand-receptor complexes.

BioBlender
Desktop

BioBlender

A software package built on the open-source 3D modeling software.

A software package built on the open-source 3D modeling software.

BRAGI
Desktop

BRAGI

A package for viewing and modeling of three-dimensional (3D) structures of…

A package for viewing and modeling of three-dimensional (3D) structures of biological macromolecules.

CmME
Desktop

CmME CELLmicrocosmos MembraneEditor

Generates heterogeneous PDB-based membranes with varying lipid compositions and…

Generates heterogeneous PDB-based membranes with varying lipid compositions and semi-automatic protein placement.

CrystalMaker
Desktop

CrystalMaker

A program for building, displaying, manipulating and animating all kinds of…

A program for building, displaying, manipulating and animating all kinds of crystal & molecular structures.

ePMV
Desktop

ePMV embedded Python Molecular Viewer

An open-source plug-in that runs molecular modeling software directly inside of…

An open-source plug-in that runs molecular modeling software directly inside of professional 3D animation applications (hosts) to provide simultaneous access to the capabilities of these newly…

iMol
Desktop

iMol

A free molecular visualization application for Mac OS X operating system.

A free molecular visualization application for Mac OS X operating system.

Molekel
Desktop

Molekel

An open-source multi-platform molecular visualization program.

An open-source multi-platform molecular visualization program.

Raster3D
Desktop

Raster3D

A set of tools for generating high quality raster images of proteins or other…

A set of tools for generating high quality raster images of proteins or other molecules.

RasTop
Desktop

RasTop

A molecular graphics program intended for the visualisation of proteins,…

A molecular graphics program intended for the visualisation of proteins, nucleic acids and small molecules based on the popular Rasmol software. RasTop is aimed at the rapid visualization and…

SCHAKAL
Desktop

SCHAKAL

A FORTRAN program for the graphical representation of molecular and solid-state…

A FORTRAN program for the graphical representation of molecular and solid-state structure models.

VEGA ZZ
Desktop

VEGA ZZ

A complete molecular modelling suite that includes several features to make…

A complete molecular modelling suite that includes several features to make your research jobs very easy.

Viewmol
Desktop

Viewmol

A graphical front end for computational chemistry programs.

A graphical front end for computational chemistry programs.

ChemSymphony
Desktop

ChemSymphony

A platform-independent set of interactive Java applets that allows 3-D…

A platform-independent set of interactive Java applets that allows 3-D molecular structures to be easily incorporated into HTML documents.

Cn3D
Web

Cn3D

A helper application for your web browser that allows you to view 3-dimensional…

A helper application for your web browser that allows you to view 3-dimensional structures from NCBI's Entrez Structure database.

ICM-Browser
Desktop

ICM-Browser

Provides a biologist or a chemist with direct access to the treasures of…

Provides a biologist or a chemist with direct access to the treasures of structural biology and protein families.

ModView
Desktop

ModView

A program to visualize and analyze multiple biomolecule structures and/or…

A program to visualize and analyze multiple biomolecule structures and/or sequence alignments.

OpenAstexViewer
Desktop

OpenAstexViewer

A Java molecular graphics program that can be used for visualisation in many…

A Java molecular graphics program that can be used for visualisation in many aspects of structure-based drug design.

Flex
Desktop

Flex

A simple, portable molecular graphics program that interactively displays 3D…

A simple, portable molecular graphics program that interactively displays 3D ball-and-stick models on workstations running the Xwindows system.

Swiss-PdbViewer
Desktop

Swiss-PdbViewer

An application that provides a user friendly interface allowing to analyze…

An application that provides a user friendly interface allowing to analyze several proteins at the same time.

CheVi
Desktop

CheVi Chemical Visualizer

A chemical visualization package specifically designed to help computational…

A chemical visualization package specifically designed to help computational chemists gain insight in to how ligands and receptors interact.

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