Software for protein structure visualization
Encyclopedia
This list of software for protein structure visualization is a compilation of bioinformatics
software used to view protein structure
s. Such tools are commonly used in molecular biology
, and bioinformatics
.
Bioinformatics
Bioinformatics is the application of computer science and information technology to the field of biology and medicine. Bioinformatics deals with algorithms, databases and information systems, web technologies, artificial intelligence and soft computing, information and computation theory, software...
software used to view protein structure
Protein structure
Proteins are an important class of biological macromolecules present in all organisms. Proteins are polymers of amino acids. Classified by their physical size, proteins are nanoparticles . Each protein polymer – also known as a polypeptide – consists of a sequence formed from 20 possible L-α-amino...
s. Such tools are commonly used in molecular biology
Molecular biology
Molecular biology is the branch of biology that deals with the molecular basis of biological activity. This field overlaps with other areas of biology and chemistry, particularly genetics and biochemistry...
, and bioinformatics
Bioinformatics
Bioinformatics is the application of computer science and information technology to the field of biology and medicine. Bioinformatics deals with algorithms, databases and information systems, web technologies, artificial intelligence and soft computing, information and computation theory, software...
.
| NAME | Link | Author |
|---|---|---|
| BioBlender | BioBlender official web site | SciVis team |
| Visual Molecular Dynamics Visual Molecular Dynamics - External links :* * *... |
VMD official website | |
| Jmol Jmol Jmol is an open-source Java viewer for chemical structures in 3D,that does not require 3D acceleration plugins.Jmol returns a 3D representation of a molecule that may be used as a teaching tool, or for research e.g... |
Jmol official web site | Jmol development team |
| Geneious Pro Geneious Geneious is suite of cross-platform bioinformatics software applications developed by Biomatters Ltd.- Features :Geneious comes in a Basic version that is free for academic use, and a commercial Pro version with added features. Geneious bundles various bioinformatics tools under one hood with an... (implemented Jmol viewer as part of an all-in-one sequence analysis software package) |
Geneious homepage | Geneious development team |
| PyMOL PyMOL PyMOL is an open-source, user-sponsored, molecular visualization system created by Warren Lyford DeLano and commercialized by DeLano Scientific LLC, which is a private software company dedicated to creating useful tools that become universally accessible to scientific and educational communities... |
PyMOL Wiki | Warren Lyford DeLano Warren Lyford DeLano Warren Lyford DeLano was an advocate for the increased adoption of open source practices in the sciences, and especially drug discovery, where advances which save time and resources can also potentially save lives... |
| RasMol RasMol RasMol is a computer program written for molecular graphics visualization intended and used primarily for the depiction and exploration of biological macromolecule structures, such as those found in the Protein Data Bank... |
Official website | Roger Sayle |
| UCSF Chimera UCSF Chimera UCSF Chimera is an extensible program for interactive visualization and analysis of molecular structures and related data, including density maps, supramolecular assemblies, sequence alignments, docking results, trajectories, and conformational ensembles. High-quality and can be created... |
Official website | UCSF RBVI |
| STING STING STING is a free Web-based suite of programs for a comprehensive analysis of the relationship between protein sequence, structure, function, and stability.STING is freely accessible at .-Sting Millennium:... |
STAR STING | |
| Friend | http://ilyinlab.org/friend | Valentin Ilyin |
| VisProt3DS (3D Stereoscopic view: anaglyth, side by side, hardware) | Official website | Nick Vtyurin |
| Polyview-3D (Web-based high resolution static views and animations using Pymol or Rasmol) | Official website | Aleksey Porollo & Jarek Meller |
See also
- Biological data visualizationBiological data visualizationBiology Data Visualization is a branch of bioinformatics concerned with the application of computer graphics, scientific visualization, and information visualization to different areas of the life sciences. This includes visualization of sequences, genomes, alignments, phylogenies, macromolecular...
- List of molecular graphics systems
- List of Open Source Bioinformatics software
- List of software for molecular mechanics modeling
- List of nucleic acid simulation software
- Molecular graphicsMolecular graphicsMolecular graphics is the discipline and philosophy of studying molecules and their properties through graphical representation. IUPAC limits the definition to representations on a "graphical display device"...