Bioinformatics Links Directory : 3-D Structure Retrieval, Viewing

Links to tools for visualization of 3D structures are found here. This section also contains links to many 3D structure databases.

3DSS - (Found July 8, 2008 )

3-Dimensional Structural Superposition (3DSS) is a tool for superposing two or more protein structures that uses RASMOL for visualization; some browser configuration is necessary.
http://cluster.physics.iisc.ernet.in/3dss/options.html

PMG - (Found July 8, 2008 )

The Protein Movie Generator (PMG) is a tool to generate protein pictures, animations, and movies.
http://bioserv.rpbs.jussieu.fr/~autin/cgi-bin/PMG

PPG - (Found July 8, 2008 )

The Protein Picture Generator (PPG) is a tool for making pictures (and animations) of protein structures from PDB files.
http://bioserv.rpbs.jussieu.fr/cgi-bin/PPG

Practical Structural Databases - (Found July 8, 2008 )

Detailed compendium of links to structure databases, viewers, tools.
http://xray.bmc.uu.se/embo/structdb/links.html

ProCKSi - (Found July 8, 2008 )

ProCKSi (Protein Comparison using Kolmogorov and other Similarity Measures) is a multi-layer protein comparison meta-server that computes structure similarities using information theory measures.
http://www.procksi.net/

ProSAT2 - (Found July 8, 2008 )

Protein Structure Annotation Tool (ProSAT2) is a tool for the visualization of sequence based, residue-specific annotations mapped onto three-dimensional (3D) protein structures
http://projects.villa-bosch.de/dbase/ps2/

ProteinDBS - (Found July 8, 2008 )

ProteinDBS takes a PDB ID or structure as input, and searches for similar protein tertiary structures using computer visualization techniques. The superposition of structures and the aligned component of the sequence can then be viewed over the web.
http://proteindbs.rnet.missouri.edu/

RasMol - (Found July 8, 2008 )

3-D structure viewer, web browser helper application.
http://www.bernstein-plus-sons.com/software/rasmol/

ReMus - (Found July 8, 2008 )

REinforced Merging techniques for Unique peptide Segments (ReMus) is designed for identification of the locations and compositions of unique peptide segments from a set of protein family sequences.
http://140.121.196.30/remus.asp

SuperPose - (Found July 8, 2008 )

SuperPose is a tool for superpositions of protein structures. SuperPose generates sequence alignments, structure alignments, PDB coordinates and RMSD statistics, difference distance plots, and images of the superimposed molecules.
http://wishart.biology.ualberta.ca/SuperPose/