Protein Structure Servers
- The World Wide Protein Data Bank
access to all published, empirical macromolecular 3D structure data.
Examples of Derived Databases
All PDB entries in Jmol.
Ligands and sites. A wiki with scene-authoring tools.
- Evolutionarily conserved patches on protein surfaces
Probable quaternary structure:
Specific oligomer/biological assembly coordinates/prediction
Finding energetically significant cation-pi interactions
- Discovering similar structures
without reference to sequences
- Model quality by atomic contact analysis:
"clashscore" after adding all hydrogen atoms
- Structure prediction
using empirical templates
- Lipid bilayer boundaries
for integral membrane proteins, modeled and visualized by
(Orientations of Proteins in Membranes).
and many, many more not listed here.
Eric Martz, University of Massachusetts, October 2004.
This page updated April 2012; March 2015; June 2017.