Structure Alignment ViewPre-calculated jFATCAT_rigid results for d3bmva4 vs. PDP:3DHUAa .
This page provides a summary view of the protein structure alignment.
Structure Alignment Results
It is also possible to view this alignment using the stand-alone Java Web Start application.
A detailed description of the procedure for the all vs. all alignments is available.
Algorithm: The alignment displayed on this page is based on the jFATCAT_rigid algorithm, a Java port of the original FATCAT algorithm.Yuzhen Ye & Adam Godzik (2003)
Flexible structure alignment by chaining aligned fragment pairs allowing twists.
Bioinformatics vol.19 suppl. 2. ii246-ii255.
RCSB PDB Comparison Tool Reference
Andreas Prlić; Spencer Bliven; Peter W. Rose; Wolfgang F. Bluhm; Chris Bizon; Adam Godzik; Philip E. Bourne (2010)
Pre-calculated protein structure alignments at the RCSB PDB website
Bioinformatics 26: 2983-2985
For more information on the algorithms see here.