Structure Alignment ViewPre-calculated jCE Circular Permutation results for 1VHR.A vs. 2IHB.A .
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 jCE Circular Permutation algorithm, a Java port of the original Combinatorial Extension (CE) algorithm. (Implementation by Spencer Bliven and Andreas Prlić).I.N. Shindyalov, P.E. Bourne (1998)
Protein structure alignment by incremental combinatorial extension (CE) of the optimal path.
Protein Eng 11: 739-747
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.