This article describes calculating multiple flexible alignments and the
new "M-score" for scoring multiple alignments:
This article describes the original Kpax pair-wise structure alignment algorithm:
- Fast Protein Structure Alignment using Gaussian Overlap Scoring of
Backbone Peptide Fragment Similarity.
D.W. Ritchie, A.W. Ghoorah, L. Mavridis, V. Venkatraman (2012).
28(24) 3274-3281, and
We thought that Kpax was a cool name for our program. But it turns out we
were not the first! Here is a paper describing "kPax":
- Bayesian search of functionally divergent protein subgroups and
their function specific residues.
P. Marttinen, J. Corander, P. Toronen, L. Holm (2006).
The Other K-Pax
So just for completeness, here are some further references:
- K-PAX (the novel),
by Gene Brewer, first published by St. Martin's Press, New York (1995).
- K-PAX (the movie),
starring Kevin Spacey and Jeff Bridges, directed by Iain Softley (2001).
in case you ever wondered about US radio station call-letters.
Here are some links to lists of other protein structure alignment programs:
built the Kpax web site.
designed the Kpax logo.