Matt (Multiple Alignment with Translations and Twists), an aligned fragment pair chaining algorithm that, in intermediate steps, allows local flexibility between fragments: small translations and rotations are temporarily allowed to bring sets of aligned fragments closer, even if they are physically impossible under rigid body transformations.
:: MORE INFORMATION
M. Menke, B. Berger, L. Cowen,
“Matt: Local Flexibility Aids Protein Multiple Structure Alignment“,
PLOS Computational Biology, Vol. 4, No 1., 2008.