The SPECTRUS web server (Spectral-based Rigid Unit Subdivision) performs a decomposition into quasi-rigid domains of proteins or protein complexes, based on the analysis of the distance fluctuations between pairs of amino acids. The server processes entries of up to 2000 amino acids and trajectory files of up to 50MB. If your data exceed this limit, please consider to run SPECTRUS locally on your machine by installing the source code, available here.
Ponzoni L, Polles G, Carnevale V, Micheletti C, "SPECTRUS: a dimensionality reduction approach for identifying dynamical domains in protein complexes from limited structural datasets", Structure, 2015.
The SPECTRUS-evo web server (Spectral-based Rigid Unit Subdivision) performs a decomposition of a protein sequence into evolutionarily-related domains, based on the analysis of coevolutionary couplings between pairs of amino acid positions in a multiple sequence alignment.
Granata D, Ponzoni L, Micheletti C, Carnevale V, "Patterns of coevolving amino acids unveil structural and dynamical domains", PNAS, 2017.