Progress in the PRIDE technique for rapidly comparing protein three-dimensional structures.
BACKGROUND
Accurate and fast tools for comparing protein three-dimensional structures are necessary to scan and analyze large data sets.


RESULTS
The method described here is not only very fast but it is also reasonable precise, as it is shown by using the CATH database as a test set. Its rapidity depends on the fact that the protein structure is represented by vectors that monitors the distribution of the inter-residue distances within the protein core and the structure of which is optimized with the Freedman-Diaconis rule.


CONCLUSIONS
The similarity score is based on a chi2 test, the probability density function of which can be accurately estimated.
Kirillova
Svetlana
S
Department of Biomolecular Structural Chemistry, Programme of Structural and Computational Biology, Max F. Perutz Laboratories, Vienna University, Campus Vienna Biocenter 5, A-1030 Vienna, Austria. sviatlana.kirylava@univie.ac.at
Carugo
Oliviero
O