THEMATICS is Effective for Active Site Prediction in Comparative Model Structures

THEMATICS (Theoretical Microscopic Titration Curves) is a simple, reliable computational predictor of the active sites of enzymes from structure. Our method, based on well-established Finite Difference Poisson-Boltzmann techniques, identifies the ionisable residues with anomalous predicted titration behaviour. A cluster of two or more such perturbed residues is a very reliable predictor of the active site. The power of the method is that it only requires the three-dimensional structure as input. The protein does not have to bear any resemblance in sequence or structure to any previously characterized protein. The disadvantage of the method is that it does require the structure. We now present evidence that THEMATICS can also locate the active site in structures built by comparative modelling from similar structures. Results are given for three sets of orthologous proteins (Triosephosphate isomerase, 6-Hydroxymethyl-7,8dihydropterin pyrophosphokinase, and Aspartate aminotransferase) an...

• Type: Conference
• Year: 2004
• Where: APBC
• Authors: Ihsan A. Shehadi, Alper Uzun, Leonel F. Murga, Valentin A. Ilyin, Mary Jo Ondrechen
• Keywords: Active Site, Anomalous Predicted Titration, APBC 2004, APBC 2007, Reliable Computational Predictor