THEMATICS: a simple computational predictor of enzyme function from structure.
We show that theoretical microscopic titration curves (THEMATICS) can be used to identify active-site residues in proteins of known structure. Results are featured for three enzymes: triosephosphate isomerase (TIM), aldose reductase (AR), and phosphomannose isomerase (PMI). We note that TIM and AR have similar structures but catalyze different kinds of reactions, whereas TIM and PMI have different structures but catalyze similar reactions. Analysis of the theoretical microscopic titration curves for all of the ionizable residues of these proteins shows that a small fraction (3-7%) of the curves possess a flat region where the residue is partially protonated over a wide pH range. The preponderance of residues with such perturbed curves occur in the active site. Additional results are given in summary form to show the success of the method for proteins with a variety of different chemistries and structures.
Ondrechen
M J
MJ
Department of Chemistry, Northeastern University, Boston, MA 02115, USA. mjo@neu.edu
Clifton
J G
JG
Ringe
D
D
D000449:Aldehyde Reductase / Q000737:chemistry* / Q000502:physiology; D006863:Hydrogen-Ion Concentration; D008359:Mannose-6-Phosphate Isomerase / Q000737:chemistry* / Q000502:physiology; D008433:Mathematics; D014305:Triose-Phosphate Isomerase / Q000737:chemistry* / Q000502:physiology
D000449:Aldehyde Reductase; D014305:Triose-Phosphate Isomerase; D008359:Mannose-6-Phosphate Isomerase