Crystallographic and molecular modeling studies on trypanosomal triosephosphate isomerase: a critical assessment of the predicted and observed structures of the complex with 2-phosphoglycerate.Noble, M.E., Verlinde, C.L., Groendijk, H., Kalk, K.H., Wierenga, R.K., Hol, W.G.
(1991) J Med Chem 34: 2709-2718
- PubMed: 1895291
- DOI: 10.1021/jm00113a007
- Primary Citation of Related Structures:
- PubMed Abstract:
- The Adaptability of the Active Site of Trypanosomal Triosephosphate Isomerase as Observed in the Crystal Structures of Three Different Complexes
Noble, M.E.M., Wierenga, R.K., Lambeir, A.-M., Opperdoes, F.R., Thunnissen, A.-M.W.H., Kalk, K.H., Groendijk, H., Hol, W.G.J.
(1991) Proteins 10: 50
- The Crystal Structure of the "Open" and the "Closed" Conformation of the Flexible Loop of Trypanosomal Triosephosphate Isomerase
Wierenga, R.K., Noble, M.E.M., Postma, J.P.M., Groendijk, H., Kalk, K.H., Hol, W.G.J., Opperdoes, F.R.
(1991) Proteins 10: 33
- Refined 1.83 Angstroms Structure of Trypanosomal Triosephosphate Isomerase, Crystallized in the Presence of 2.4 M-Ammonium Sulphate. A Comparison with the Structure of the Trypanosomal Triosephosphate Isomerase-Glycerol-3-Phosphate Complex
Wierenga, R.K., Noble, M.E.M., Vriend, G., Nauche, S., Hol, W.G.J.
(1991) J Mol Biol 220: 995
- Structure Determination of the Glycosomal Triosephosphate Isomerase from Trypanosoma Brucei Brucei at 2.4 Angstroms Resolution
Wierenga, R.K., Kalk, K.H., Hol, W.G.J.
(1987) J Mol Biol 198: 109
- Preliminary Crystallographic Studies of Triosephosphate Isomerase from the Blood Parasite Trypanosoma Brucei Brucei
Wierenga, R.K., Hol, W.G.J., Misset, O., Opperdoes, F.R.
(1984) J Mol Biol 178: 487
In the continuation of a project aimed at the rational design of drugs against diseases caused by trypanosomes, the crystal structure of trypanosomal triosephosphate isomerase in complex with the active site inhibitor 2-phosphoglycerate has been determined ...
In the continuation of a project aimed at the rational design of drugs against diseases caused by trypanosomes, the crystal structure of trypanosomal triosephosphate isomerase in complex with the active site inhibitor 2-phosphoglycerate has been determined. Two alternative modeling protocols have been attempted to predict the mode of binding of this ligand. In the first protocol, certain key interactions were restrained in the modeling procedure. In the second protocol, a full search of ligand conformational space was performed. In both cases the protein scaffold was kept static. Both protocols produced models which were reasonably close to the observed structure (rms difference less than 2.0 A). Nevertheless, some essential features were missed by each of the protocols. The crystallographic structure of the 2-PGA TIM complex shows that the ligand binds fully within the active site of TIM, with partners for all but one of the ligand's strongly hydrogen bonding groups. Several of the interactions between the ligand and the active site of TIM are seen to be common to all of the complexes so far structurally characterized between trypanosomal triosephosphate isomerase and competitive inhibitors. Such key interactions appear to be the best guide in the prediction of the binding mode of a new inhibitor.
European Molecular Biology Laboratory, Heidelberg, Germany.