title: Computer simulation and analysis of the reaction pathway of triosephosphate isomerase.
abstract: A theoretical approach designed for chemical reactions in the condensed phase is used to determine the energy along the reaction path of the enzyme triosephosphate isomerase. The calculations address the role of the enzyme in lowering the barrier to reaction and provide a decomposition into specific residue contributions. The results suggest that, although Lys-12 is most important, many other residues within 16 A of the substrate contribute and that histidine-95 as the imidazole/imidazolate pair could act as an acid/base catalyst.
authors.affiliation: Department of Chemistry, Harvard University, Cambridge, Massachusetts 02138.
authors.forename: P A
authors.initials: PA
authors.lastname: Bash
authors.forename: M J
authors.initials: MJ
authors.lastname: Field
authors.forename: R C
authors.initials: RC
authors.lastname: Davenport
authors.forename: G A
authors.initials: GA
authors.lastname: Petsko
authors.forename: D
authors.initials: D
authors.lastname: Ringe
authors.forename: M
authors.initials: M
authors.lastname: Karplus
mesh_terms: D000595:Amino Acid Sequence; D001665:Binding Sites; D003198:Computer Simulation; D004099:Dihydroxyacetone Phosphate / Q000737:chemistry / Q000378:metabolism; D004735:Energy Transfer; D005986:Glyceraldehyde 3-Phosphate / Q000737:chemistry / Q000378:metabolism; D008958:Models, Molecular; D008962:Models, Theoretical; D008968:Molecular Conformation; D015394:Molecular Structure; D011487:Protein Conformation; D012441:Saccharomyces cerevisiae / Q000201:enzymology; D014305:Triose-Phosphate Isomerase / Q000737:chemistry / Q000378:metabolism*; D014961:X-Ray Diffraction
chemical_list: D005986:Glyceraldehyde 3-Phosphate; D004099:Dihydroxyacetone Phosphate; D014305:Triose-Phosphate Isomerase