title: Domain behavior during the folding of a thermostable phosphoglycerate kinase.
abstract: Bacillus stearothermophilus phosphoglycerate kinase (bsPGK) is a monomeric enzyme of 394 residues comprising two globular domains (N and C), covalently linked by an interdomain alpha-helix (residues 170-185). The molecule folds to the native state in three stages. In the first, each domain rapidly and independently collapses to form an intermediate in which the N-domain is stabilized by 5.1 kcal mol-1 and the C-domain by 3.3 kcal mol-1 over their respective unfolded conformations. The N-domain then converts to a folded state at a rate of 1.2 s-1 (delta GI-F = 3.8 kcal mol-1), followed by the C-domain at 0.032 s-1 (delta GI-F = 12.1 kcal mol-1). It is this last step that limits the rate of acquisition of enzyme activity. In the dynamics of unfolding in water, the N-domain converts to the intermediate state at a rate of 8 x 10(-4) s-1, some 10(7) times faster than the C-domain. Consequently, the most populated intermediate in the folding reaction has a native-like N-domain, while that in the unfolding direction has a native-like C-domain. In a conventional sense, therefore, the folding/unfolding kinetics of bsPGK can be described as random order. Consistent with these observations, cutting the molecule in the interdomain helix produces two, independently stable units comprising residues 1-175 and 180-394. A detailed comparison of their folding behavior with that of the whole molecule reveals that true interdomain contacts are relatively weak, contributing approximately 1.4 kcal mol-1 to the stability of the active enzyme. The only interactions which contribute to the stability of rapidly formed intermediates or to transition states along the productive folding pathways are those within domain cores. Contacts formed either between domains or with the interdomain helix are made only in the folded ground state, but do not constitute a separate step in the folding mechanism. Intriguingly, the most pronounced effect of interdomain contacts on the kinetics of folding is inhibitory; the presence of the C-domain appearing to reduce the effective rate of acquisition of native structure within the N-domain.
authors.affiliation: Department of Biochemistry, School of Medical Sciences, University of Bristol, U.K.
authors.forename: M J
authors.initials: MJ
authors.lastname: Parker
authors.forename: J
authors.initials: J
authors.lastname: Spencer
authors.forename: G S
authors.initials: GS
authors.lastname: Jackson
authors.forename: S G
authors.initials: SG
authors.lastname: Burston
authors.forename: L L
authors.initials: LL
authors.lastname: Hosszu
authors.forename: C J
authors.initials: CJ
authors.lastname: Craven
authors.forename: J P
authors.initials: JP
authors.lastname: Waltho
authors.forename: A R
authors.initials: AR
authors.lastname: Clarke
mesh_terms: D002942:Circular Dichroism; D004795:Enzyme Stability; D005453:Fluorescence; D001411:Geobacillus stearothermophilus / Q000201:enzymology*; D019791:Guanidine; D006146:Guanidines / Q000494:pharmacology; D007700:Kinetics; D008956:Models, Chemical; D008958:Models, Molecular; D009154:Mutation / Q000235:genetics; D010735:Phosphoglycerate Kinase / Q000737:chemistry*; D016133:Polymerase Chain Reaction; D011489:Protein Denaturation; D017510:Protein Folding; D017434:Protein Structure, Tertiary; D011994:Recombinant Proteins / Q000737:chemistry / Q000235:genetics; D013816:Thermodynamics; D014364:Tryptophan / Q000235:genetics / Q000378:metabolism
chemical_list: D006146:Guanidines; D011994:Recombinant Proteins; D014364:Tryptophan; D010735:Phosphoglycerate Kinase; D019791:Guanidine