title: A pentapeptide model for an early folding step in the refolding of staphylococcal nuclease: the role of its turn propensity.
abstract: Recently the folding of a staphylococcal nuclease (P117G) variant was examined with the hydrogen-deuterium (H-D) exchange technique. Many of the residues that showed significant protection are located in beta-sheet regions. About half the residues protected belong to an antiparallel beta-hairpin structure (residues 21-35) in the native structure. The beta-hairpin structure is formed by strands 2 and 3 of sheet 2 connected by the sequence 27Y KGQP31 in a type 1' reverse turn conformation with a 4-->1 hydrogen bonding between Q30 NH and Y27 C = O. We have targeted the conformational characterization of the peptide model Ac-YKGQP-NH2 with 1H two-dimensional nmr techniques in aqueous solution with a view to assessing its propensity to sample turn conformational forms and thus initiate the formation of beta-hairpin structure. Based upon the observed d alpha n (i, i + 1), d alpha n (i, i + 3), and dnn (i, i + 1) nuclear Overhauser effect connectivities, temperature coefficients for amide protons and conformational analysis with quantum mechanical perturbative configuration interaction over localized orbitals method, we conclude that the model peptide samples turn conformational forms with reduced conformational entropy. We suggest that the turn can nucleate the formation of the beta-hairpin structure in the refolding of nuclease. Observation of turn propensity for this sequence is consistent with the folding mechanism of the Greek key motif (present in Staphylococcal nuclease) proposed in the literature.
authors.affiliation: Department of Chemistry, Indian Institute of Technology, Powai, Bombay, India.
authors.forename: V
authors.initials: V
authors.lastname: Ramakrishna
authors.forename: Y U
authors.initials: YU
authors.lastname: Sasidhar
mesh_terms: D008836:Micrococcal Nuclease / Q000737:chemistry*; D008956:Models, Chemical; D008958:Models, Molecular; D017510:Protein Folding
chemical_list: D008836:Micrococcal Nuclease