Disorder and order in unfolded and disordered peptides and proteins: A view derived from tripeptide conformational analysis. II. Tripeptides with short side chains populating asx and [beta]-type like turn conformations

• Published in: Proteins, structure, function, and bioinformatics Vol. 81; no. 6; pp. 968 - 983
• Main Authors: Rybka, Karin, Toal, Siobhan E, Verbaro, Daniel J, Mathieu, Daniel, Schwalbe, Harald, Schweitzer-Stenner, Reinhard
• Format: Journal Article
• Language: English
• Published: Hokoben Wiley Subscription Services, Inc 01.06.2013
• Subjects: Peptides; Proteins
• ISSN: 0887-3585; 1097-0134
• DOI: 10.1002/prot.24226

In the preceding paper, we found that ensembles of tripeptides with long or bulky chains can include up to 20% of various turns. Here, we determine the structural and thermodynamic characteristics of GxG peptides with short polar and/or ionizable central residues (D, N, C), whose conformational distributions exhibit higher than average percentage (>20%) of turn conformations. To probe the side-chain conformations of these peptides, we determined the 3J(H[alpha],H[beta]) coupling constants and derived the population of three rotamers with χ1-angles of -60°, 180° and 60°, which were correlated with residue propensities by DFT-calculations. For protonated GDG, the rotamer distribution provides additional evidence for asx-turns. A comparison of vibrational spectra and NMR coupling constants of protonated GDG, ionized GDG, and the protonated aspartic acid dipeptide revealed that side chain protonation increases the pPII content at the expense of turn populations. The charged terminal groups, however, have negligible influence on the conformational properties of the central residue. Like protonated GDG, cationic GCG samples asx-turns to a significant extent. The temperature dependence of the UVCD spectra and 3J(HNH[alpha]) constants suggest that the turn populations of GDG and GNG are practically temperature-independent, indicating enthalpic and entropic stabilization. The temperature-independent J-coupling and UVCD spectra of GNG require a three-state model. Our results indicate that short side chains with hydrogen bonding capability in GxG segments of proteins may serve as hinge regions for establishing compact structures of unfolded proteins and peptides. Proteins 2013. © 2012 Wiley Periodicals, Inc. [PUBLICATION ABSTRACT]