Backbone and side-chain dynamics of residues in a partially folded β- sheet peptide from platelet factor-4

Vladimir A. Daragan, Elena E. Ilyina, Cynthia G. Fields, Gregg B. Fields, Kevin H. Mayo

Research output: Contribution to journalArticlepeer-review

19 Scopus citations


Structurally characterizing partially folded states is problematic given the nature of these transient species. A peptide 20mer, T38AQLIATLKNGRKISLDLQA57 (P20), which has been shown to partially fold in a relatively stable turn/loop conformation (LKNGR) and transient β-sheet structure, is a good model for studying backbone and side-chain mobilities in a transiently folded peptide by using 13C-NMR relaxation. Here, four residues in P20, A43, T44, G48, and 151, chosen for their positions in or near the loop conformation and for compositional variety, have been selectively 13C-enriched. Proton-coupled and decoupled 13C-NMR relaxation experiments have been performed to obtain the temperature dependencies (278 K to 343 K) of auto- and cross-correlation motional order parameters and correlation times. In order to differentiate sequence-neighbor effects from folding effects, two shorter peptides derived from P20, IATLK (P5) and NGRKIS (P6), were similarly 13C-enriched and investigated. For A43, T44, G48, and 151 residues in P20 relative to those in P5/P6, several observations are consistent with partial folding in P20: (1) C(α)H motional tendencies are all about the same, vary less with temperature, and are relatively more restricted, (2) G48 C(α)H2 φ(t), ψ(t) rotations are more correlated, and (3) methyl group rotations are slower and yield lower activation energies consistent with formation of hydrophobic 'pockets.' In addition, T44 and 151 C(β)H mobilities in P20 are more restricted at lower temperature than those of their C(α)H and display significantly greater sensitivity to temperature suggesting a larger enthalpic contribution to side-chain mobility. Moreover, at higher temperatures, side-chain methyls and methylenes in P20 are more motionally restricted than those in P5/P6, suggesting that some type of 'folded' or 'collapsed' structure remains in P20 for what normally would he considered an 'unfolded' state.

Original languageEnglish (US)
Pages (from-to)355-363
Number of pages9
JournalProtein Science
Issue number2
StatePublished - Feb 1997


  • NMR
  • dynamics
  • peptide
  • relaxation
  • β-sheet


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