Structural analysis of the N‐ and C‐termini in a peptide with consensus sequence

Youxiang Gong, Hongxing X. Zhou, Mingming Guo, Neville R. Kallenbach

Research output: Contribution to journalArticle

Abstract

We present a structural analysis of a peptide, the sequence of which includes amino acids that show preferences for specific positions near the N‐ and C‐termini in protein helices. This peptide has the sequence ac‐YMSEDELKAAEAAFKRHGVP‐amide, which includes a strong version of an N‐terminal Harper‐Rose capping box structure as well as a Gly located close to the C‐terminus designed to elucidate its role in C‐terminal capping. The sequence of five residues at the middle is inserted to separate effects at the two ends via a helix‐stabilizing linker. Application of a simulated annealing procedure using interproton distance constraints derived from 1H NOESY experiments in water reveals the presence of a C‐terminal structure in this model. The C‐terminus forms a folded back structure in a significant fraction of structures generated by the annealing, in most of which Gly assumes an αL conformation. This structure occurs within a highly flexible region of the molecule and hence is occupied only a fraction of the time.

Original languageEnglish (US)
Pages (from-to)1446-1456
Number of pages11
JournalProtein Science
Volume4
Issue number8
DOIs
StatePublished - Aug 1995

Keywords

  • CD
  • C‐terminal capping
  • Gly α motif
  • NMR
  • N‐terminal capping box
  • protein folding
  • secondary structure
  • simulated annealing
  • α‐helix

ASJC Scopus subject areas

  • Biochemistry
  • Molecular Biology

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