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

Y. Gong, H. X. Zhou, M. Guo, N. 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 α1 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
StatePublished - 1995

Fingerprint

Protein Sequence Analysis
Consensus Sequence
Amides
Structural analysis
Amino Acids
Peptides
Water
Simulated annealing
Conformations
Proteins
Annealing
Molecules
Experiments

Keywords

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

ASJC Scopus subject areas

  • Biochemistry

Cite this

Gong, Y., Zhou, H. X., Guo, M., & Kallenbach, N. R. (1995). Structural analysis of the N- and C-termini in a peptide with consensus sequence. Protein Science, 4(8), 1446-1456.

Structural analysis of the N- and C-termini in a peptide with consensus sequence. / Gong, Y.; Zhou, H. X.; Guo, M.; Kallenbach, N. R.

In: Protein Science, Vol. 4, No. 8, 1995, p. 1446-1456.

Research output: Contribution to journalArticle

Gong, Y, Zhou, HX, Guo, M & Kallenbach, NR 1995, 'Structural analysis of the N- and C-termini in a peptide with consensus sequence', Protein Science, vol. 4, no. 8, pp. 1446-1456.
Gong, Y. ; Zhou, H. X. ; Guo, M. ; Kallenbach, N. R. / Structural analysis of the N- and C-termini in a peptide with consensus sequence. In: Protein Science. 1995 ; Vol. 4, No. 8. pp. 1446-1456.
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