The solution conformation of Ac-Pen-Arg-Gly-Asp-Cys-OH, a potent fibrinogen receptor antagonist

• Published in: Biopolymers Vol. 33; no. 8; p. 1287
• Main Authors: Bogusky, M J, Naylor, A M, Mertzman, M E, Pitzenberger, S M, Nutt, R F, Brady, S F, Colton, C D, Veber, D F
• Format: Journal Article
• Language: English
• Published: United States 01-08-1993
• Subjects: Amino Acid Sequence; Molecular Sequence Data; Peptides, Cyclic - chemistry; Platelet Membrane Glycoproteins - antagonists & inhibitors; Protein Conformation; Solutions
• ISSN: 0006-3525
• DOI: 10.1002/bip.360330813

The solution conformation of Ac-Pen-Arg-Gly-Asp-Cys-OH, a potent fibrinogen receptor antagonist, was characterized in DMSO-d6 by the combination of nmr and molecular modeling. The conformational space available to the peptide was explored using a distance geometry algorithm with distance constraints derived from 1H-nmr spectra. The dynamics of the peptide were examined by relaxation time measurements and low temperature studies. The results from the low temperature studies suggest that the peptide backbone does not exist in a single, well-defined conformation but undergoes exchange between multiple conformers. This result is consistent with the inability to find a single structure that satisfies all the nmr-derived constraints. The constraints could only be satisfied by considering pairs of conformers to represent the experimental data. The low energy conformers comprise type II' or type V beta-turns with distinct side-chain directionality. The Arg-Gly-Asp portion of the ring is flexible and can be described by amide-plane rotations of the Arg-Gly and Gly-Asp peptide bonds. Although some backbone flexibility is evident, the incorporation of beta,beta-dimethyl cysteine imparted greater conformational rigidity as compared to the previously studied cyclic pentapeptide, Ac-Cys-Arg-Gly-Asp-Cys-OH.