The relative orientation of the Arg and Asp side chains defined by a pseudodihedral angle as a key criterion for evaluating the structure-activity relationship of RGD peptides

Sarantos Kostidis, Athanassios Stavrakoudis, Nikolaos Biris, Demokritos Tsoukatos, Constantinos Sakarellos, Vassilios Tsikaris

Research output: Contribution to journalArticle

23 Citations (Scopus)

Abstract

The ability of an integrin to distinguish between the RGD-containing extracellular matrix proteins is thought to be due partially to the variety of RGD conformations. Three criteria have been proposed for the evaluation of the structure-activity relationship of RGD-containing peptides. These include: (i) the distance between the charged centres, (ii) the distance between the Arg Cβ and Asp Cβ atoms, and (iii) the pseudodihedral angle defining the Arg and Asp side-chain orientation formed by the Arg Cζ, Arg Cα Asp Cα and Asp Cγ atoms. A comparative conformation-activity study was performed between linear RGD peptides and strongly constrained cyclic (S,S) -CDC- bearing compounds, which cover a wide range of inhibition potency of platelet aggregation. It is concluded that the fulfilment of the -45° ≤ pseudo-dihedral angle ≤ +45° criterion is a prerequisite for an RGD compound to exhibit inhibitory activity. Once this criterion is accomplished, the longer the distance between the charged centres and/or between the Arg and Asp Cβ atoms, the higher is the biological activity. In addition, the stronger the ionic interaction between Arg and Asp charged side chains, the lower the anti-aggregatory activity.

Original languageEnglish (US)
Pages (from-to)494-509
Number of pages16
JournalJournal of Peptide Science
Volume10
Issue number8
DOIs
StatePublished - Aug 2004
Externally publishedYes

Fingerprint

Structure-Activity Relationship
Viperidae
Atoms
Conformations
Bearings (structural)
Extracellular Matrix Proteins
Dihedral angle
Platelets
Bioactivity
Integrins
Agglomeration
Peptides
Centers for Disease Control and Prevention (U.S.)
Platelet Aggregation
arginyl-glycyl-aspartic acid

Keywords

  • Integrin inhibitors
  • RGD conformation
  • RGD inhibitors
  • RGD SAR
  • RGD specificity
  • RGD structure-activity

ASJC Scopus subject areas

  • Analytical Chemistry
  • Biochemistry, Genetics and Molecular Biology(all)
  • Biochemistry

Cite this

The relative orientation of the Arg and Asp side chains defined by a pseudodihedral angle as a key criterion for evaluating the structure-activity relationship of RGD peptides. / Kostidis, Sarantos; Stavrakoudis, Athanassios; Biris, Nikolaos; Tsoukatos, Demokritos; Sakarellos, Constantinos; Tsikaris, Vassilios.

In: Journal of Peptide Science, Vol. 10, No. 8, 08.2004, p. 494-509.

Research output: Contribution to journalArticle

Kostidis, Sarantos ; Stavrakoudis, Athanassios ; Biris, Nikolaos ; Tsoukatos, Demokritos ; Sakarellos, Constantinos ; Tsikaris, Vassilios. / The relative orientation of the Arg and Asp side chains defined by a pseudodihedral angle as a key criterion for evaluating the structure-activity relationship of RGD peptides. In: Journal of Peptide Science. 2004 ; Vol. 10, No. 8. pp. 494-509.
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