Conformational studies of N‐acetyl‐N′‐methylamide derivatives of α‐aminobutyric acid, norvaline, and valine. I. Preferred conformations in solution as studied by 1H‐nmr spectroscopy
Abstract:SynopsisThe 'H-nmr studies were extensively carried out to elucidate preferred conformations of dipeptides CH,C*O-X-NHCH,, with X = Abu, oval, and Val in various solvents. The vicinal 'H--'H coupling constants for the NH-CnH moiety and those around the C"-Cp bond in the articulated side chain provided the information regarding the average conformation of these molecules. The results indicate that transformation of skeletal conformations takes place in solution among conformers having similar dihedral angles, 8… Show more
“…1 by using Eq. (1). Average values of JNH-COH can be easily calculated from the Boltzmann probabilities of given conformations.…”
Section: P ( X D (Jnh-c-h) (Hz) Codementioning
confidence: 99%
“…The vicinal coupling constant J N H -c n H can be calculated for a given skeletal conformation by using a Karplus-type equation such as JNH--CaH = Acos21cp -60"l -Bcoslcp -6 0 ' 1 + Csin21cp -60'1 (1) with cp defined as the torsion angle around the N-C" bond. …”
“…1 by using Eq. (1). Average values of JNH-COH can be easily calculated from the Boltzmann probabilities of given conformations.…”
Section: P ( X D (Jnh-c-h) (Hz) Codementioning
confidence: 99%
“…The vicinal coupling constant J N H -c n H can be calculated for a given skeletal conformation by using a Karplus-type equation such as JNH--CaH = Acos21cp -60"l -Bcoslcp -6 0 ' 1 + Csin21cp -60'1 (1) with cp defined as the torsion angle around the N-C" bond. …”
This paper reports a detailed conformational characterization in solution by 1H-NMR in H2O and DMSO-d6 and molecular modeling simulations of cyclic peptides containing the RGDDV pharmacophore and the RGDY(Me)R pharmacophore. These two pentapeptide sequences when properly constrained in cyclic peptides are low to sub-nanomolar inhibitors of integrin alpha(v)beta3. The peptides containing the RGDDY(Me)R sequence bind potently to integrin alphaIIb3 as well. The conformations found in H2O and in DMSO-d6 solutions are valuable for the design of peptidomimetics of these two pharmacophores. The structure-activity relationships of the RGDDV and RGDY(Me)R pharmacophores within cyclic peptides are discussed. Specifically, the orientation of surface-accessible chemical features on the ligand, such as hydrophobic, positive and negative ionizable groups, which are considered to be responsible for the desired biological activity, is focused on.
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