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Characterization of a novel type VII β‐turn conformation for a bio‐active tetrapeptide rigin: A synergy between theoretical and experimental results

Ashish,, Grover, Arvinder, Kishore, Raghuvansh
European journal of biochemistry 2000 v.267 no.5 pp. 1455-1463
cis-trans isomers, dimethyl sulfoxide, drugs, energy, hydrogen bonding, models, molecular conformation, molecular dynamics, nuclear magnetic resonance spectroscopy, spectral analysis, surveys, temperature
The conformational analysis of an immunomodulating tetrapeptide rigin (H‐Gly‐Gln‐Pro‐Arg‐OH), shown to possess diverse immunological activity, has been investigated both theoretically and experimentally for its conformational preferences. Unrestrained molecular dynamics simulation studies in implicit dimethylsulfoxide provide strong support for the existence of a significant population of ordered reverse turn structures for the major trans isomer. Of the three different energy minimized families, generated from computer molecular modelling, only one could be complemented by most of the 1D and 2D 1H NMR parameters obtained in dimethylsulfoxide‐d6. A variable temperature NMR experiment in dimethylsulfoxide‐d6 revealed that the preferred conformation is not stabilized by an intramolecular hydrogen bonding interaction. An analysis of the 2D ROESY experiment provides evidence in favour of an uncommonly observed, rather ill‐defined type VII β‐turn structure. A survey of the observed specific inter‐and intra‐residue NOE connectivities and their comparison with one of the predicted low‐energy conformations, demonstrates synergy between the theoretical molecular modelling and experimentally determined NMR spectral data. The primary structure, rather than long‐range interactions, appears to be critical in determining the folding behaviour of the bio‐active rigin. The present structural attributes may be valuable in peptide drug design and development of the rigin analogs having more effective stimulating activity.