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The effects of urea, guanidinium chloride and sorbitol on porphyrin aggregation: Molecular dynamics simulation

Research paper by MARYAM GHADAMGAHI, DAVOOD AJLOO

Indexed on: 19 Jun '13Published on: 19 Jun '13Published in: Journal of Chemical Sciences



Abstract

This paper compares the inhibition effect of porphyrin aggregation in the presence of urea, guanidinium chloride (Gdn) and sorbitol by molecular dynamics simulation. It demonstrates that porphyrin aggregation increases in sorbitol, but decreases towards addition of urea and Gdn. It shows that urea, Gdn and sorbitol can have a large effect — positive or negative, depending on the concentration — on the aggregation of the porphyrin. The effect of urea, Gdn and sorbitol on porphyrin aggregation has been inferred from the effect of these solutes on the hydration layer of porphyrin. It appears that the Gdn is more suitable than urea for decreasing the hydration layer of porphyrin while several osmolites like sorbitol are known to increase hydration layer and thus might stabilize the porphyrin aggregation. Results of radial distribution function (RDF), distributed atoms or molecules around target species, indicated that the increase and exclusion of solvent around porphyrin by osmolytes and Gdn would affect significantly on porphyrin aggregation. There was a sizeable difference in potency between the Gdn and urea, with the urea being less potent to decrease hydration layer and porphyrin aggregation.A comparative study of the effect of urea, guanidinium chloride (Gdn) and sorbitol on porphyrin aggregation was carried out by molecular dynamics simulation. The aggregation increases in sorbitol, but decreases upon addition of urea and Gdn.