Merck
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  • The generalized identification of truly interfacial molecules (ITIM) algorithm for nonplanar interfaces.

The generalized identification of truly interfacial molecules (ITIM) algorithm for nonplanar interfaces.

The Journal of chemical physics (2013-02-08)
Marcello Sega, Sofia S Kantorovich, Pál Jedlovszky, Miguel Jorge
ABSTRACT

We present a generalized version of the ITIM algorithm for the identification of interfacial molecules, which is able to treat arbitrarily shaped interfaces. The algorithm exploits the similarities between the concept of probe sphere used in ITIM and the circumsphere criterion used in the α-shapes approach, and can be regarded either as a reference-frame independent version of the former, or as an extended version of the latter that includes the atomic excluded volume. The new algorithm is applied to compute the intrinsic orientational order parameters of water around a dodecylphosphocholine and a cholic acid micelle in aqueous environment, and to the identification of solvent-reachable sites in four model structures for soot. The additional algorithm introduced for the calculation of intrinsic density profiles in arbitrary geometries proved to be extremely useful also for planar interfaces, as it allows to solve the paradox of smeared intrinsic profiles far from the interface.

MATERIALS
Product Number
Brand
Product Description

Sigma-Aldrich
Cholic acid, Vetec, reagent grade, 98%
Sigma-Aldrich
Cholic acid, from bovine and/or ovine, ≥98%
Cholic acid, European Pharmacopoeia (EP) Reference Standard