Protein secondary structure conformations and associated hydrophobicity scales

We have developed conformational preference functions and a hierarchy of algorithms that can evaluate the success of each hydrophobicity scale in predicting protein secondary conformation. The results of such evaluation are shown for fiftyfive different scales with respect to their ability to predict -helix, -sheet and coil structure in three testing sets of proteins: five integral membrane proteins, twelve -class and sixteen -class soluble proteins. Our scale of conformational parameters is the best predictor of secondary structure segments in membrane proteins and -class proteins. The success rate and correlation coefficient for -helix conformation in membrane proteins are 76% and 0.46 respectively, which is superior to the performance measures attained with other prediction schemes. Evaluation of solution hydrophobicity scales, often used to predict transmembrane segments in membrane proteins, indicated absence of correlation in prediction of helix segments and experimental results for the conformation of membrane proteins. Such scales have better performance (correlation coefficient around 0.30) in predicting sheet conformation in the -class proteins.     

Modellbetrachtungen zum Verständnis unerwarteter Eigenschaften der metalloiden Clusterverbindung [Ga84(N(SiMe3)2)20][Li6Br2(THF)20]·2Toluol

Towards the Understanding of the Unexpected Properties of the Metalloid Cluster Compound [Ga₈₄(N(SiMe₃)₂)₂₀][Li₆Br₂(THF)₂₀]·2Toluol In several short communications we have recently reported on the electrical and superconducting properties of the crystalline title compound 1 which contains anionic Ga₈₄R₂₀‐moieties. Here we present a collection of these results, complemented and interpreted by using DFT‐calculations on model clusters (Ga₈₄(NH₂)₂₀^?). These calculations allow a) a first insight into the dynamics of the Ga₈₄‐moieties (e.g. a rotation of the central Ga₂‐dumbbell) and thus an explanation of the temperature‐dependent Ga‐NMR‐spectra described recently, and b) estimations on the lattice energy of 1 and its resulting unexpected energetic stabilization compared to metallic gallium. A possible contribution of the cations in the electrical conduction mechanism of 1 can also be made feasible with model calculations. The basis for all the results presented is to be found in the “perfect” arrangement of nanoscopic Ga₈₄‐clusters in the crystal. This theoretically predicted condition for superconductivity in a “chain” of identical metal cluster molecules is a requirement which can hardly be realized by means of physical fabrication methods. Therefore, on the one hand the results presented here make for some disillusionment in the field of nanoscience, but on the other hand, especially in the field of synthetic chemistry, they present rewarding challenges for fundamental work in the future.