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Intricate comparison between two given tertiary structures of proteins is as important as the comparison of their functions. Several algorithms have been devised to compute the similarity and dissimilarity among protein structures. But, these algorithms compare protein structures by structural alignment of the protein backbones which are usually unable to determine precise differences. In this paper, an attempt has been made to compute the similarities and dissimilarities among 3D protein structures using the fundamental mathematical morphology operations and fractal geometry which can resolve the problem of real differences. In doing so, two techniques are being used here in determining the superficial structural (global similarity) and local similarity in atomic level of the protein molecules. This intricate structural difference would provide insight to Biologists to understand the protein structures and their functions more precisely.
In this paper, we develop a quantitative comparison method for two arbitrary protein structures. This method uses a root-mean-square deviation (RMSD) characterization and employs a series expansion of the proteins shape function in terms of the Wigne
The energy for protein folding arises from multiple sources and is not large in total. In spite of the many specific successes of energy landscape and other approaches, there still seems to be some missing guiding factor that explains how energy from
There have been several studies suggesting that protein structures solved by NMR spectroscopy and x-ray crystallography show significant differences. To understand the origin of these differences, we assembled a database of high-quality protein struc
The fractal properties of the total potential energy V as a function of time t are studied for a number of systems, including realistic models of proteins (PPT, BPTI and myoglobin). The fractal dimension of V(t), characterized by the exponent gamma,
We investigate the electronic band structure of two of the rare-earth nitrides, DyN and SmN. Resistivity measurements imply that both materials have a semiconducting ground state, and both show resistivity anomalies coinciding with the magnetic trans