Shape-dependent designability studies of lattice proteins
نویسندگان
چکیده
منابع مشابه
Designability of lattice model heteropolymers.
Protein folds are highly designable, in the sense that many sequences fold to the same conformation. In the present work we derive an expression for the designability in a 20-letter lattice model of proteins which, relying only on the central limit theorem, has a generality which goes beyond the simple model used in its derivation. This expression displays an exponential dependence on the energ...
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A typical protein structure is a compact packing of connected alpha-helices and/or beta-strands. We have developed a method for generating the ensemble of compact structures a given set of helices and strands can form. The method is tested on structures composed of four alpha-helices connected by short turns. All such natural four-helix bundles that are connected by short turns seen in nature a...
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Native protein folds often have a high degree of symmetry. We study the relationship between the symmetries of native proteins, and their designabilities – how many different sequences encode a given native structure. Using a two-dimensional lattice protein model based on hydrophobicity, we find that those native structures that are encoded by the largest number of different sequences have high...
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In this study, we first introduce the Banach lattice random elements and some of their properties. Then, using the order defined in Banach lattice space, we introduce and characterize the order negatively dependence Banach lattice random elements by the order defined in Banach lattice space. Finally, we obtain some limit theorems for the sequence of order negatively dependence Banach lattice ra...
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One the most important problems in computational structural biology is protein designability, that is, why protein sequences are not random strings of amino acids but instead show regular patterns that encode protein structures. Many previous studies that have attempted to solve the problem have relied upon reduced models of proteins. In particular, the 2D square and the 3D cubic lattices toget...
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ژورنال
عنوان ژورنال: Journal of Physics: Condensed Matter
سال: 2007
ISSN: 0953-8984,1361-648X
DOI: 10.1088/0953-8984/19/28/285220