167 Network properties of decoy and CASP predicted models: a comparison with native protein structures |
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| Authors: | S Chatterjee S Ghosh |
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| Institution: | Molecular Biophysics Unit, Indian Institute of Science , Bangalore , 560012 , India Phone: Phone: +91 80-22932611 Fax: Phone: +91 80-22932611 |
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| Abstract: | Principles that govern protein folding still remain elusive. Given the huge sequence space, it is reasonable to assume that sequences follow a particular pattern to attain one of the folds already defined in the relatively small structural space. In this study, we have used protein structure networks at different interaction strengths of non-covalent interactions (Imin) (Brinda & Vishveshwara, 2005; Kannan & Vishveshwara, 1999), to identify patterns that can distinguish a native protein from decoy/modelled structures. This is a rigorous extension of an earlier study performed at Imin???0% (Chatterjee, Bhattacharyya et al., 2012). Network properties such as the size of the largest cluster (SLClu), largest k-2 communities (ComSk2) and clustering coefficients (CCoe) are analysed for 5422 native structures and 29543 decoy/modelled structures. Steeper transition profile of the native structures as a function of Imin is consistently observed (see Figure)  | |
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