Efficient Shape Descriptors for Feature Extraction in 3D Protein Structures

Article type: Research Article

Authors: Ranganath, Aruna | Shet, K. Chandra Shekar | Vidyavathi, Nagardone

Affiliations: Aurora's Scientific Technological and Research Academy(ASTRA), Hyderabad-500005, Andhra Pradesh (st), India. Tel.: +91 40 244408480; E-mail: aruna_ranganath@yahoo.com | Department of CSE, NITK, Surathkal, post 575 025, Karnataka (st), India. Tel.: +91 824 2474000; Fax: +91 824 2474060; E-mail: kcshet@yahoo.co.uk | Department of BT, NMAMIT, Nitte, Udupi (DT)-574 110, Karnataka (st), India. Tel.: +91 8258 281264; Fax: +91 8258 281265; E-mail: vidyavathibt@gmail.com

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Abstract: Structural Genomics initiatives are generating an increasing number of protein structures with very limited biochemical characterization. Characterization of a protein's function and understanding the specific nature of a protein's binding is a critical part of both protein engineering and structure-based drug discovery. The accurate detection of binding site in these protein structures can be valuable in determining its function. As shape plays a crucial role in bimolecular recognition and function, the development of shape analysis techniques is important for understanding protein structure-function relationships. This paper describes the use of the continuous wavelet transforms (CWT) for characterizing shape features of 3D protein structures. The goal is to explore the CWT as a multiscale tool to generate rotation- and translation-invariant shape features.

Keywords: Continuous wavelet transforms, shape analysis

Journal: In Silico Biology, vol. 7, no. 2, pp. 169-174, 2007