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Wavelet transforms for the characterization and detection of repeating motifs

Murray, KB; Gorse, D; Thornton, JM; (2002) Wavelet transforms for the characterization and detection of repeating motifs. J MOL BIOL , 316 (2) 341 - 363. 10.1006/jmbi.2001.5332.

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Abstract

The role of repeating motifs in protein structures is thought to be as modular building blocks which allow an economic way of constructing complex proteins. In this work novel wavelet transform analysis techniques are used to detect and characterize repeating motifs in protein sequence and structure data, where the Kyte-Doolittle hydrophobicity scale (HPhi) and relative accessible surface area (rASA) data provide residue information about the protein sequence and structure, respectively. We analyze a variety of repeating protein motifs, TIM barrels, propellor blades, boiled coils' and leucine-rich repeat structures. Detection and characterization of these motifs is performed using techniques based on the continuous wavelet transform (CWT). Results indicate that the wavelet transform techniques developed herein are a promising approach for the detection and characterization of repeating motifs for both structural and in some instances sequence data. (C) 2002 Elsevier Science Ltd.

Type:Article
Title:Wavelet transforms for the characterization and detection of repeating motifs
DOI:10.1006/jmbi.2001.5332
Keywords:protein repeats, hydropathy, accessibility, wavelets, Fourier transforms, PREDICTING COILED COILS, CRYSTAL-STRUCTURE, DNA-SEQUENCES, ANGSTROM RESOLUTION, PROTEIN STRUCTURES, CORTEXILLIN I, IDENTIFICATION, ACCESSIBILITY, RECOGNITION, ISOMERASE
UCL classification:UCL > School of Life and Medical Sciences > Faculty of Life Sciences > Biosciences (Division of)
UCL > School of BEAMS > Faculty of Engineering Science > Computer Science

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