Wavelet transforms for the characterization and detection of repeating motifs.
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 (Eta Phi) 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, coiled 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.
Murray
Kevin B
KB
Department of Biochemistry and Molecular Biology, University College London, UK murray@biochem.ucl.ac.uk
Gorse
Denise
D
Thornton
Janet M
JM
D000465:Algorithms; D020816:Amino Acid Motifs; D000595:Amino Acid Sequence; D000818:Animals; D004791:Enzyme Inhibitors / Q000737:chemistry; D005583:Fourier Analysis; D006466:Hemopexin / Q000737:chemistry; D057927:Hydrophobic and Hydrophilic Interactions; D008840:Microfilament Proteins / Q000737:chemistry; D008958:Models, Molecular; D017433:Protein Structure, Secondary; D017434:Protein Structure, Tertiary; D011506:Proteins / Q000737:chemistry*; D015800:Protozoan Proteins; D011817:Rabbits; D020449:Repetitive Sequences, Amino Acid; D012260:Ribonucleases / Q000037:antagonists & inhibitors; D014305:Triose-Phosphate Isomerase / Q000737:chemistry
D004791:Enzyme Inhibitors; D008840:Microfilament Proteins; D011506:Proteins; D015800:Protozoan Proteins; C101109:ctxA protein, Dictyostelium discoideum; D006466:Hemopexin; D012260:Ribonucleases; D014305:Triose-Phosphate Isomerase