Journal Article


Gianluca Pollastri
Denis C. Shields
Ian Walsh
Alberto J. M. Martin
Norman Davey
Catherine Mooney



models molecular software internet amino acid motifs computer simulation catalytic domain protein folding databases protein

In silico protein motif discovery and structural analysis. (2011)

Abstract A wealth of in silico tools is available for protein motif discovery and structural analysis. The aim of this chapter is to collect some of the most common and useful tools and to guide the biologist in their use. A detailed explanation is provided for the use of Distill, a suite of web servers for the prediction of protein structural features and the prediction of full-atom 3D models from a protein sequence. Besides this, we also provide pointers to many other tools available for motif discovery and secondary and tertiary structure prediction from a primary amino acid sequence. The prediction of protein intrinsic disorder and the prediction of functional sites and SLiMs are also briefly discussed. Given that user queries vary greatly in size, scope and character, the trade-offs in speed, accuracy and scale need to be considered when choosing which methods to adopt.
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Full list of authors on original publication

Gianluca Pollastri, Denis C. Shields, Ian Walsh, Alberto J. M. Martin, Norman Davey, Catherine Mooney

Experts in our system

Denis C. Shields
University College Dublin
Total Publications: 123
Norman E. Davey
University College Dublin
Total Publications: 34
Catherine Mooney
University College Dublin
Total Publications: 63