The coiled-coil protein domain is a widespread structural motif known to be involved in a wealth of key interactions in cells and organisms. Coiled-coil recognition and prediction of their location in a protein sequence are important steps for modeling protein structure and function. Nowadays, thanks to the increasing number of experimentally determined protein structures, a significant number of coiled-coil protein domains is available. This enables the development of methods suited to predict the coiled-coil structural motifs starting from the protein sequence. Several methods have been developed to predict classical heptads using manually annotated coiled-coil domains. In this paper we focus on the prediction structurally-determined coiled-coil segments. We introduce a new method based on hidden Markov models that complement the existing methods and outperforms them in the task of locating structurally- defined coiled-coil segments.
Prediction of Structurally-Determined Coiled-Coil Domains with Hidden Markov Models / Piero Fariselli; Daniele Molinini; Rita Casadio; Anders Krogh. - STAMPA. - 4414 LNBI:(2007), pp. 292-302. [10.1007/978-3-540-71233-6_23]
Prediction of Structurally-Determined Coiled-Coil Domains with Hidden Markov Models
Piero Fariselli;Daniele Molinini;Rita Casadio;
2007
Abstract
The coiled-coil protein domain is a widespread structural motif known to be involved in a wealth of key interactions in cells and organisms. Coiled-coil recognition and prediction of their location in a protein sequence are important steps for modeling protein structure and function. Nowadays, thanks to the increasing number of experimentally determined protein structures, a significant number of coiled-coil protein domains is available. This enables the development of methods suited to predict the coiled-coil structural motifs starting from the protein sequence. Several methods have been developed to predict classical heptads using manually annotated coiled-coil domains. In this paper we focus on the prediction structurally-determined coiled-coil segments. We introduce a new method based on hidden Markov models that complement the existing methods and outperforms them in the task of locating structurally- defined coiled-coil segments.I documenti in IRIS sono protetti da copyright e tutti i diritti sono riservati, salvo diversa indicazione.