Prediction of structurally-determined coiled-coil domains with hidden Markov models

TY - GEN

T1 - Prediction of structurally-determined coiled-coil domains with hidden Markov models

AU - Fariselli, Piero

AU - Molinini, Daniele

AU - Casadio, Rita

AU - Krogh, Anders

PY - 2007/8/27

Y1 - 2007/8/27

N2 - 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 structurallydefined coiled-coil segments.

AB - 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 structurallydefined coiled-coil segments.

KW - Coiled-coil domains

KW - Hidden Markov models

KW - Protein structure prediction

UR - http://www.scopus.com/inward/record.url?scp=34548075339&partnerID=8YFLogxK

M3 - Article in proceedings

AN - SCOPUS:34548075339

SN - 3540712321

SN - 9783540712329

VL - 4414 LNBI

SP - 292

EP - 302

BT - Bioinformatics Research and Development - First International Conference, BIRD 2007 Proceedings

T2 - 1st International Conference on Bioinformatics Research and Development, BIRD 2007

Y2 - 12 March 2007 through 14 March 2007

ER -