Method

Predicting specificity in bZIP coiled-coil protein interactions

Jessica H Fong¹, Amy E Keating² and Mona Singh¹

¹  Computer Science Department and Lewis-Sigler Institute for Integrative Genomics, Princeton University, Olden Street, Princeton, NJ 08544, USA

²  Department of Biology, Massachusetts Institute of Technology, Massachusetts Avenue, Cambridge, MA 02139, USA

author email corresponding author email

Genome Biology 2004, 5:R11

Published:	16 January 2004

Subject areas: Methods, Bioinformatics, Biochemistry and structural biology

Abstract

We present a method for predicting protein-protein interactions mediated by the coiled-coil motif. When tested on interactions between nearly all human and yeast bZIP proteins, our method identifies 70% of strong interactions while maintaining that 92% of predictions are correct. Furthermore, cross-validation testing shows that including the bZIP experimental data significantly improves performance. Our method can be used to predict bZIP interactions in other genomes and is a promising approach for predicting coiled-coil interactions more generally.