supplementarymaterialsfor.docVIP

Supplementary materials for: “Evolutionary reshaping of fungal mating pathway scaffold proteins”. Pierre C?te?, Traian Sulea, Daniel Dignard, Cunle Wu and Malcolm Whiteway?*. Genetics Group, Biotechnology Research Institute, National Research Council of Canada, 6100 Royalmount Ave., Montreal, Quebec, Canada H4P 2R2 ? Department of Biology, McGill University, Montreal, Quebec, Canada H3A 1B1 * Corresponding author: Dr. Malcolm Whiteway Genetics Group, Biotechnology Research Institute, National Research Council of Canada, 6100 Royalmount Ave., Montreal, Quebec, Canada H4P 2R2 Tel: 001-514-496-6146 Fax: 001-514-496-6213 Email: malcolm.whiteway@cnrc-nrc.gc.ca Supplementary materials Experimental procedures Comparative sequence analysis, domain annotation, and structural homology modeling Homologous protein sequences were retrieved by either BLASTP or TBLASTN search (1) in the Fungal genome database (/) and by protein domain architecture search in the SMART database (http://smart.embl.de/; 2). Comparative sequence analysis of the assembled datasets (29 Far1-like, 19 Ste5-like and 31 Ste11-like sequences) was carried out with the MAFFT 6 program (3) for deriving multiple sequence alignments with the L-INS-i iterative refinement algorithm and to generate phylogenetic trees, and visualized using Jalview 2.4.0B2 (4). Complete set of all sequences, as well as their accession number, is available at http://candida2.bri.nrc.ca/whitewaylab/index.html. Structural domain detection for representative Far1-like and Ste5-like proteins was carried out at the Structure Prediction Meta Server (http://bioinfo.pl/meta/), which assembles state-of-the-art fold recognition methods, and provides a consensus sequence-to-structure scoring using the 3D-Jury meta-predictor (5). In order to confirm the available domain annotations (e.g., from InterPro and member databases, http://www.ebi.ac.uk/interpro/ ) as well as previous reports of predicted domains in some family members (6, 7,