Improving contact predictions by the combination of correlated mutations and other sources of sequence information. Export

@article{citeulike:613992, abstract = {We have previously developed a method for predicting interresidue contacts using information about correlated mutations in multiple sequence alignments. The predictions generated with this method were clearly better than random but not enough for their use in de novo protein folding experiments. We assess the possibility of improving contact predictions combining information from the following variables: correlated mutations, sequence conservation, sequence separation along the chain, alignment stability, family size, residue-specific contact occupancy and formation of contact networks. The application of a protocol for combining these independent variables leads to contact predictions that are on average two times better than those obtained initially with correlated mutations. Correlated mutations can be effectively combined with other types of information derived from multiple sequence alignments. Among the different variables tried, sequence conservation and contact density are particularly relevant for the combination with correlated mutations.}, address = {Protein Design Group, CNB-CSIC, Campus U Autonoma, Cantoblanco, Madrid, Spain.}, author = {Olmea, O. and Valencia, A.}, citeulike-article-id = {613992}, citeulike-linkout-0 = {http://view.ncbi.nlm.nih.gov/pubmed/9218963}, citeulike-linkout-1 = {http://www.hubmed.org/display.cgi?uids=9218963}, issn = {1359-0278}, journal = {Folding \& design}, keywords = {protein-structure, residue-covariation}, number = {3}, posted-at = {2006-05-05 05:31:43}, priority = {2}, title = {Improving contact predictions by the combination of correlated mutations and other sources of sequence information.}, url = {http://view.ncbi.nlm.nih.gov/pubmed/9218963}, volume = {2}, year = {1997} }

TY - JOUR ID - citeulike:613992 L3 - citeulike-article-id:613992 N2 - We have previously developed a method for predicting interresidue contacts using information about correlated mutations in multiple sequence alignments. The predictions generated with this method were clearly better than random but not enough for their use in de novo protein folding experiments. We assess the possibility of improving contact predictions combining information from the following variables: correlated mutations, sequence conservation, sequence separation along the chain, alignment stability, family size, residue-specific contact occupancy and formation of contact networks. The application of a protocol for combining these independent variables leads to contact predictions that are on average two times better than those obtained initially with correlated mutations. Correlated mutations can be effectively combined with other types of information derived from multiple sequence alignments. Among the different variables tried, sequence conservation and contact density are particularly relevant for the combination with correlated mutations. IS - 3 JF - Folding & design SN - 1359-0278 AD - Protein Design Group, CNB-CSIC, Campus U Autonoma, Cantoblanco, Madrid, Spain. TI - Improving contact predictions by the combination of correlated mutations and other sources of sequence information. VL - 2 KW - protein-structure KW - residue-covariation AU - Olmea, O AU - Valencia, A PY - 1997/// UR - http://view.ncbi.nlm.nih.gov/pubmed/9218963 ER -