title: TreeDet: a web server to explore sequence space.
abstract: The TreeDet (Tree Determinant) Server is the first release of a system designed to integrate results from methods that predict functional sites in protein families. These methods take into account the relation between sequence conservation and evolutionary importance. TreeDet fully analyses the space of protein sequences in either user-uploaded or automatically generated multiple sequence alignments. The methods implemented in the server represent three main classes of methods for the detection of family-dependent conserved positions, a tree-based method, a correlation based method and a method that employs a principal component analyses coupled to a cluster algorithm. An additional method is provided to highlight the reliability of the position in the alignments. The server is available at http://www.pdg.cnb.uam.es/servers/treedet.
authors.affiliation: Protein Design Group, CNB-CSIC C/Darwin n.3, 28049, Madrid, Spain.
authors.forename: Angel
authors.initials: A
authors.lastname: Carro
authors.forename: Michael
authors.initials: M
authors.lastname: Tress
authors.forename: David
authors.initials: D
authors.lastname: de Juan
authors.forename: Florencio
authors.initials: F
authors.lastname: Pazos
authors.forename: Pedro
authors.initials: P
authors.lastname: Lopez-Romero
authors.forename: Antonio
authors.initials: A
authors.lastname: del Sol
authors.forename: Alfonso
authors.initials: A
authors.lastname: Valencia
authors.forename: Ana M
authors.initials: AM
authors.lastname: Rojas
mesh_terms: D000595:Amino Acid Sequence; D017124:Conserved Sequence; D020407:Internet; D011506:Proteins / Q000145:classification; D016415:Sequence Alignment / Q000379:methods*; D020539:Sequence Analysis, Protein; D012984:Software; D014584:User-Computer Interface
chemical_list: D011506:Proteins