title: An automated program to screen databases for members of protein families.
abstract: We have developed a program, ScreenTransporter (ST), to screen for potential members of recognized transporter families. This program uses Blastpgp as the engine to search a nonredundant database, NRDB90, based on an adjustable E-value cut-off as well as adjustable protein size criteria. Additional parameters can be integrated in later versions. ST is convenient for easily obtaining nonredundant members of transporter families starting from several homologous query sequences. The program can be applied to any protein family.
authors.affiliation: Division of Biology, University of California at San Diego, La Jolla, California 92093-0116, USA.
authors.forename: Xiaofeng
authors.initials: X
authors.lastname: Zhou
authors.forename: Rikki N
authors.initials: RN
authors.lastname: Hvorup
authors.forename: Milton H
authors.initials: MH
authors.lastname: Saier
mesh_terms: D019295:Computational Biology / Q000379:methods*; D030562:Databases, Protein; D020407:Internet; D026901:Membrane Transport Proteins / Q000737:chemistry* / Q000235:genetics; D017386:Sequence Homology, Amino Acid; D012984:Software
chemical_list: D026901:Membrane Transport Proteins