title: Database of protein complexes with multivalent binding ability: Bival-Bind.
abstract: Phenomena of multivalent binding of ligands with receptors are ubiquitous in biology and of growing interest in material sciences. Multivalency can enhance binding affinity dramatically. To understand the mechanism of multivalent binding in more detail model systems of bi- and multivalent receptors are needed, but are difficult to find. Furthermore it is useful to know about multivalent receptors, which can serve as targets to design multivalent drugs. The present contribution tries to close this gap. The Bival-Bind database (http://agknapp.chemie.fu-berlin.de/bivalbind) provides a relatively complete list - 2073 protein complexes with less than 90% sequence identity - out of the protein database, which can serve as bi- or multivalent receptors. Steric clashes of molecular spacers - necessary to connect the monomeric ligand units - with the receptor surface can diminish binding affinity dramatically and, thus, abolish the expected enhancement of binding affinity due to the multivalency. The potential multivalent receptors in the Bival-Bind database are characterized with respect to the receptor surface topography. A height profile between the receptor binding pockets is provided, which is an important information to estimate the influence of unfavorable spacer receptor interaction.
authors.affiliation: Fachbereich Biologie Chemie, Pharmazie/Institute of Chemistry and Biochemistry, Freie Universität Berlin, 14195, Berlin, Germany.
authors.forename: Tim
authors.initials: T
authors.lastname: Meyer
authors.forename: Ernst-Walter
authors.initials: EW
authors.lastname: Knapp
mesh_terms: D030562:Databases, Protein; D008024:Ligands; D011485:Protein Binding; D011956:Receptors, Cell Surface / Q000378:metabolism
chemical_list: D008024:Ligands; D011956:Receptors, Cell Surface
keywords: binding enhancement; multivalent binding; multivalent receptor; polymeric drug delivery systems; polymeric spacer; protein binding; structure property relationship