title: An updated structural classification of substrate-binding proteins.
abstract: Substrate-binding proteins (SBPs) play an important role in solute uptake and signal transduction. In 2010, Berntsson et al. classified the 114 organism-specific SBP structures available at that time and defined six protein clusters, based on their structural similarity. Since then, the number of unique SBP structures has increased almost fivefold, whereas the number of protein entries in the Protein Data Bank (PDB) nearly doubled. On the basis of the much larger dataset, we now subclassify the SBPs within the original clusters. Moreover, we propose a 7th cluster based on a small group of SBPs with structural features significantly different from those observed in the other proteins.
authors.affiliation: Department of Biochemistry, Groningen Biomolecular Sciences and Biotechnology Institute, Zernike Institute for Advanced Materials, University of Groningen, The Netherlands.
authors.forename: Giel H
authors.identifier: http://orcid.org/0000-0003-3128-9436
authors.initials: GH
authors.lastname: Scheepers
authors.affiliation: Department of Biochemistry, Groningen Biomolecular Sciences and Biotechnology Institute, Zernike Institute for Advanced Materials, University of Groningen, The Netherlands.
authors.forename: Jelger A
authors.initials: JA
authors.lastname: Lycklama A Nijeholt
authors.affiliation: Department of Biochemistry, Groningen Biomolecular Sciences and Biotechnology Institute, Zernike Institute for Advanced Materials, University of Groningen, The Netherlands.
authors.forename: Bert
authors.initials: B
authors.lastname: Poolman
mesh_terms: D019295:Computational Biology; D030562:Databases, Protein; D008958:Models, Molecular; D011485:Protein Binding; D000072756:Protein Conformation, alpha-Helical; D011506:Proteins / Q000737:chemistry* / Q000378:metabolism
chemical_list: D011506:Proteins
keywords: ABC transporter; membrane protein; signal transduction; solute transport; structural classification; substrate-binding protein