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Sensing preferences for prokaryotic solute binding protein families

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dc.contributor.authorOrtega Retuerta, Álvaro
dc.contributor.authorCerna-Vargas, Jean Paul
dc.contributor.authorSánchez-Romera, Beatriz
dc.contributor.authorMatilla, Miguel A.
dc.contributor.authorKrell, Tino
dc.contributor.departmentBioquímica y Biología Molecular B e Inmunología
dc.date.accessioned2026-02-20T11:09:43Z
dc.date.available2026-02-20T11:09:43Z
dc.date.copyright© 2023 The Authors
dc.date.issued2023-08-07
dc.description.abstractSolute binding proteins (SBPs) are of central physiological relevance for prokaryotes. These proteins present substrates to transporters, but they also stimulate different signal transduction receptors. SBPs form a superfamily of at least 33 protein Pfam families. To assess possible links between SBP sequence and the ligand recognized, we have inspected manually all SBP three-dimensional structures deposited in the protein data bank and retrieved 748 prokaryotic structures that have been solved in complex with bound ligand. These structures were classified into 26 SBP Pfam families. The analysis of the ligands recognized revealed that most families possess a preference for a compound class. There were three families each that bind preferentially saccharides and amino acids. In addition, we identified families that bind preferentially purines, quaternary amines, iron and iron-chelating compounds, oxoanions, bivalent metal ions or phosphates. Phylogenetic analyses suggest convergent evolutionary events that lead to families that bind the same ligand. The functional link between chemotaxis and compound uptake is reflected in similarities in the ligands recognized by SBPs and chemoreceptors. Associating Pfam families with ligand profiles will be of help to design experimental strategies aimed at the identification of ligands for uncharacterized SBPs.
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dc.format.extent11
dc.identifier.citationMicrobial Biotechnology. 2023;16:1823–1833
dc.identifier.doihttps://doi.org/10.1111/1751-7915.14292
dc.identifier.eissn1751-7915
dc.identifier.urihttp://hdl.handle.net/10201/209201
dc.languageeng
dc.publisherWiley
dc.relationConsejería de Economía, Innovación, Ciencia y Empleo, Junta de Andalucía, Grant/Award Number: P18-FR-1621; Ministerio de Ciencia e Innovación, Grant/Award Number: PID2019-103972GA-I00, PID2020-112612GB-I00 and PID2021-122202OB-I00; Unión EuropeaNextGeneration, Grant/Award Number: EU RD 289/2021
dc.relation.publisherversionhttps://enviromicro-journals.onlinelibrary.wiley.com/doi/full/10.1111/1751-7915.14292
dc.rightsAttribution-NonCommercial 4.0 International*
dc.rights.accessRightsinfo:eu-repo/semantics/openAccess
dc.rights.urihttp://creativecommons.org/licenses/by-nc/4.0/*
dc.subject.odsObjetivo 12: Producción y consumo sostenibles
dc.titleSensing preferences for prokaryotic solute binding protein families
dc.typeinfo:eu-repo/semantics/article
dc.type.versioninfo:eu-repo/semantics/publishedVersion
dspace.entity.typePublicationes
relation.isAuthorOfPublication12370e68-6859-4506-8ff9-cd5c6b488194
relation.isAuthorOfPublication.latestForDiscovery12370e68-6859-4506-8ff9-cd5c6b488194
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