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Cooperative folding as a molecular switch in an evolved antibody binder
Department of Protein Science, KTH-Royal Institute of Technology, Stockholm, Sweden.
Umeå University, Faculty of Science and Technology, Department of Chemistry.ORCID iD: 0000-0002-5636-2567
Umeå University, Faculty of Science and Technology, Department of Chemistry.
Department of Protein Science, KTH-Royal Institute of Technology, Stockholm, Sweden.
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2024 (English)In: Journal of Biological Chemistry, ISSN 0021-9258, E-ISSN 1083-351X, Vol. 300, no 11, article id 107795Article in journal (Refereed) Published
Abstract [en]

Designing proteins with tunable activities from easily accessible external cues remains a biotechnological challenge. Here, we set out to create a small antibody-binding domain equipped with a molecular switch inspired by the allosteric response to calcium seen in naturally derived proteins like calmodulin. We have focused on one of the three domains of Protein G that show inherent affinity to antibodies. By combining a semi-rational protein design with directed evolution, we engineered novel variants containing a calcium-binding loop rendering the inherent antibody affinity calcium-dependent. The evolved variants resulted from a designed selection strategy subjecting them to negative and positive selection pressures focused on conditional antibody binding. Hence, these variants contains molecular "on/off" switches, controlling the target affinity towards antibody fragments simply by the presence or absence of calcium. From NMR spectroscopy we found that the molecular mechanism underlying the evolved switching behavior was a coupled calcium-binding and folding event where the target binding surface was intact and functional only in the presence of bound calcium. Notably, it was observed that the response to the employed selection pressures gave rise to the evolution of a cooperative folding mechanism. This observation illustrates why the cooperative folding reaction is an effective solution seen repeatedly in the natural evolution of fine-tuned macromolecular recognition. Engineering binding moieties to confer conditional target interaction has great potential due to the exquisite interaction control that is tunable to application requirements. Improved understanding of the molecular mechanisms behind regulated interactions is crucial to unlock how to engineer switchable proteins useful in a variety of biotechnological applications.

Place, publisher, year, edition, pages
Elsevier, 2024. Vol. 300, no 11, article id 107795
Keywords [en]
allostery, calcium, directed evolution, metal-dependency, NMR, protein engineering, protein switch
National Category
Biochemistry Molecular Biology
Identifiers
URN: urn:nbn:se:umu:diva-231157DOI: 10.1016/j.jbc.2024.107795ISI: 001339968800001PubMedID: 39305954Scopus ID: 2-s2.0-85206546452OAI: oai:DiVA.org:umu-231157DiVA, id: diva2:1909416
Funder
Swedish Research Council, 2021-04289Swedish Research Council, 2021-04513The Kempe FoundationsAvailable from: 2024-10-30 Created: 2024-10-30 Last updated: 2025-04-24Bibliographically approved

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Ul Mushtaq, AmeeqNagy, Tamás MilánWolf-Watz, Magnus

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