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Insights into the importance of WPD-loop sequence for activity and structure in protein tyrosine phosphatases
Utah State Univ, Dept Chem & Biochem, Logan, UT 84322 USA..
Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry - BMC, Biochemistry. Uppsala University, Science for Life Laboratory, SciLifeLab.ORCID iD: 0000-0003-4709-5353
Utah State Univ, Dept Chem & Biochem, Logan, UT 84322 USA..
Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry - BMC, Biochemistry. Uppsala University, Science for Life Laboratory, SciLifeLab.ORCID iD: 0000-0001-9209-868x
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2022 (English)In: Chemical Science, ISSN 2041-6520, E-ISSN 2041-6539, Vol. 13, no 45, p. 13524-13540Article in journal (Refereed) Published
Abstract [en]

Protein tyrosine phosphatases (PTPs) possess a conserved mobile catalytic loop, the WPD-loop, which brings an aspartic acid into the active site where it acts as an acid/base catalyst. Prior experimental and computational studies, focused on the human enzyme PTP1B and the PTP from Yersinia pestis, YopH, suggested that loop conformational dynamics are important in regulating both catalysis and evolvability. We have generated a chimeric protein in which the WPD-loop of YopH is transposed into PTP1B, and eight chimeras that systematically restored the loop sequence back to native PTP1B. Of these, four chimeras were soluble and were subjected to detailed biochemical and structural characterization, and a computational analysis of their WPD-loop dynamics. The chimeras maintain backbone structural integrity, with somewhat slower rates than either wild-type parent, and show differences in the pH dependency of catalysis, and changes in the effect of Mg2+. The chimeric proteins' WPD-loops differ significantly in their relative stability and rigidity. The time required for interconversion, coupled with electrostatic effects revealed by simulations, likely accounts for the activity differences between chimeras, and relative to the native enzymes. Our results further the understanding of connections between enzyme activity and the dynamics of catalytically important groups, particularly the effects of non-catalytic residues on key conformational equilibria.

Place, publisher, year, edition, pages
Royal Society of Chemistry, 2022. Vol. 13, no 45, p. 13524-13540
National Category
Biochemistry Molecular Biology
Identifiers
URN: urn:nbn:se:uu:diva-490545DOI: 10.1039/d2sc04135aISI: 000886051100001PubMedID: 36507179OAI: oai:DiVA.org:uu-490545DiVA, id: diva2:1719589
Funder
Knut and Alice Wallenberg Foundation, 2018.0140Knut and Alice Wallenberg Foundation, 2019.0431Swedish Research Council, 2019-03499Swedish National Infrastructure for Computing (SNIC), 2019/2-1Swedish National Infrastructure for Computing (SNIC), 2019/3-258Swedish National Infrastructure for Computing (SNIC), 2020/5-250Available from: 2022-12-15 Created: 2022-12-15 Last updated: 2025-02-20Bibliographically approved

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Crean, Rory M.Corbella Morató, MarinaCalixto, Ana R.Kamerlin, Shina C. L.

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