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Native Hydrophobic Binding Interactions at the Transition State for Association between the TAZ1 Domain of CBP and the Disordered TAD-STAT2 Are Not a Requirement
Stockholm University, Faculty of Science, Department of Biochemistry and Biophysics.
Stockholm University, Faculty of Science, Department of Biochemistry and Biophysics.
Number of Authors: 22017 (English)In: Biochemistry, ISSN 0006-2960, E-ISSN 1520-4995, Vol. 56, no 32, p. 4145-4153Article in journal (Refereed) Published
Abstract [en]

A significant fraction of the eukaryotic proteome consists of proteins that are either partially or completely disordered under native-like conditions. Intrinsically disordered proteins (IDPs) are common in protein protein interactions and are involved in numerous cellular processes. Although many proteins have been identified as disordered, much less is known about the binding mechanisms of the coupled binding and folding reactions involving IDPs. Here we have analyzed the rate-limiting transition state for binding between the TAZ1 domain of CREB binding protein and the intrinsically disordered transactivation domain of STAT2 (TAD-STAT2) by site-directed mutagenesis and kinetic experiments (Phi-value analysis) and found that the native protein protein binding interface is not formed at the transition state for binding. Instead, native hydrophobic binding interactions form late, after the rate-limiting barrier has been crossed. The association rate constant in the absence of electrostatic enhancement was determined to be rather high. This is consistent with the (Phi-value analysis, which showed that there are few or no obligatory native contacts. Also, linear free energy relationships clearly demonstrate that native interactions are cooperatively formed, a scenario that has usually been observed for proteins that fold according to the so-called nucleation condensation mechanism. Thus, native hydrophobic binding interactions at the rate limiting transition state for association between TAD-STAT2 and TAZ1 are not a requirement, which is generally in agreement with previous findings on other IDP systems and might be a common mechanism for IDPs.

Place, publisher, year, edition, pages
2017. Vol. 56, no 32, p. 4145-4153
National Category
Biological Sciences
Identifiers
URN: urn:nbn:se:su:diva-147083DOI: 10.1021/acs.biochem.7b00428ISI: 000407987600005PubMedID: 28707474OAI: oai:DiVA.org:su-147083DiVA, id: diva2:1149449
Available from: 2017-10-16 Created: 2017-10-16 Last updated: 2022-02-28Bibliographically approved
In thesis
1. Biophysical characterization of protein-protein interactions involving intrinsically disordered proteins
Open this publication in new window or tab >>Biophysical characterization of protein-protein interactions involving intrinsically disordered proteins
2021 (English)Doctoral thesis, comprehensive summary (Other academic)
Abstract [en]

Intrinsically disordered proteins and regions (IDPs/Rs) are proteins that do not form stable and well-defined structures in their free states but rather occupy an ensemble of conformations that change over time while still staying functional. They are prevalent in the eukaryotic proteome and are involved in various vital processes in the cell where they often interact with their binding partners through coupled binding and folding reactions. The knowledge on the molecular details of these interactions is still limited as is the role of dynamics and conformational entropy changes. In this thesis binding interactions between IDPs and a folded protein domain have been studied in more detail. The rate-limiting transition states (TS) of binding have been examined using kinetic experiments and protein engineering (F-value analysis), and the picosecond to nanosecond backbone and side-chain dynamics of these interactions have been studied with nuclear magnetic resonance (NMR) spectroscopy. To study these properties the globular TAZ1 domain of the CREB binding protein (CBP) and three of its interaction partners, the disordered transactivation domains of STAT2, HIF-1a and RelA have been selected. At the rate limiting transition states of binding for TAZ1/TAD-STAT2 and TAZ1/CTAD-HIF-1a native hydrophobic binding contacts are largely absent. These interactions are instead formed cooperatively after passing the rate-limiting barrier. The results from the backbone and side-chain dynamic studies show that the internal motions for both binding partners are significantly affected by the interactions. Changes in dynamics upon binding correspond to conformational entropy changes that contribute significantly to the binding thermodynamics, and are in the same order of magnitude as the binding enthalpy. Additionally, the conformational entropy changes for TAZ1 vary when binding to the different IDPs, demonstrating the importance of conformational entropy. In conclusion, this work contributes to the understanding of the nature of binding interactions involving intrinsically disordered proteins.

Place, publisher, year, edition, pages
Stockholm: Department of Biochemistry and Biophysics, Stockholm University, 2021. p. 54
Keywords
Intrinsically disordered proteins, Protein-protein interactions, Disorder-to-order transition, Rate-limiting transition state, Ф-value analysis, NMR relaxation, Side-chain dynamics, Backbone dynamics, Conformational entropy change
National Category
Biophysics
Research subject
Biophysics
Identifiers
urn:nbn:se:su:diva-186770 (URN)978-91-7911-370-4 (ISBN)978-91-7911-371-1 (ISBN)
Public defence
2021-01-29, Magnélisalen, Kemiska övningslaboratoriet, Svante Arrhenius väg 16 B, Stockholm, 10:00 (English)
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Available from: 2020-12-21 Created: 2020-11-25 Last updated: 2025-02-20Bibliographically approved

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Lindström, IdaDogan, Jakob

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