Kinetic modulation of a disordered protein domain by phosphorylation

Nathaniel Stanley, Santiago Esteban-Martín () and Gianni De Fabritiis ()
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Nathaniel Stanley: Computational Biophysics Laboratory (GRIB-IMIM), Universitat Pompeu Fabra, Barcelona Biomedical Research Park (PRBB)
Santiago Esteban-Martín: Joint BSC-IRB-CRG Research Programme in Computational Biology, Barcelona Supercomputing Center - BSC
Gianni De Fabritiis: Computational Biophysics Laboratory (GRIB-IMIM), Universitat Pompeu Fabra, Barcelona Biomedical Research Park (PRBB)

Nature Communications, 2014, vol. 5, issue 1, 1-8

Abstract: Abstract Phosphorylation is a major post-translational mechanism of regulation that frequently targets disordered protein domains, but it remains unclear how phosphorylation modulates disordered states of proteins. Here we determine the kinetics and energetics of a disordered protein domain the kinase-inducible domain (KID) of the transcription factor CREB and that of its phosphorylated form pKID, using high-throughput molecular dynamic simulations. We identify the presence of a metastable, partially ordered state with a 60-fold slowdown in conformational kinetics that arises due to phosphorylation, kinetically stabilizing residues known to participate in an early binding intermediate. We show that this effect is only partially reconstituted by mutation to glutamate, indicating that the phosphate is uniquely required for the long-lived state to arise. This mechanism of kinetic modulation could be important for regulation beyond conformational equilibrium shifts.

Date: 2014
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DOI: 10.1038/ncomms6272

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