Biocatalyst activity in nonaqueous environments correlates with centisecond-range protein motions

Ross K. Eppler, Elton P. Hudson, Shannon D. Chase, Jonathan S. Dordick, Jeffrey A. Reimer, and Douglas S. Clark
PNAS October 14, 2008 105 (41) 15672-15677; https://doi.org/10.1073/pnas.0804566105

  1. Edited by Alexander M. Klibanov, Massachusetts Institute of Technology, Cambridge, MA, and approved August 26, 2008 (received for review June 2, 2008)

Abstract

Recent studies exploring the relationship between enzymatic catalysis and protein dynamics in the aqueous phase have yielded evidence that dynamics and enzyme activity are strongly correlated. Given that protein dynamics are significantly attenuated in organic solvents and that proteins exhibit a wide range of motions depending on the specific solvent environment, the nonaqueous milieu provides a unique opportunity to examine the role of protein dynamics in enzyme activity. Variable-temperature kinetic measurements, X-band electron spin resonance spectroscopy, 1H NMR relaxation, and 19F NMR spectroscopy experiments were performed on subtilisin Carlsberg colyophilized with several inorganic salts and suspended in organic solvents. The results indicate that salt activation induces a greater degree of transition-state flexibility, reflected by a more positive ΔΔS†, for the more active biocatalyst preparations in organic solvents. In contrast, ΔΔH† was negligible regardless of salt type or salt content. Electron spin resonance spectroscopy and 1H NMR relaxation measurements, including spin-lattice relaxation, spin-lattice relaxation in the rotating frame, and longitudinal magnetization exchange, revealed that the enzyme's turnover number (kcat) was strongly correlated with protein motions in the centisecond time regime, weakly correlated with protein motions in the millisecond regime, and uncorrelated with protein motions on the piconanosecond timescale. In addition, 19F chemical shift measurements and hyperfine tensor measurements of biocatalyst formulations inhibited with 4-fluorobenzenesulfonyl fluoride and 4-ethoxyfluorophosphinyl-oxy-TEMPO, respectively, suggest that enzyme activation was only weakly affected by changes in active-site polarity.

Footnotes

  • §To whom correspondence should be addressed at:
    Department of Chemical Engineering, University of California, 201 Gilman Hall, Berkeley, CA 94720.
    E-mail: clark{at}berkeley.edu

  • Author contributions: R.K.E., J.S.D., J.A.R., and D.S.C. designed research; R.K.E. and S.D.C. performed research; R.K.E., E.P.H., S.D.C., J.A.R., and D.S.C. analyzed data; and R.K.E., E.P.H., J.S.D., J.A.R., and D.S.C. wrote the paper.

  • The authors declare no conflict of interest.

  • This article is a PNAS Direct Submission.

  • ↵ If ESL binds to residues other than Ser-221, spectra of SC inhibited with PMSF and prepared in the same manner should include a signal indicative of nonspecifically bound ESL. These control experiments revealed no evidence of an ESR signal due to nonspecific binding of ESL (data not shown); thus, the spectra in Fig. 6 are of SC spin-labeled exclusively at Ser-221.

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Biocatalyst activity in nonaqueous environments correlates with centisecond-range protein motions
Ross K. Eppler, Elton P. Hudson, Shannon D. Chase, Jonathan S. Dordick, Jeffrey A. Reimer, Douglas S. Clark
Proceedings of the National Academy of Sciences Oct 2008, 105 (41) 15672-15677; DOI: 10.1073/pnas.0804566105
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