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Domain–domain motions in proteins from time-modulated pseudocontact shifts

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Abstract

In recent years paramagnetic NMR derived structural constraints have become increasingly popular for the study of biomolecules. Some of these are based on the distance and angular dependences of pseudo contact shifts (PCSs). When modulated by internal motions PCSs also become sensitive reporters on molecular dynamics. We present here an investigation of the domain–domain motion in a two domain protein (PA0128) through time-modulation of PCSs. PA0128 is a protein of unknown function from Pseudomonas aeruginosa (PA) and contains a Zn2+ binding site in the N-terminal domain. When substituted with Co2+ in the binding site, several resonances from the C-terminal domain showed severe line broadening along the 15N dimension. Relaxation compensated CPMG experiments revealed that the dramatic increase in the 15N linewidth came from contributions of chemical exchange. Since several sites with perturbed relaxation are localized to a single β-strand region, and since extracted timescales of motion for the perturbed sites are identical, and since the magnitude of the chemical exchange contributions is consistent with PCSs, the observed rate enhancements are interpreted as the result of concerted domain motion on the timescale of a few milliseconds. Given the predictability of PCS differences and the easy interpretation of the experimental results, we suggest that these effects might be useful in the study of molecular processes occurring on the millisecond to microsecond timescale.

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Acknowledgement

This work is supported by NIH grants GM074958, GM33225 and the Ontario Research and Development Fund. We thank professor Mark Rance at University of Cincinnati for helpful discussions.

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Authors and Affiliations

  1. Southeast Collaboratory for Biomolecular NMR, Complex Carbohydrate Research Center, University of Georgia, Athens, GA, 30602, USA

    X. Wang, J. H. Prestegard & F. Tian

  2. Ontario Cancer Institute & Department of Medical Biophysics, University of Toronto, Toronto, ON, Canada

    S. Srisailam, A. A. Yee, A. Lemak & C. Arrowsmith

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  1. X. Wang
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  2. S. Srisailam
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  3. A. A. Yee
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  4. A. Lemak
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  6. J. H. Prestegard
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  7. F. Tian
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Correspondence to F. Tian.

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Wang, X., Srisailam, S., Yee, A.A. et al. Domain–domain motions in proteins from time-modulated pseudocontact shifts. J Biomol NMR 39, 53–61 (2007). https://doi.org/10.1007/s10858-007-9174-6

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