Communication

Design of a Conformation-Sensitive Xenon-Binding Cavity in the Ribose-Binding Protein^†

Thomas J. Lowery

Department of Chemistry, University of California at Berkeley, Berkeley, CA 94720, USA

Physical Biosciences Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720, USA, Fax: (+1) 510-486-6059

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Seth M. Rubin Dr.,

Seth M. Rubin Dr.

Department of Chemistry, University of California at Berkeley, Berkeley, CA 94720, USA

Physical Biosciences Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720, USA, Fax: (+1) 510-486-6059

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E. Janette Ruiz Dr.,

E. Janette Ruiz Dr.

Department of Chemistry, University of California at Berkeley, Berkeley, CA 94720, USA

Material Sciences Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720, USA

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Alexander Pines Prof.,

Alexander Pines Prof.

Department of Chemistry, University of California at Berkeley, Berkeley, CA 94720, USA

Material Sciences Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720, USA

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David E. Wemmer Prof.,

David E. Wemmer Prof.

[email protected]

Department of Chemistry, University of California at Berkeley, Berkeley, CA 94720, USA

Physical Biosciences Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720, USA, Fax: (+1) 510-486-6059

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Thomas J. Lowery,

Thomas J. Lowery

Department of Chemistry, University of California at Berkeley, Berkeley, CA 94720, USA

Physical Biosciences Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720, USA, Fax: (+1) 510-486-6059

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Seth M. Rubin Dr.,

Seth M. Rubin Dr.

Department of Chemistry, University of California at Berkeley, Berkeley, CA 94720, USA

Physical Biosciences Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720, USA, Fax: (+1) 510-486-6059

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E. Janette Ruiz Dr.,

E. Janette Ruiz Dr.

Department of Chemistry, University of California at Berkeley, Berkeley, CA 94720, USA

Material Sciences Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720, USA

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Alexander Pines Prof.,

Alexander Pines Prof.

Department of Chemistry, University of California at Berkeley, Berkeley, CA 94720, USA

Material Sciences Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720, USA

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David E. Wemmer Prof.,

David E. Wemmer Prof.

[email protected]

Department of Chemistry, University of California at Berkeley, Berkeley, CA 94720, USA

Physical Biosciences Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720, USA, Fax: (+1) 510-486-6059

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First published: 23 November 2004

https://doi.org/10.1002/anie.200460629

Citations: 18

^†

This work was supported by the Director, U.S. Department of Energy, under Contract No. DE-AC03-76F00098, through the Office of Naval Research (MDI-II), and through the Laboratory Directorate Research and Development Program of Lawrence Berkeley National Laboratory. We thank Prof. S. Mowbray for the ribose-binding-protein gene, H. Yokota for helpful advice with cloning, Dr. S. Burley for the pSKB3 plasmid, Dr. D. King for mass spectrometry, Prof. S. Marqusee and Dr. C. Park for providing an isothermal titration calorimeter and guidance with urea melt experiments. S.M.R. acknowledges the National Science Foundation and E.J.R. Lucent Technologies/Bell Laboratories for predoctoral fellowships.

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Graphical Abstract

¹²⁹Xe NMR spectroscopy meets protein engineering: NMR spectroscopy with laser-polarized ¹²⁹Xe can be used to report protein conformations only if a protein has a conformationally sensitive xenon-binding cavity. However, many proteins lack such reporter sites. A straightforward design process is used to engineer a xenon-binding cavity into the ribose-binding protein (see picture) that allows the ¹²⁹Xe NMR spectroscopic report of protein conformation and ligand binding.

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Volume43, Issue46

November 26, 2004

Pages 6320-6322

Design of a Conformation-Sensitive Xenon-Binding Cavity in the Ribose-Binding Protein^†

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Design of a Conformation-Sensitive Xenon-Binding Cavity in the Ribose-Binding Protein†

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Design of a Conformation-Sensitive Xenon-Binding Cavity in the Ribose-Binding Protein^†