Article

Dipolar chemical shift correlation spectroscopy for homonuclear carbon distance measurements in proteins in the solid state: application to structure determination and refinement.

Department of Physics, Department of Molecular and Cellular Biology, and Biophysics Interdepartmental Group, University of Guelph, 50 Stone Road East, Guelph, Ontario, Canada.
Journal of the American Chemical Society (impact factor: 9.91). 02/2008; 130(1):359-69. DOI:10.1021/ja076658v pp.359-69
Source: PubMed

ABSTRACT High-resolution solid-state NMR spectroscopy has become a promising tool for protein structure determination. Here, we describe a new dipolar-chemical shift correlation experiment for the measurement of homonuclear 13C-13C distances in uniformly 13C,15N-labeled proteins and demonstrate its suitability for protein structure determination and refinement. The experiments were carried out on the beta1 immunoglobulin binding domain of protein G (GB1). Both intraresidue and interresidue distances between carbonyl atoms and atoms in the aliphatic side chains were collected using a three-dimensional chemical shift correlation spectroscopy experiment that uses homogeneously broadened rotational resonance recoupling for carbon mixing. A steady-state approximation for the polarization transfer function was employed in data analysis, and a total of 100 intramolecular distances were determined, all in the range 2.5-5.5 A. An additional 41 dipolar contacts were detected, but the corresponding distances could not be accurately quantified. Additional distance and torsional restraints were derived from the proton-driven spin diffusion measurements and from the chemical shift analysis, respectively. Using all these restraints, it was possible to refine the structure of GB1 to a root-mean square deviation of 0.8 A. The approach is of general applicability for peptides and small proteins and can be easily incorporated into a structure determination and refinement protocol.

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Keywords

100 intramolecular distances
 
additional 41 dipolar contacts
 
Additional distance
 
aliphatic side chains
 
chemical shift analysis
 
corresponding distances
 
diffusion measurements
 
general applicability
 
High-resolution solid-state NMR spectroscopy
 
homonuclear 13C-13C distances
 
new dipolar-chemical shift correlation experiment
 
polarization transfer function
 
protein G
 
protein structure determination
 
refinement protocol
 
root-mean square deviation
 
rotational resonance recoupling
 
structure determination
 
three-dimensional chemical shift correlation spectroscopy experiment
 
uses homogeneously