Direct structure refinement against residual dipolar couplings in the presence of rhombicity of unknown magnitude.

Residual dipolar couplings arising from small degrees of alignment of molecules in a magnetic field provide unique long-range structural information. The potential of this approach for structure refinement has recently been demonstrated for a protein-DNA complex in which the magnetic susceptibility tensor was axially symmetric. For most macromolecules and macromolecular complexes, however, axial symmetry cannot be assumed. Moreover, the presence of significant rhombicity will clearly affect the accuracy of the resulting coordinates. In this Communication we present a simple calculational strategy that makes use of simulated annealing refinement against the residual dipolar couplings in combination with a grid search, to simultaneously refine the structures and ascertain the magnitude of the axial and rhombic components of the tensor.

[1]  P. Bolton,et al.  Magnetic alignment of duplex and quadruplex DNAs. , 1995, Journal of magnetic resonance. Series B.

[2]  J. Waugh,et al.  Upper Limit to the Electric‐Field Effect on the NMR Spectrum of Nitromethane , 1967 .

[3]  L. C. Snyder Analysis of Nuclear Magnetic Resonance Spectra of Molecules in Liquid‐Crystal Solvents , 1965 .

[4]  P. Zijl,et al.  High-Resolution NMR of Liquids and Gases: Effects of Magnetic-Field-Induced Molecular Alignment , 1988 .

[5]  G M Clore,et al.  Exploring the limits of precision and accuracy of protein structures determined by nuclear magnetic resonance spectroscopy. , 1993, Journal of molecular biology.

[6]  J H Prestegard,et al.  Nuclear magnetic dipole interactions in field-oriented proteins: information for structure determination in solution. , 1995, Proceedings of the National Academy of Sciences of the United States of America.

[7]  C. Maclean,et al.  Magnetic field induced alignment effects in 2H NMR spectra , 1978 .

[8]  C. Gayathri,et al.  Dipolar magnetic field effects in NMR spectra of liquids , 1982 .

[9]  R J Read,et al.  Crystallography & NMR system: A new software suite for macromolecular structure determination. , 1998, Acta crystallographica. Section D, Biological crystallography.

[10]  E. Hahn,et al.  Erratum: Upper Limits to Electric‐Field‐Induced Nuclear Magnetic Dipole—Dipole Couplings in Polar Liquids , 1966 .

[11]  Robin K. Harris,et al.  Encyclopedia of nuclear magnetic resonance , 1996 .

[12]  J. Lindon,et al.  NMR Spectroscopy Using Liquid Crystal Solvents , 1975 .

[13]  A. Gronenborn,et al.  Determination of three-dimensional structures of proteins by simulated annealing with interproton distance restraints. Application to crambin, potato carboxypeptidase inhibitor and barley serine proteinase inhibitor 2. , 1988, Protein engineering.

[14]  K. Mclauchlan,et al.  Chapter 2 High resolution nuclear magnetic resonance in partially oriented molecules , 1967 .

[15]  J. Bulthuis,et al.  NMR of partially aligned liquids: magnetic susceptibility anisotropies and dielectric properties , 1984 .

[16]  Kevin M. Smith,et al.  High‐field orientation effects in the high‐resolution proton NMR spectra of diverse porphyrins , 1985 .

[17]  D. S. Garrett,et al.  Solution structure of the 30 kDa N-terminal domain of enzyme I of the Escherichia coli phosphoenolpyruvate:sugar phosphotransferase system by multidimensional NMR. , 1997, Biochemistry.

[18]  Ad Bax,et al.  Magnetic Field Dependence of Nitrogen−Proton J Splittings in 15N-Enriched Human Ubiquitin Resulting from Relaxation Interference and Residual Dipolar Coupling , 1996 .

[19]  A. Bax,et al.  Direct measurement of distances and angles in biomolecules by NMR in a dilute liquid crystalline medium. , 1997, Science.