Efficient chi-tensor determination and NH assignment of paramagnetic proteins

J Biomol NMR. 2006 Jun;35(2):79-87. doi: 10.1007/s10858-006-9002-4. Epub 2006 Jun 10.

Abstract

Anisotropic magnetic susceptibility tensors chi of paramagnetic metal ions are manifested in pseudocontact shifts, residual dipolar couplings, and other paramagnetic observables that present valuable long-range information for structure determinations of protein-ligand complexes. A program was developed for automatic determination of the chi-tensor anisotropy parameters and amide resonance assignments in proteins labeled with paramagnetic metal ions. The program requires knowledge of the three-dimensional structure of the protein, the backbone resonance assignments of the diamagnetic protein, and a pair of 2D 15N-HSQC or 3D HNCO spectra recorded with and without paramagnetic metal ion. It allows the determination of reliable chi-tensor anisotropy parameters from 2D spectra of uniformly 15N-labeled proteins of fairly high molecular weight. Examples are shown for the 185-residue N-terminal domain of the subunit epsilon from E. coli DNA polymerase III in complex with the subunit theta and La3+ in its diamagnetic and Dy3+, Tb3+, and Er3+ in its paramagnetic form.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Algorithms*
  • Anisotropy
  • DNA Polymerase III / chemistry
  • Escherichia coli / enzymology
  • Lanthanoid Series Elements / chemistry
  • Magnetics
  • Metalloproteins / chemistry*
  • Nitrogen Isotopes
  • Nuclear Magnetic Resonance, Biomolecular / methods*
  • Protein Subunits / chemistry
  • Software

Substances

  • Lanthanoid Series Elements
  • Metalloproteins
  • Nitrogen Isotopes
  • Protein Subunits
  • DNA Polymerase III