Determination of the Packing Mode of the Coiled-Coil Domain of cGMP-Dependent Protein Kinase Iα in Solution Using Charge-Predicted Dipolar Couplings

Abstract

Coiled-coil motifs are ubiquitous in biology and play essential roles in protein assembly and molecular recognition. Here, we show that the relative orientation and stoichiometry of coiled-coil proteins in solution can be determined by comparison of residual dipolar couplings (RDCs) measured in charged liquid-crystalline medium with values predicted from the three-dimensional charge distribution of the protein. Comparison of charge-predicted RDCs with a small set of one-bond 1DNH dipolar couplings, measured in the negatively charged liquid-crystalline Pf1 bacteriophage medium, identified the coiled-coil region of the cGMP-dependent protein kinase I as a parallel homodimer in solution and ruled out an antiparallel dimeric or monomeric state. The method is very rapid, applicable to a wide variety of liquid crystals used in biological NMR to date, and can be applied to coiled-coil structures and other proteins with higher order assembly.