Influence of whole-body dynamics on 15N PISEMA NMR spectra of membrane proteins: a theoretical analysis.
Membrane proteins and peptides exhibit a preferred orientation in the lipid bilayer while fluctuating in an anisotropic manner. Both the orientation and the dynamics have direct functional implications, but motions are usually not accessible, and structural descriptions are generally static. Using simulated data, we analyze systematically the impact of whole-body motions on the peptide orientations calculated from two-dimensional polarization inversion spin exchange at the magic angle (PISEMA) NMR. Fluctuations are found to have a significant effect on the observed spectra. Nevertheless, wheel-like patterns are still preserved, and it is possible to determine the average peptide tilt and azimuthal rotation angles using simple static models for the spectral fitting. For helical peptides undergoing large-amplitude fluctuations, as in the case of transmembrane monomers, improved fits can be achieved using an explicit dynamics model that includes Gaussian distributions of the orientational parameters. This method allows extracting the amplitudes of fluctuations of the tilt and azimuthal rotation angles. The analysis is further demonstrated by generating first a virtual PISEMA spectrum from a molecular dynamics trajectory of the model peptide, WLP23, in a lipid membrane. That way, the dynamics of the system from which the input spectrum originates is completely known at atomic detail and can thus be directly compared with the dynamic output obtained from the fit. We find that fitting our dynamics model to the polar index slant angles wheel gives an accurate description of the amplitude of underlying motions, together with the average peptide orientation.
Esteban-Martín
Santi
S
Instituto de Ciencia Molecular, Universidad de Valencia, 46980 Paterna (Valencia), Spain.
Strandberg
Erik
E
Fuertes
Gustavo
G
Ulrich
Anne S
AS
Salgado
Jesús
J
D003198:Computer Simulation; D004134:Dimyristoylphosphatidylcholine / Q000737:chemistry; D008051:Lipid Bilayers / Q000737:chemistry*; D008958:Models, Molecular; D016011:Normal Distribution; D019906:Nuclear Magnetic Resonance, Biomolecular; D009949:Orientation; D010455:Peptides / Q000737:chemistry*; D017433:Protein Structure, Secondary; D012399:Rotation
D008051:Lipid Bilayers; D010455:Peptides; D004134:Dimyristoylphosphatidylcholine