The effect of helix-coil transition on backbone N-15 NMR relaxation of isolated transmembrane segment (1-36)-bacteriorhodopsin

In this paper we develop a motional model of isolated transmembrane segment 1-36 bacteriorhodopsin (BR) in a weakly polar organic mixture. The model i s based on the statistical mechanics theory [Lifson, S. and Roig, A. (1961) J. Chem. Phys., 34, 1963-1974] and represents the dynamics of 1-36BR as an interconversion between a limited number of intermediates of alpha-helix - random coil transition. The equilibrium parameters of helix-coil transitio n were selected by the comparison of calculated profiles of mean residual h elicity of 1-36BR with the available experimental data. The kinetic modelin g of the helix-coil transition was used for calculation of the correlation functions of internal motions of the backbone NH vectors. The calculated co rrelation functions are multiexponential and consist of two groups of expon ential terms: 'fast' (pico-nanoseconds) and 'slow' (sub-microseconds). The decay of the correlation functions on the pico-nanosecond time-scale was us ed for qualitative estimates of NMR observable order parameters of the back bone NH vectors. The calculated order parameters are in good correspondence with the experimental values obtained from 'model-free' analysis of H-1-N- 15 NMR relaxation data [Orekhov et al. (1999) J. Biomol. NMR, 14, 345-356]. Low and uniform (over the peptide) order parameters of nanosecond time-sca le motions (S-s(2) similar to 0.5-0.6) are accounted for by the exchange be tween kinked states with several alpha-helical regions within 1-36BR. These states are caused by the presence of helix breaking residues Gly and Thr i n the central part of 1-36BR.