Structural characterization of MG and pre-MG states of proteins by MD simulations, NMR, and other techniques

Abstract

Almost all proteins fold via a number of partially structured intermediates such as molten globule (MG) and pre-molten globule states. Understanding the structure of these intermediates at atomic level is often a challenge, as these states are observed under extreme conditions of pH, temperature, and chemical denaturants. Furthermore, several other processes such as chemical modification, site-directed mutagenesis (or point mutation), and cleavage of covalent bond of natural proteins often lead to MG like partially unfolded conformation. However, the dynamic nature of proteins in these states makes them unsuitable for most structure determination at atomic level. Intermediate states studied so far have been characterized mostly by circular dichroism, fluorescence, viscosity, dynamic light scattering measurements, dye binding, infrared techniques, molecular dynamics simulations, etc. There is a limited amount of structural data available on these intermediate states by nuclear magnetic resonance (NMR) and hence there is a need to characterize these states at the molecular level. In this review, we present characterization of equilibrium intermediates by biophysical techniques with special reference to NMR.

Keywords:

• nuclear magnetic resonance
• protein folding
• molten globule
• pre-molten globule
• protein denaturation
• thermodynamic stability
• MD simulation

Acknowledgments

MIH and FA are thankful to the Department of Science and Technology, Government of India for financial assistance. AN thanks the Indian Council of Medical Research (INDIA) for the award of Senior Research Fellowship.