Molten globule

The term molten globule (MG) was first coined by A. Wada and M Ohgushi in 1983. It was first found in cytochrome c, which conserves a native-like secondary structure content but without the tightly packed protein interior, under low pH and high salt concentration. For cytochrome c and some other proteins, it has been shown that the molten globule state is a "thermodynamic state" clearly different both from the native and the denatured state, demonstrating for the first time the existence of a third equilibirum (i.e., intermediate) state.

The term "molten globule" is extended to include various types of partially folded protein states found in mildly denaturing conditions such as low pH (generally pH = 2), mild denaturant, or high temperature. Molten globules are collapsed and generally have some native-like secondary structure but a dynamic tertiary structure as seen by far and near circular dichroism (CD) spectroscopy, respectively. These traits are similar to those observed in the transient intermediate states found during the folding of certain proteins, especially globular proteins that undergo hydrophobic collapse, and therefore the term "molten globule" is also used to refer to certain protein folding intermediates corresponding to the narrowing region of the folding funnel higher in energy than the native state but lower than the denatured state. The molten globule ensembles sampled during protein folding and unfolding are thought to be roughly similar.

The MG structure is believed to lack the close packing of amino acid side chains that characterize the native state (N) of a protein. The transition from a denatured (U) state to a molten globule may be a two state process

U ↔ MG

Or it may be a continuous transition, with no cooperativity and no apparent "switch" from one form to the other. The folding of some proteins can be modeled as a three-state kinetic process:

U ↔ MG ↔ N

One of the difficulties in de novo protein design is achieving the side chain packing needed to create a stable native state rather than an ensemble of molten globules. Given a desired backbone conformation, side chain packing can be designed using variations of the dead-end elimination algorithm; however, attempts to design proteins of novel folds have difficulty using this method due to an absence of plausible backbone models.

References

• Ohgushi M, Wada A (1983). "'Molten-globule state': a compact form of globular proteins with mobile side-chains.". FEBS Lett. 164 (1): 21–24. doi:10.1016/0014-5793(83)80010-6. PMID 6317443. 
• Kuroda Y, Kidokoro S, Wada A. (1992). "Thermodynamic characterization of cytochrome c at low pH. Observation of the molten globule state and of the cold denaturation process.". J Mol Biol. 1992 20 (223): 1139–53. PMID 1311387. 
• Bieri O, Kiefhaber T (2000-12-15). "Kinetic models in protein folding". In RH Pain. Mechanisms in Protein Folding (2nd ed.). Oxford, UK: Oxford University Press. ISBN 0-19-963788-1. 
• Pande VS, Rokhsar DS (1998). "Is the molten globule a third phase of proteins?". Proc Natl Acad Sci USA 95 (4): 1490–1494. doi:10.1073/pnas.95.4.1490. PMC 19058. PMID 9465042. 

Jaremko, M., Jaremko, L., Kim, H.-Y., Cho, M.-K., Schwieters, C. D., Giller, K., Becker, S., Zweckstetter, M. (2013) Cold denaturation of a protein dimer monitored at atomic resolution, Nat. Chem. Biol. 9, 264-270