Random heteropolymers

J.D. Bryngelson, When is a potential accurate enough for structure prediction Theory and application to a random heteropolymer model of protein folding, J. Ghem. Phys. 100 (1994), 6038-6045. 

The invalidity of the random heteropolymer model for proteins can also be understood from a more general point of view, since we know that protein sequences result from long evolution and are therefore, strictly speaking, not random. This consideration was the origin of a very productive approach that considers heteropolymer physics in connection with their evolution. This idea was not mentioned in any published work by I.M. Lifshitz. However, the authors of the present paper can witness that I.M. Lifshitz had evolutionary ideas on this subject and often discussed them. 

Takada, S., Wolynes, P.G. Glassy dynamics of random heteropolymers. Prog. Theor. Phys. Suppl. 1997, 49-52. 

Figure 6.7 Schematic diagrams of different polymer types a homopolymer (a), a sequential (ordered) heteropolymer (b), and random heteropolymers (bf with two monomeric units and c with several monomeric units), (d) is a crosslinked polymer...

Plotkin, S. S., Wang, J., and Wolynes, P. G., Correlated energy landscape model for finite, random heteropolymers. Phys. Rev. E 53, 6271 (1996). 

Wolynes, P. G., Randomness and complexity in chemical physics, Acc. Chem. Res 25,513 (1992). Wolynes, P. G., Entropy crises in glasses and random heteropolymers. J. Res. Natl. Inst. Stand. 

Bratko, D., A. K. Chakraborty, and E. I. Shakhnovich. 1997. Recognition between random heteropolymers and multifunctional disordered surfaces. Chemical Physics Letters 280(l-2) 46-52. 

Initially, the protein-like HP sequences were generated in References 69 and 70 for a lattice chain, using a Monte Carlo method and the bond-fluctuation model.When the chain is a random heteropolymer, an average over many different sequences distribution must be carried out explicitly to produce the final properties. Therefore, the sequence design scheme ° was repeated many times, and the results were averaged over different initial configurations. 

S. Takada, Z. Luthey-Schulten, and P. G. Wolynes, /. Chem. Phys., 110, 11616 (1999). Folding Dynamics with Nonadditive Forces A Simulation Study of a Designed Helical Protein and a Random Heteropolymer. 

Naidedov, A. and Nechaev, S. (2001). Adsorption of a Random Heteropolymer at a Potential Well Revisited Location of Transition Point and Design of Sequences, J. Phys. A Math. Gen. 34, pp. 5625-5634. 

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