Comparison between long-range interactions and contact order in determining the folding rate of two-state proteins: application of long-range order to folding rate …
MM Gromiha, S Selvaraj - Journal of molecular biology, 2001 - Elsevier
The contact order is believed to be an important factor for understanding protein folding
mechanisms. In our earlier work, we have shown that the long-range interactions play a vital …
mechanisms. In our earlier work, we have shown that the long-range interactions play a vital …
Insights from coarse-grained Gō models for protein folding and dynamics
RD Hills Jr, CL Brooks III - International journal of molecular sciences, 2009 - mdpi.com
Exploring the landscape of large scale conformational changes such as protein folding at
atomistic detail poses a considerable computational challenge. Coarse-grained …
atomistic detail poses a considerable computational challenge. Coarse-grained …
Transition-state structure as a unifying basis in protein-folding mechanisms: contact order, chain topology, stability, and the extended nucleus mechanism
AR Fersht - Proceedings of the National Academy of …, 2000 - National Acad Sciences
I attempt to reconcile apparently conflicting factors and mechanisms that have been
proposed to determine the rate constant for two-state folding of small proteins, on the basis …
proposed to determine the rate constant for two-state folding of small proteins, on the basis …
Experimental identification of downhill protein folding
Theory predicts the existence of barrierless protein folding. Without barriers, folding should
be noncooperative and the degree of native structure should be coupled to overall protein …
be noncooperative and the degree of native structure should be coupled to overall protein …
Mechanisms of protein folding
The strong correlation between protein folding rates and the contact order suggests that
folding rates are largely determined by the topology of the native structure. However, for a …
folding rates are largely determined by the topology of the native structure. However, for a …
High-resolution x-ray crystal structures of the villin headpiece subdomain, an ultrafast folding protein
TK Chiu, J Kubelka, R Herbst-Irmer… - Proceedings of the …, 2005 - National Acad Sciences
The 35-residue subdomain of the villin headpiece (HP35) is a small ultrafast folding protein
that is being intensely studied by experiments, theory, and simulations. We have solved the …
that is being intensely studied by experiments, theory, and simulations. We have solved the …
Preorganized secondary structure as an important determinant of fast protein folding
JK Myers, TG Oas - Nature structural biology, 2001 - nature.com
The folding and unfolding kinetics of the B-domain of staphylococcal protein A, a small three-
helix bundle protein, were probed by NMR. The lineshape of a single histidine resonance …
helix bundle protein, were probed by NMR. The lineshape of a single histidine resonance …
An immune algorithm for protein structure prediction on lattice models
We present an immune algorithm (IA) inspired by the clonal selection principle, which has
been designed for the protein structure prediction problem (PSP). The proposed IA employs …
been designed for the protein structure prediction problem (PSP). The proposed IA employs …
Quantifying the roughness on the free energy landscape: entropic bottlenecks and protein folding rates
LL Chavez, JN Onuchic, C Clementi - Journal of the American …, 2004 - ACS Publications
The prediction of protein folding rates and mechanisms is currently of great interest in the
protein folding community. A close comparison between theory and experiment in this area …
protein folding community. A close comparison between theory and experiment in this area …