When fast is better: protein folding fundamentals and mechanisms from ultrafast approaches

V Munoz, M Cerminara - Biochemical Journal, 2016 - portlandpress.com
Protein folding research stalled for decades because conventional experiments indicated
that proteins fold slowly and in single strokes, whereas theory predicted a complex interplay …

Limited cooperativity in protein folding

V Munoz, LA Campos, M Sadqi - Current Opinion in Structural Biology, 2016 - Elsevier
Theory and simulations predict that the structural concert of protein folding reactions is
relatively low. Experimentally, folding cooperativity has been difficult to study, but in recent …

Modern analysis of protein folding by differential scanning calorimetry

B Ibarra-Molero, AN Naganathan… - Methods in …, 2016 - Elsevier
Differential scanning calorimetry (DSC) is a very powerful tool for investigating protein
folding and stability because its experimental output reflects the energetics of all …

Thermally versus chemically denatured protein states

A Narayan, K Bhattacharjee, AN Naganathan - Biochemistry, 2019 - ACS Publications
Protein unfolding thermodynamic parameters are conventionally extracted from equilibrium
thermal and chemical denaturation experiments. Despite decades of work, the degree of …

“Invisible” conformers of an antifungal disulfide protein revealed by constrained cold and heat unfolding, CEST‐NMR experiments, and molecular dynamics …

Á Fizil, Z Gáspári, T Barna, F Marx… - Chemistry–A European …, 2015 - Wiley Online Library
Transition between conformational states in proteins is being recognized as a possible key
factor of function. In support of this, hidden dynamic NMR structures were detected in several …

The Wako-Saitô-Muñoz-Eaton model for predicting protein folding and dynamics

K Ooka, R Liu, M Arai - Molecules, 2022 - mdpi.com
Despite the recent advances in the prediction of protein structures by deep neutral networks,
the elucidation of protein-folding mechanisms remains challenging. A promising theory for …

[HTML][HTML] Thermodynamics and folding landscapes of large proteins from a statistical mechanical model

S Gopi, A Aranganathan, AN Naganathan - Current Research in Structural …, 2019 - Elsevier
Statistical mechanical models that afford an intermediate resolution between macroscopic
chemical models and all-atom simulations have been successful in capturing folding …

Lessons about protein folding and binding from archetypal folds

LA Campos, M Sadqi, V Munoz - Accounts of Chemical Research, 2020 - ACS Publications
Conspectus The function of proteins as biological nanomachines relies on their ability to fold
into complex 3D structures, bind selectively to partners, and undergo conformational …

Concurrent increases and decreases in local stability and conformational heterogeneity in Cu, Zn superoxide dismutase variants revealed by temperature …

CM Doyle, JA Rumfeldt, HR Broom, A Sekhar… - Biochemistry, 2016 - ACS Publications
The chemical shifts of backbone amide protons in proteins are sensitive reporters of local
structural stability and conformational heterogeneity, which can be determined from their …

Highly heterogeneous nature of the native and unfolded states of the B domain of protein a revealed by two-dimensional fluorescence lifetime correlation …

T Otosu, K Ishii, H Oikawa, M Arai… - The Journal of …, 2017 - ACS Publications
Elucidating the protein folding mechanism is crucial to understand how proteins acquire
their unique structures to realize various biological functions. With this aim, the …