How do small single-domain proteins fold?

SE Jackson - Folding and Design, 1998 - cell.com
Many small, monomeric proteins fold with simple two-state kinetics and show wide variation
in folding rates, from microseconds to seconds. Thus, stable intermediates are not a …

Fold change in evolution of protein structures

NV Grishin - Journal of structural biology, 2001 - Elsevier
Typically, protein spatial structures are more conserved in evolution than amino acid
sequences. However, the recent explosion of sequence and structure information …

Protein structure and folding pathway prediction based on remote homologs recognition using PAthreader

K Zhao, Y Xia, F Zhang, X Zhou, SZ Li… - Communications …, 2023 - nature.com
Recognition of remote homologous structures is a necessary module in AlphaFold2 and is
also essential for the exploration of protein folding pathways. Here, we propose a method …

Contact order, transition state placement and the refolding rates of single domain proteins

KW Plaxco, KT Simons, D Baker - Journal of molecular biology, 1998 - Elsevier
Theoretical studies have suggested relationships between the size, stability and topology of
a protein fold and the rate and mechanisms by which it is achieved. The recent …

Heterogeneity in protein folding and unfolding reactions

S Bhatia, JB Udgaonkar - Chemical Reviews, 2022 - ACS Publications
Proteins have dynamic structures that undergo chain motions on time scales spanning from
picoseconds to seconds. Resolving the resultant conformational heterogeneity is essential …

De novo design and structural characterization of proteins and metalloproteins

WF DeGrado, CM Summa, V Pavone… - Annual review of …, 1999 - annualreviews.org
▪ Abstract De novo protein design has recently emerged as an attractive approach for
studying the structure and function of proteins. This approach critically tests our …

Bacterial 1, 3-1, 4-β-glucanases: structure, function and protein engineering

A Planas - Biochimica et Biophysica Acta (BBA)-Protein Structure …, 2000 - Elsevier
1, 3-1, 4-β-Glucanases (or lichenases, EC 3.2. 1.73) hydrolyse linear β-glucans containing β-
1, 3 and β-1, 4 linkages such as cereal β-glucans and lichenan, with a strict cleavage …

Theoretical studies of protein-folding thermodynamics and kinetics

EI Shakhnovich - Current opinion in structural biology, 1997 - Elsevier
Recently, protein-folding models have advanced to the point where folding simulations of
protein-like chains of reasonable length (up to 125 amino acids) are feasible, and the major …

Experiment and theory highlight role of native state topology in SH3 folding

DS Riddle, VP Grantcharova, JV Santiago… - nature structural …, 1999 - nature.com
We use a combination of experiments, computer simulations and simple model calculations
to characterize, first, the folding transition state ensemble of the src SH3 domain, and …

Cotranslational protein folding

AN Fedorov, TO Baldwin - Journal of Biological Chemistry, 1997 - ASBMB
The problem of how the linear amino acid sequence of a polypeptide folds to assume its
unique tertiary structure is one of the most basic and challenging conundrums of …