ArticleJournal of molecular biology2008
Quantifying the structural requirements of the folding transition state of protein A and other systems.
Article in Journal of molecular biology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed, 31 citations in OpenAlex.
- Engineered Metal-Binding Sites to Probe Protein Folding Transition States: Psi Analysis.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Cooperative hydrophobic core interactions in the β-trefoil architecture.Protein science : a publication of the Protein Society · 2021Article
- Water as a Good Solvent for Unfolded Proteins: Folding and Collapse are Fundamentally Different.Journal of molecular biology · 2020Review
- The N-Terminal Domain of Ribosomal Protein L9 Folds via a Diffuse and Delocalized Transition State.Biophysical journal · 2017Article
- Simultaneous Determination of Two Subdomain Folding Rates Using the "Transfer-Quench" Method.Biophysical journal · 2017Article
- Even with nonnative interactions, the updated folding transition states of the homologs Proteins G & L are extensive and similar.Proceedings of the National Academy of Sciences of the United States of America · 2015Article
- Fast helix formation in the B domain of protein A revealed by site-specific infrared probes.Biochemistry · 2015Article
- The folding of a family of three-helix bundle proteins: spectrin R15 has a robust folding nucleus, unlike its homologous neighbours.Journal of molecular biology · 2014Article
- Revealing what gets buried first in protein folding.Proceedings of the National Academy of Sciences of the United States of America · 2013Article
- Simplified protein models: predicting folding pathways and structure using amino acid sequences.Physical review letters · 2013Article
- Take home lessons from studies of related proteins.Current opinion in structural biology · 2013Review
- De novo prediction of protein folding pathways and structure using the principle of sequential stabilization.Proceedings of the National Academy of Sciences of the United States of America · 2012Article
- The folding transition state of protein L is extensive with nonnative interactions (and not small and polarized).Journal of molecular biology · 2012Article
- A "Link-Psi" strategy using crosslinking indicates that the folding transition state of ubiquitin is not very malleable.Protein science : a publication of the Protein Society · 2012Article
- The amino-terminal helix modulates light-activated conformational changes in AsLOV2.Journal of molecular biology · 2012Article
- The folding of single domain proteins--have we reached a consensus?Current opinion in structural biology · 2011Review
- Alpha helical crossovers favor right-handed supersecondary structures by kinetic trapping: the phone cord effect in protein folding.Protein science : a publication of the Protein Society · 2009Article
- Topology is the principal determinant in the folding of a complex all-alpha Greek key death domain from human FADD.Journal of molecular biology · 2009Article
- Metal binding kinetics of bi-histidine sites used in psi analysis: evidence of high-energy protein folding intermediates.Biochemistry · 2009Article
- Psi-constrained simulations of protein folding transition states: implications for calculating.Journal of molecular biology · 2009Article
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
Abstract
The B-domain of protein A is a small three-helix bundle that has been the subject of considerable experimental and theoretical investigation. Nevertheless, a unified view of the structure of the transition-state ensemble (TSE) is still lacking. To characterize the TSE of this surprisingly challenging protein, we apply a combination of psi analysis (which probes the role of specific side-chain to side-chain contacts) and kinetic H/D amide isotope effects (which measures hydrogen-bond content), building upon previous studies using mutational phi analysis (which probes the energetic influence of side-chain substitutions). The second helix is folded in the TSE, while helix formation appears just at the carboxy and amino termini of the first and third helices, respectively. The experimental data suggest a homogenous yet plastic TS with a native-like topology. This study generalizes our earlier conclusion, based on two larger alpha/beta proteins, that the TSEs of most small proteins achieve approximately 70% of their native state's relative contact order. This high percentage limits the degree of possible TS heterogeneity and requires a reevaluation of the structural content of the TSE of other proteins, especially when they are characterized as small or polarized.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.