On urea and temperature dependences of m-values
Bibliographic record
Abstract
The denaturing or stabilizing influence of a cosolvent on a protein structure is governed by a fine balance of the energetics of the excluded volume effect and the energetics of direct protein-cosolvent interactions. We have previously characterized the energetic contributions of excluded volume and direct interactions with urea for proteins and protein groups. In this work, we examine the molecular origins underlying the relatively weak temperature and urea dependences of the m-values of globular proteins. Our combined experimental and computational results collectively paint a picture in which the relative independence of protein m-values of urea concentration originates from fortuitous compensatory effects of a progressive increase in the solvent-accessible surface area of the unfolded state and a slightly higher urea binding constant of the unfolded state relative to the folded state. Other denaturing cosolvents which lack such a compensation make poor candidates for linear extrapolation model-based protein stability determination studies. The observed diminution in m-values with increasing temperature reflects, in addition to the aforementioned compensatory effects, a decrease in protein-urea binding constants with temperature in accordance with the negative sign of the binding enthalpy.
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How this classification was reachedexpand
Full frame machine prediction
Teacher imitationNot calibrated prevalence, not ground truth. Human validation pending. The Gemma side is a direct model label for every work in the frame, read from the title-only record. The Codex side is a classifier learned from the 10,348 direct Codex labels and calibrated to design-weighted sample rates; fields without enough sample support carry no Codex call. Candidate is the union of the two sides; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels.
Distilled classifier scores by category (both heads)
| Category | Codex | Gemma |
|---|---|---|
| Metaresearch | 0.000 | 0.002 |
| Meta-epidemiology (narrow) | 0.000 | 0.000 |
| Meta-epidemiology (broad) | 0.000 | 0.000 |
| Bibliometrics | 0.000 | 0.000 |
| Science and technology studies | 0.000 | 0.000 |
| Scholarly communication | 0.000 | 0.000 |
| Open science | 0.000 | 0.000 |
| Research integrity | 0.000 | 0.000 |
| Insufficient payload (model declined to judge) | 0.002 | 0.000 |
Machine scores (provisional)
The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.
Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.
score_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from itClassification
machine, unvalidatedMachine predicted; a candidate call from one source (direct Gemma or distilled Codex), not a consensus.
How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".