The use of 5-tert-butylproline to study nucleation of polyproline type I conformation
Bibliographic record
Abstract
Prolyl amide geometry dictates two kinds of helical conformations in polyproline [1]. Nterminal amides to proline are all cis-isomers in type I polyproline (PPI), which is a right handed helix with an axial translation of 190 pm. Type II polyproline (PPII) is a left handed helix with an axial translation of 320 pm due to the prolyl amides existing as trans-isomers. Peptides adopting PPII conformations have been observed to bind to kinases, SH2 and SH3 domains, and MHC class II proteins by NMR spectroscopy and X-ray crystallography [2]. Because of conformational lability, PPI has been studied mostly in the solid state by X-ray diffraction and little is known about this peptide structure and its relevance in protein biology [1-3]. In order to better characterize the physical and biological properties of PPI, we are using the steric interactions of 5-alkylprolines to augment cis-isomer populations in polyproline helices. We report attempts to induce PPI geometry in water by incorporating 5tert-butylproline (tBuPro) into polyproline hexamers as studied by NMR and CD spectroscopy.
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How this classification was reachedexpand
Full frame distilled prediction
Teacher imitationNot calibrated prevalence, not ground truth. Human validation pending. Learned from the 10,348 direct Codex labels and 10,348 direct Gemma labels. Candidate is the union of thresholded teacher heads; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels or direct frontier model labels.
Codex and Gemma teacher scores by category
| Category | Codex | Gemma |
|---|---|---|
| Metaresearch | 0.001 | 0.000 |
| 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 | 0.001 | 0.000 |
| Research integrity | 0.001 | 0.000 |
| Insufficient payload (model declined to judge) | 0.000 | 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 teacher head, 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".