Investigating the Substrate Specificity of <scp>l</scp>-Rhamnose Biosynthetic Enzymes (RmlA–D): Chemoenzymatic Synthesis of an Isosteric Nonhydrolyzable TDP-β-<scp>l</scp>-Rhamnose Phosphonate
Bibliographic record
Abstract
l -Rhamnose (Rha) is widely distributed within bacteria as a component of the polysaccharides that populate bacterial cell walls. While Rha-containing polysaccharides are highly variable in both structure and function, their presence in pathogenic bacteria has provided incentive to explore inhibition of the Rha-pathway as a means toward antibiotic development. Herein, we explore the substrate scope of the Rha biosynthetic enzymes RmlB, RmlC, and RmlD, from Aneurinibacillus thermoaerophilus, with deoxyfluoro-, aminodeoxy-, and phosphonate congeners. The isosteric phosphonate was the only congener turned over by all three enzymes demonstrating conversion to 5′-deoxythymidine- C -(1-deoxy β- l -rhamnosyl bisphosphate) (TDP-1C-Rha). Scale-up of this enzymatic process enabled the isolation of TDP-1C-Rha, an isosteric nonhydrolyzable phosphonate analogue of TDP-Rha and offers an orthogonal approach to deliver phosphonate–phosphate derived enzyme probes.
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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 | 0.000 |
| 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 | 0.000 | 0.000 |
| Research integrity | 0.000 | 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 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".