Bibliographic record
Abstract
Both monomeric and dimeric NADP-dependent isocitrate dehydrogenase (IDH) catalyze the oxidative decarboxylation from 2R,3S-isocitrate to yield 2-oxaloglutarate.Monomeric NADP-specific IDHs have been identified from about 50 different bacteria, whereas, dimeric NADP-dependent IDHs are diversified in both prokaryotes and eukaryotes.We have constructed the phylogenetic tree based on amino acid sequences of all bacterial monomeric NADP-IDHs.This is done to get an idea of evolutionary relationship.It is important to solve the structures of IDH from various species to correlate with its function and evolutionary significance.So far, only two crystal structures of substrate-bound (NADP or isocitrate) NADP-dependent monomeric IDH from Azotobacter Vinelandii (AvIDH) have been solved.Here, we are reporting for the first time the substrate free structure of monomeric IDH from Corynebacterium glutamicum (CgIDH) in the presence of Mg 2+ .The 1.75 structure of CgIDH-Mg 2+ showed distinctly an open conformation in contrast to the closed conformation of Av-IDH-isocitrate/NADP complexes.The changes in fluorescence intensities of CgIDH in the presence of isocitrate or NADP indicate the conformational change.The conformational changes observed in fluorescence studies agree with the structural observation.Fluorescence results also suggest a low energy barrier between CgIDH with isocitrate or NADP resulting into easy access of the other substrate to perform the catalytic reaction.In CgIDH, the amino acids corresponding to the E. coli IDH phosphorylation-loop is alpha-helical compared to the more flexible random-coil loop in E. coli.This more structured region supports the idea that activation of CgIDH is not controlled by phosphorylation.This research is funded by the NSERC and SSI.
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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 | 0.001 |
| 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".