Mechanism of retaining glycosyltransferases: structure of Kre2p/Mnt1p in complex with a donor analog
Bibliographic record
Abstract
Poster Sessions 8-oxo-dGDP (Km = 0.77 μM) than for ADPR (Km = 32 μM).Considering these facts, NUDT5 works cooperatively with hMTH1 to eliminate 8-oxoG containing nucleotides in human cells.The crystal structure of NUDT5 complexed with ADPR was reported in 2006 and revealed ADPR recognition mechanism.However, 8-oxo-dGDP recognition and hydrolysis reaction mechanisms remain unknown.In this work, we have determined the crystal structures of the ternary (NUDT5/8-oxo-dGDP/Mn 2+ ) and binary (NUDT5/8oxo-dGMP) complexes.Our structures show that NUDT5 adopts a unique recognition mechanism for 8-oxoG, which is quite different from those in MutT and hMTH1 crystal structures.We have also elucidated the structural insights into the hydrolysis mechanisms of MutT and hMTH1, and a comparison of active sites between NUDT5 and MutT/hMTH1 suggests that these enzymes have similar catalytic mechanisms in hydrolysis reactions.This catalytic mechanism of NUDT5 is supported by experimental data showing the site attacked by a nucleophilic water based on 31 P NMR analysis of the reaction products in 18 O-labeled water.
Fetched live from OpenAlex and de-inverted. Abstracts are not stored in this database: the inverted indexes are 8.6 GB of the frame’s 9.3 GB of text, and the host has 13 GB free.
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 | 0.001 | 0.000 |
| Open science | 0.001 | 0.000 |
| Research integrity | 0.000 | 0.001 |
| Insufficient payload (model declined to judge) | 0.003 | 0.001 |
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".