YUR1
S. cerevisiae
mannosyltransferase YUR1
What the model saw
Gene: YUR1 Organism: Saccharomyces cerevisiae Known functions: mannosyltransferase YUR1. alpha-1,2-mannosyltransferase activity. hexosyltransferase activity. mannosyltransferase activity.
View unredacted entry
mannosyltransferase YUR1. alpha-1,2-mannosyltransferase activity. hexosyltransferase activity. mannosyltransferase activity.
Solver output
YUR1 encodes an alpha-1,2-mannosyltransferase involved in N-linked glycan elongation in the yeast secretory pathway, adding mannose residues to glycoproteins. While proper protein glycosylation is essential for proteostasis and cell wall integrity, mannosyltransferases like YUR1 are primarily involved in outer chain mannan biosynthesis rather than directly regulating canonical longevity pathways such as TOR, sirtuins, or autophagy. Loss of outer-chain mannosylation can affect cell wall stress responses and protein folding quality control, but the net effect on replicative or chronological lifespan is not clearly established for YUR1 specifically. The function is too peripherally connected to core aging hallmarks to confidently assign a pro- or anti-longevity role without direct lifespan data.
GenAge curators classify each gene's normal function as promoting (Pro-Longevity) or opposing (Anti-Longevity) longevity, based on synthesis across studies. Loss-of-function effects can vary from this depending on the manipulation.
Advisor judgment
The model predicted "unclear" with low confidence (0.35), while the ground truth is "anti_longevity." The model's reasoning about YUR1's role in mannosylation and cell wall integrity is mechanistically plausible but doesn't connect to why deletion would extend lifespan (anti_longevity means the gene works against longevity, so its deletion would increase lifespan). The model correctly identified the gene's biochemical function but failed to predict the longevity influence. The model's uncertainty was somewhat appropriate given the indirect connection to canonical aging pathways, but it missed the anti-longevity classification. The reasoning quality is modest - it correctly describes the gene's function but doesn't reason toward the correct answer.
Raw API responses
solver
{
"reasoning": "YUR1 encodes an alpha-1,2-mannosyltransferase involved in N-linked glycan elongation in the yeast secretory pathway, adding mannose residues to glycoproteins. While proper protein glycosylation is essential for proteostasis and cell wall integrity, mannosyltransferases like YUR1 are primarily involved in outer chain mannan biosynthesis rather than directly regulating canonical longevity pathways such as TOR, sirtuins, or autophagy. Loss of outer-chain mannosylation can affect cell wall stress responses and protein folding quality control, but the net effect on replicative or chronological lifespan is not clearly established for YUR1 specifically. The function is too peripherally connected to core aging hallmarks to confidently assign a pro- or anti-longevity role without direct lifespan data.",
"confidence": 0.35,
"key_pathways": [
"N-linked glycosylation / mannan outer chain biosynthesis",
"cell wall integrity signaling",
"protein glycosylation and proteostasis"
],
"mechanism_class": "other",
"longevity_influence": "unclear"
}advisor
{
"notes": "The model predicted \"unclear\" with low confidence (0.35), while the ground truth is \"anti_longevity.\" The model's reasoning about YUR1's role in mannosylation and cell wall integrity is mechanistically plausible but doesn't connect to why deletion would extend lifespan (anti_longevity means the gene works against longevity, so its deletion would increase lifespan). The model correctly identified the gene's biochemical function but failed to predict the longevity influence. The model's uncertainty was somewhat appropriate given the indirect connection to canonical aging pathways, but it missed the anti-longevity classification. The reasoning quality is modest - it correctly describes the gene's function but doesn't reason toward the correct answer.",
"failure_mode": "appropriately_uncertain",
"answer_correct": false,
"mechanism_correct": false,
"reasoning_quality": 2,
"ground_truth_questionable": false
}