abu-11
C. elegans
Activated in Blocked Unfolded protein response
What the model saw
Gene: abu-11 Organism: Caenorhabditis elegans Known functions: Activated in Blocked Unfolded protein response. protein binding.
View unredacted entry
Activated in Blocked Unfolded protein response. protein binding.
Solver output
abu-11 (Activated in Blocked Unfolded Protein Response) is part of the alternative UPR pathway in C. elegans that is activated when the canonical IRE-1/XBP-1 UPR branch is blocked. This pathway helps maintain proteostasis under ER stress conditions by providing a compensatory mechanism for protein quality control. Proper proteostasis maintenance — clearing or managing misfolded proteins — is a well-established pro-longevity mechanism. The protein-binding activity of abu-11 likely facilitates its role in recognizing or scaffolding stress-response complexes. Loss of abu-11 function would be expected to compromise the organism's ability to handle proteotoxic stress, thereby reducing lifespan, consistent with a pro-longevity classification for its normal function.
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 correctly predicted pro_longevity for abu-11. The mechanistic reasoning is sound: abu-11 is part of the alternative UPR pathway in C. elegans that compensates when the canonical IRE-1/XBP-1 pathway is blocked, and maintaining proteostasis under ER stress is a well-established pro-longevity mechanism. The reasoning logically connects abu-11's function to longevity. Confidence of 0.62 is appropriately moderate given the specificity of this gene. The mechanism class "loss_of_proteostasis" is slightly awkward as a label (it describes what happens when the gene is lost, rather than the gene's normal function class), but the underlying reasoning is correct.
Raw API responses
solver
{
"reasoning": "abu-11 (Activated in Blocked Unfolded Protein Response) is part of the alternative UPR pathway in C. elegans that is activated when the canonical IRE-1/XBP-1 UPR branch is blocked. This pathway helps maintain proteostasis under ER stress conditions by providing a compensatory mechanism for protein quality control. Proper proteostasis maintenance — clearing or managing misfolded proteins — is a well-established pro-longevity mechanism. The protein-binding activity of abu-11 likely facilitates its role in recognizing or scaffolding stress-response complexes. Loss of abu-11 function would be expected to compromise the organism's ability to handle proteotoxic stress, thereby reducing lifespan, consistent with a pro-longevity classification for its normal function.",
"confidence": 0.62,
"key_pathways": [
"alternative unfolded protein response (abu pathway)",
"ER proteostasis/protein quality control",
"IRE-1/XBP-1 UPR signaling"
],
"mechanism_class": "loss_of_proteostasis",
"longevity_influence": "pro_longevity"
}advisor
{
"notes": "The model correctly predicted pro_longevity for abu-11. The mechanistic reasoning is sound: abu-11 is part of the alternative UPR pathway in C. elegans that compensates when the canonical IRE-1/XBP-1 pathway is blocked, and maintaining proteostasis under ER stress is a well-established pro-longevity mechanism. The reasoning logically connects abu-11's function to longevity. Confidence of 0.62 is appropriately moderate given the specificity of this gene. The mechanism class \"loss_of_proteostasis\" is slightly awkward as a label (it describes what happens when the gene is lost, rather than the gene's normal function class), but the underlying reasoning is correct.",
"failure_mode": "correct",
"answer_correct": true,
"mechanism_correct": true,
"reasoning_quality": 4,
"ground_truth_questionable": false
}