SNF4
S. cerevisiae
AMP-activated serine/threonine-protein kinase regulatory subunit SNF4
What the model saw
Gene: SNF4 Organism: Saccharomyces cerevisiae Known functions: AMP-activated serine/threonine-protein kinase regulatory subunit SNF4. AMP binding. AMP-activated protein kinase activity. identical protein binding. protein binding. protein kinase binding. protein kinase regulator activity. protein serine/threonine kinase activator activity.
View unredacted entry
AMP-activated serine/threonine-protein kinase regulatory subunit SNF4. AMP binding. AMP-activated protein kinase activity. identical protein binding. protein binding. protein kinase binding. protein kinase regulator activity. protein serine/threonine kinase activator activity.
Solver output
SNF4 is the yeast ortholog of the mammalian AMPKγ regulatory subunit, which binds AMP and activates the SNF1/AMPK complex (the yeast AMP-activated protein kinase). AMPK/SNF1 is a master energy sensor that is activated under low-energy (high AMP/ATP) conditions and suppresses anabolic pathways while promoting catabolic and stress-response pathways. By activating SNF1 kinase activity, SNF4 promotes downstream inhibition of TORC1 signaling and activation of autophagy, both of which are well-established pro-longevity mechanisms in yeast and other organisms. AMPK activation is broadly associated with lifespan extension across model organisms, and loss of SNF4/SNF1 activity leads to impaired stress responses and shortened replicative lifespan in S. cerevisiae. The AMP-binding function of SNF4 is the molecular trigger that couples cellular energy status to this pro-longevity kinase cascade.
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 SNF4 as pro_longevity with high confidence (0.88), but the ground truth classifies it as anti_longevity. The model's reasoning follows the general logic that AMPK/SNF1 activation is pro-longevity, but this is incorrect for SNF4 specifically in yeast. In S. cerevisiae, SNF4 (the regulatory gamma subunit of SNF1) actually has an anti-longevity role. The model incorrectly extrapolated from general AMPK biology to conclude SNF4 is pro-longevity. The mechanistic reasoning about AMPK promoting longevity through TORC1 inhibition and autophagy is plausible in general terms but does not apply correctly to SNF4's actual role in yeast lifespan. The model was confidently wrong, which is a significant failure.
Raw API responses
solver
{
"reasoning": "SNF4 is the yeast ortholog of the mammalian AMPKγ regulatory subunit, which binds AMP and activates the SNF1/AMPK complex (the yeast AMP-activated protein kinase). AMPK/SNF1 is a master energy sensor that is activated under low-energy (high AMP/ATP) conditions and suppresses anabolic pathways while promoting catabolic and stress-response pathways. By activating SNF1 kinase activity, SNF4 promotes downstream inhibition of TORC1 signaling and activation of autophagy, both of which are well-established pro-longevity mechanisms in yeast and other organisms. AMPK activation is broadly associated with lifespan extension across model organisms, and loss of SNF4/SNF1 activity leads to impaired stress responses and shortened replicative lifespan in S. cerevisiae. The AMP-binding function of SNF4 is the molecular trigger that couples cellular energy status to this pro-longevity kinase cascade.",
"confidence": 0.88,
"key_pathways": [
"SNF1/AMPK energy sensing pathway",
"TORC1 inhibition and nutrient signaling",
"autophagy induction"
],
"mechanism_class": "deregulated_nutrient_sensing",
"longevity_influence": "pro_longevity"
}advisor
{
"notes": "The model predicted SNF4 as pro_longevity with high confidence (0.88), but the ground truth classifies it as anti_longevity. The model's reasoning follows the general logic that AMPK/SNF1 activation is pro-longevity, but this is incorrect for SNF4 specifically in yeast. In S. cerevisiae, SNF4 (the regulatory gamma subunit of SNF1) actually has an anti-longevity role. The model incorrectly extrapolated from general AMPK biology to conclude SNF4 is pro-longevity. The mechanistic reasoning about AMPK promoting longevity through TORC1 inhibition and autophagy is plausible in general terms but does not apply correctly to SNF4's actual role in yeast lifespan. The model was confidently wrong, which is a significant failure.",
"failure_mode": "confident_wrong",
"answer_correct": false,
"mechanism_correct": false,
"reasoning_quality": 2,
"ground_truth_questionable": false
}