SSF1
S. cerevisiae
rRNA-binding ribosome biosynthesis protein
What the model saw
Gene: SSF1 Organism: Saccharomyces cerevisiae Known functions: rRNA-binding ribosome biosynthesis protein. protein binding. rRNA binding.
View unredacted entry
rRNA-binding ribosome biosynthesis protein. protein binding. rRNA binding.
Solver output
SSF1 is an rRNA-binding protein involved in ribosome biogenesis, a process tightly coupled to the TOR (Target of Rapamycin) nutrient-sensing pathway in yeast. Ribosome biogenesis is one of the primary downstream outputs of TORC1 signaling, and its upregulation promotes growth at the expense of longevity. Elevated ribosome production is associated with shortened lifespan in S. cerevisiae, while reduced ribosomal activity (e.g., via deletion of large ribosomal subunit genes or TOR inhibition) extends both chronological and replicative lifespan. SSF1 specifically participates in the maturation of the 60S ribosomal subunit, and its normal function thus promotes ribosome output, which is pro-growth and anti-longevity. Loss-of-function of ribosome biogenesis factors in this pathway is a well-established longevity intervention in yeast.
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 anti_longevity for SSF1. The mechanistic reasoning is sound: SSF1 is involved in ribosome biogenesis (60S subunit maturation), which is downstream of TOR signaling, and deletion of ribosome biogenesis factors is a well-established longevity intervention in yeast. The model correctly identifies that SSF1's normal function promotes ribosome output (pro-growth, anti-longevity), meaning its deletion would extend lifespan. The mechanism class "deregulated_nutrient_sensing" is a reasonable categorization, though "ribosome biogenesis" might be more precise. The reasoning is well-articulated and biologically accurate. Confidence of 0.65 is appropriately calibrated given the indirect inference from gene function.
Raw API responses
solver
{
"reasoning": "SSF1 is an rRNA-binding protein involved in ribosome biogenesis, a process tightly coupled to the TOR (Target of Rapamycin) nutrient-sensing pathway in yeast. Ribosome biogenesis is one of the primary downstream outputs of TORC1 signaling, and its upregulation promotes growth at the expense of longevity. Elevated ribosome production is associated with shortened lifespan in S. cerevisiae, while reduced ribosomal activity (e.g., via deletion of large ribosomal subunit genes or TOR inhibition) extends both chronological and replicative lifespan. SSF1 specifically participates in the maturation of the 60S ribosomal subunit, and its normal function thus promotes ribosome output, which is pro-growth and anti-longevity. Loss-of-function of ribosome biogenesis factors in this pathway is a well-established longevity intervention in yeast.",
"confidence": 0.65,
"key_pathways": [
"TOR/TORC1 nutrient-sensing and ribosome biogenesis",
"60S ribosomal subunit maturation",
"rRNA processing and assembly"
],
"mechanism_class": "deregulated_nutrient_sensing",
"longevity_influence": "anti_longevity"
}advisor
{
"notes": "The model correctly predicted anti_longevity for SSF1. The mechanistic reasoning is sound: SSF1 is involved in ribosome biogenesis (60S subunit maturation), which is downstream of TOR signaling, and deletion of ribosome biogenesis factors is a well-established longevity intervention in yeast. The model correctly identifies that SSF1's normal function promotes ribosome output (pro-growth, anti-longevity), meaning its deletion would extend lifespan. The mechanism class \"deregulated_nutrient_sensing\" is a reasonable categorization, though \"ribosome biogenesis\" might be more precise. The reasoning is well-articulated and biologically accurate. Confidence of 0.65 is appropriately calibrated given the indirect inference from gene function.",
"failure_mode": "correct",
"answer_correct": true,
"mechanism_correct": true,
"reasoning_quality": 4,
"ground_truth_questionable": false
}