Growing frustration among long COVID patients stems from the fact that, when the cause cannot be clearly seen, it is often dismissed as “unknown.” As research progresses, this illness becomes even more puzzling due to the increasing number of contradictory findings. At the heart of its complexity lies viral RNA—extremely difficult to visualize with the naked eye—and the chronic inflammation caused by its persistence.
Among these, subgenomic RNA (sgRNA)—long overlooked in most studies, including our own past work—has the most complex structure of any known virus. For the first time in the world, we applied real-world physical laws to the 3D structures obtained from 5.5 billion computer simulations, exploring candidate compounds that could act on it. This report explains the mechanisms of three compounds that expose the RNA backbone and induce autophagy.
Current antiviral drugs are believed to be unable to degrade sgRNA that has already been generated. As a result, sgRNA can persist in cells for extended periods, serving as a source of chronic inflammation and abnormal translation. However, if a molecule can target a site common to all types of sgRNA, it may be possible to create a “crack” in its robust structure.
In this study, using our proprietary GPU-enabled pipeline (10.5281/zenodo.15613825), we quantitatively visualized—again, for the first time—the phenomenon in which the carboxylic acidic oxygen atoms and quantum attraction of three molecules expose the sgRNA main chain, along with the specific atoms and residues targeted.
 
Physiological Mechanisms Evaluated
 
Exposure of the SARS-CoV-2 subgenomic RNA (sgRNA) main chain (phosphate backbone) and potential induction of selective autophagy
 
Dynamic interactions between RNA and small molecules (π–π stacking, hydrogen bonding, etc.)
 
Increased degradation susceptibility via allosteric changes in sgRNA backbone structure
 
Changes in the spatial arrangement of RNA recognition sites and overlap with known target sites
 
 
Intended Audience
 
Those interested in the molecular mechanisms of long COVID or post-viral syndromes
 
Basic biology and drug discovery researchers focusing on RNA degradation induction or autophagy activation
 
Readers interested in computational science approaches such as molecular simulations and MD analysis
 
Healthcare professionals and clinical researchers focusing on the pathophysiology of residual viral RNA
 
General readers seeking the latest insights on long COVID mechanisms and RNA clearance strategies
 
Individuals in the health, wellness, or anti-aging fields seeking molecular-level scientific evidence
 
 
⚠ Those Who Should Exercise Caution (Please consult a physician before introducing any intervention)
 
Individuals with underlying health conditions (e.g., liver disease, kidney disease, autoimmune disorders, severe metabolic disorders)
 
Individuals taking specific medications such as immunosuppressants or anticancer drugs
 
Pregnant or breastfeeding individuals, young children, or elderly individuals with high physiological variability
 
Those considering combination use with existing supplements or health foods
 
Individuals concerned about constitution or past allergy history
 
 
Disclaimer
 
This report is intended to provide insights into molecular mechanisms and physicochemical knowledge. It does not recommend or provide medical advice regarding specific health foods, supplements, or pharmaceuticals.
 
Before making any decisions about actual introduction or use, please consult with a qualified physician or healthcare professional.