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Suppressor tRNA Design Engine

The Suppressor tRNA Engine decomposes tRNA into functional blocks (acceptor stem, D-arm, anticodon loop, variable loop, TΨC loop, CCA) and proposes candidate suppressor tRNAs for a given gene + PTC. Hard filters enforce baseline tRNA viability and recognition (tRNAscan-SE, SPOT-RNA2/RNAformer structure checks, CCA/RNase P site integrity, aaRS identity elements). Scoring integrates: ΔG folding (ViennaRNA/EternaFold), orthogonality heuristics, similarity to known suppressors, MD fluctuation (OpenMM backend, RMSF per domain), and a cis-context penalty derived from real termination annotations (TransTermHP/APPRIS). Candidates loop through rank → wet-lab validation → model updates, targeting India-first clinical translation.