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Desktop-Scale Hit-Point Discovery for Intrinsically Disordered α-Synuclein Using State-Space Compression and a Discrete Phase-Interference Search Operator

Preprint Created on 29 Jun 2026 bioRxiv

The accessible chemical space dwarfs any tractable screening budget, and most artificial intelligence drug discovery pipelines respond by docking and ranking a small sublibrary. The resulting hit list is agnostic to selectivity, brain penetration, toxicity, synthetic accessibility, and chemical novelty. We present ISTP-DPISO DrugEngine, an end-to-end engine developed by ISTP Tech that integrates the Local Information Criticality Principle (LICP) with a Discrete Phase-Interference Search Operator (DPISO). We demonstrate the engine on the intrinsically disordered protein (IDP) alpha-synuclein, whose non-amyloid component (NAC, residues 61-95) drives Parkinson-associated aggregation. The resulting LICP active set focuses the expensive LICP-DPISO scoring: in a production-scale run, the engine compressed an approximately 8.46 x 10^8-molecule mirror to a 10,000,000-molecule active set, representing an approximately 85-fold reduction before scoring, and then converged to a compact, safety-gated shortlist plus de novo designs. The entire campaign ran on a single desktop workstation without any high-performance computing cluster. Three engine-prioritized, commercially available candidates, 2-D08, Uralenol, and Herbacetin, together with an epigallocatechin gallate (EGCG) positive control, were then tested in a thioflavin-T (ThT) aggregation assay at 100 uM. All three engine-nominated candidates suppressed alpha-synuclein aggregation, giving perfect prospective inhibitor-call concordance, 3 of 3 nominated candidates. Together with the EGCG positive control, all four assayed compounds inhibited aggregation, and two produced at least 80 percent plateau reduction. ISTP-DPISO DrugEngine reframes virtual screening from post hoc score fusion to a single, state-space-compressed, safety-gated, experimentally validated discovery pipeline.

Kim, D. H., Khenmedekh, G.-O., Park, i., Kim, S.

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