High-risk tools in Protein Design
9 of the 19 tools in Protein Design are classified as high risk. This page profiles those tools specifically, with recommended policy actions and the attack patterns that target them.
Every operation listed below is an action PolicyLayer recommends controlling at the transport layer. Open any tool to see the full profile, risk score, and YAML policy snippet.
Tools at high risk
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design_binderExecuteDesign protein binders for a target protein. Runs complete pipeline:
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design_foldExecuteEnd-to-end de novo fold design pipeline: RFdiffusion (unconditional backbone) →
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design_sequenceExecuteDesign amino acid sequences for a protein backbone using ProteinMPNN.
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energy_minimizeExecuteEnergy-minimize a protein structure using OpenMM with AMBER14 force field
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optimize_sequenceExecuteOptimize an existing binder sequence for improved stability and/or binding affinity.
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predict_complexExecutePredict the structure of a protein complex using AlphaFold2-Multimer.
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rosetta_designExecuteFixed-backbone sequence design using Rosetta PackRotamers + MinMover.
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rosetta_relaxExecuteRelax a protein structure using Rosetta FastRelax protocol.
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generate_backboneExecuteGenerate de novo protein backbones using RFdiffusion.
Attacks that target this class
High-risk tools in any server share these documented attack patterns. Each links to the full case and the defensive policy.