# Boltz compatibility example Boltz Lab `1.1.0` shows how to profile atomic scientific values while leaving operational and aggregate records unstandardized. | Port | Direction | Profile | Why | |---|---|---|---| | `protein_sequence` | Input | `protein.sequence/v1` | One amino-acid sequence | | `ligand_smiles` | Input | `chemical.smiles/v1` | One molecular SMILES string | | `msa_path` | Input | `protein.multiple-sequence-alignment/v1` | One A3M file | | `run_options` | Input | Unstandardized | Runtime configuration | | `binding_probability` | Output | `boltz.binding-probability/v1` | Atomic Boltz binder probability | | `affinity_log10_ic50_micromolar` | Output | `boltz.log10-ic50-micromolar/v1` | Atomic transformed affinity | | `predicted_structure` | Output | `protein-ligand.complex-structure-mmcif/v1` | One mmCIF structure artifact | | `affinity_summary` | Output | Unstandardized | Multi-field Boltz aggregate retained for consumers | | `confidence_summary` | Output | Unstandardized | Boltz-specific confidence aggregate | | `structure_artifacts` | Output | Unstandardized | Operational artifact collection | | `run_metadata` | Output | Unstandardized | Command, logs, status, cache, and provenance | Boltz reports `affinity_probability_binary` as a binder probability in the inclusive range 0 to 1. The wrapper exposes it as `binding_probability`. Boltz reports `affinity_pred_value` as `log10(IC50)` where IC50 is expressed in micromolar. Lower values imply stronger predicted affinity. It is not pIC50 and must not be compared with a different concentration basis or logarithmic convention without an explicit adapter. The standardized structure output is mmCIF only. The A3M profile verifies the file's basic representation; the wrapper separately verifies that its query sequence matches `protein_sequence`. None of these checks establishes binding, affinity, alignment quality, or structural accuracy as experimental fact.