AlphaFold: Predicted Structure
alphafold_structureRetrieve AlphaFold predicted structure summary for a plant gene locus. Returns confidence metrics, model version, and download links for 3D structure files.
Instructions
Fetch the AlphaFold DB predicted-structure summary for a locus (alphafold.ebi.ac.uk; free, no key). Resolves the locus → UniProt accession, then returns the predicted model's global mean pLDDT confidence, the per-band pLDDT distribution, modelled residue span, latest model version, and mmCIF / PDB / PAE download URLs. A valid protein with no deposited model returns found=false (a normal outcome, not an error); a locus with no UniProt entry raises a typed NotFoundError. Works for all 12 organisms (UniProt-keyed). Complements resolve_locus_to_uniprot (sequence-level) with the structure-level view. Defaults to arabidopsis_thaliana; pass organism= for other species.
Input Schema
| Name | Required | Description | Default |
|---|---|---|---|
| locus | Yes | e.g. AT4G09760 (Arabidopsis), Os01g0100100 (rice RAP-DB) | |
| organism | No | Plant organism — accepts canonical slug (arabidopsis_thaliana), scientific or common name, or NCBI taxid | arabidopsis_thaliana |
Output Schema
| Name | Required | Description | Default |
|---|---|---|---|
| gene | No | Gene name from UniProt | |
| found | Yes | True if a predicted model exists | |
| locus | Yes | ||
| cif_url | No | mmCIF model download URL | |
| pdb_url | No | PDB model download URL | |
| organism | No | Organism scientific name | |
| accession | Yes | Resolved UniProt accession | |
| mean_plddt | No | Global mean pLDDT confidence (0–100) | |
| description | No | UniProt protein description | |
| plddt_bands | No | Fraction of residues per confidence band | |
| model_created | No | Model creation date (ISO 8601) | |
| pae_image_url | No | Predicted-aligned-error image URL | |
| residue_range | No | Modelled residue span {start, end} | |
| latest_version | No | Latest AlphaFold model version | |
| model_entity_id | No | e.g. AF-Q9SZ92-F1 |