Server Configuration
Describes the environment variables required to run the server.
Name | Required | Description | Default |
---|---|---|---|
No arguments |
Schema
Prompts
Interactive templates invoked by user choice
Name | Description |
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No prompts |
Resources
Contextual data attached and managed by the client
Name | Description |
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No resources |
Tools
Functions exposed to the LLM to take actions
Name | Description |
---|---|
get_structure | Get AlphaFold structure prediction for a specific UniProt ID |
download_structure | Download AlphaFold structure file in specified format |
check_availability | Check if AlphaFold structure prediction is available for a UniProt ID |
search_structures | Search for available AlphaFold structures by protein name or gene |
list_by_organism | List all available structures for a specific organism |
get_organism_stats | Get statistics about AlphaFold coverage for an organism |
get_confidence_scores | Get per-residue confidence scores for a structure prediction |
analyze_confidence_regions | Analyze confidence score distribution and identify high/low confidence regions |
get_prediction_metadata | Get metadata about the prediction including version, date, and quality metrics |
batch_structure_info | Get structure information for multiple proteins simultaneously |
batch_download | Download multiple structure files |
batch_confidence_analysis | Analyze confidence scores for multiple proteins |
compare_structures | Compare multiple AlphaFold structures for analysis |
find_similar_structures | Find AlphaFold structures similar to a given protein |
get_coverage_info | Get information about sequence coverage in the AlphaFold prediction |
validate_structure_quality | Validate and assess the overall quality of an AlphaFold prediction |
export_for_pymol | Export structure data formatted for PyMOL visualization |
export_for_chimerax | Export structure data formatted for ChimeraX visualization |
get_api_status | Check AlphaFold API status and database statistics |