Retrieve PDB structures and metadata via RCSB PDB API queries.
npx skills add https://github.com/Hung-3008/agusta --skill pdb-database-hung-3008
Please help me install this Agent Skill. Skill: pdb-database Source: https://github.com/Hung-3008/agusta/tree/main/.agents/skills/pdb-database Command: npx skills add https://github.com/Hung-3008/agusta --skill pdb-database-hung-3008
Quickly access RCSB PDB structures, search by text, sequence, or structure, and retrieve coordinates and metadata for structural biology and drug discovery.
Query a structure by ID or text, then download coordinates in PDB or mmCIF formats.
High-intent search queries and answers about installing and using this skill.
You can retrieve PDB structures and metadata by querying the RCSB PDB API using text, sequence, or structural similarity searches. Coordinates are then downloadable in PDB, mmCIF, or BinaryCIF formats, including biological assemblies.
Yes, biological assemblies can be downloaded in mmCIF format. The Skill supports retrieving coordinate files in PDB, mmCIF, and BinaryCIF formats, including biological assemblies, for integration into structural biology workflows.
The best way to batch download PDB files is using the Skill's batch retrieval functionality to process multiple structures efficiently. This enables seamless integration of coordinates and metadata into computational pipelines for modeling, docking, or visualization.
Yes, the RCSB PDB API supports sequence similarity searches for structural biology. You can find PDB entries by text, sequence similarity, or structural similarity, and perform combined queries to retrieve relevant structural data.
To access experimental methods and resolution data for a specific PDB entry, use the metadata retrieval function. This provides entry-level details including deposition dates, experimental methods, and resolution for structural biology analysis.
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