Query PDB structures and metadata via RCSB REST and GraphQL APIs.
npx skills add https://github.com/OwnLabAI/ownlab --skill pdb-database-ownlabai
Please help me install this Agent Skill. Skill: pdb-database Source: https://github.com/OwnLabAI/ownlab/tree/main/mart/skills/scientific-skills/pdb-database Command: npx skills add https://github.com/OwnLabAI/ownlab --skill pdb-database-ownlabai
Access to the RCSB PDB data ecosystem is often scattered across REST, GraphQL, and file downloads; this skill unifies search, retrieval, and downloading of structures and metadata for structural biology workflows.
Query PDB data, retrieve entry metadata, and download coordinates using the API.
High-intent search queries and answers about installing and using this skill.
You can search and download PDB structures by querying the RCSB API through unified REST and GraphQL endpoints, retrieving entry-level data, metadata, and structure files in PDB or mmCIF formats.
Yes, batch operations are supported to retrieve entry-level metadata, polymer entities, and assemblies, allowing you to process multiple PDB structures and their associated metadata simultaneously.
Accessing biological assemblies and FASTA sequences is handled through GraphQL-based queries and file downloads, unifying data retrieval from the scattered RCSB PDB data ecosystem into a single workflow.
Yes, PDB data retrieval supports both REST and GraphQL endpoints, providing flexible data access for structural biology workflows while outlining common usage patterns, limits, and retry strategies.
You can perform text, attribute, sequence, and structure searches to locate relevant PDB entries, enabling comprehensive discovery of structural biology data across the RCSB database.
Yes, the skill outlines common usage patterns, limits, and retry strategies for downloading mmCIF and PDB files, ensuring reliable access to structure coordinates and related data.
silversteinSearch RCSB PDB structures by sequence or attributes and download coordinate files.
jimmc414Manipulate biological sequences and query NCBI databases via Entrez.
Lord1EgyptManipulate biological sequences and query NCBI databases with Biopython.
Hung-3008Retrieve PDB structures and metadata via RCSB PDB API queries.
