Search and retrieve 3D protein and nucleic acid structures from RCSB PDB.
npx skills add https://github.com/robinbarvaag/poynt --skill pdb-database-robinbarvaag
Please help me install this Agent Skill. Skill: pdb-database Source: https://github.com/robinbarvaag/poynt/tree/main/.github/skills/pdb-database Command: npx skills add https://github.com/robinbarvaag/poynt --skill pdb-database-robinbarvaag
This Skill provides access to the RCSB Protein Data Bank, enabling users to search for, retrieve, and analyze 3D structural data of biological macromolecules, streamlining research in structural biology and drug discovery.
Use the pdb-database skill to search for human hemoglobin structures with a resolution less than 2.0 Å and list their PDB IDs.
High-intent search queries and answers about installing and using this skill.
You can search and download protein structures from the RCSB PDB by using this skill to find proteins by text, sequence, or structural similarity and retrieve coordinate files like PDB and mmCIF formats.
To retrieve 3D macromolecular structures for drug discovery, search the RCSB PDB programmatically to fetch detailed metadata and download coordinate files needed for structural biology analysis.
Yes, you can filter RCSB PDB searches by specific criteria like resolution below 2.0 Å, list the matching PDB IDs, and directly download their corresponding coordinate files.
The best way to programmatically access RCSB PDB data for structural biology is leveraging the rcsb-api Python package to query and retrieve 3D structural data of biological macromolecules.
Yes, this protein structure retrieval skill requires biopython, requests, and the rcsb-api Python packages to interact with PDB data and execute search functionalities.
The rcsb-api facilitates searching and retrieving 3D protein and nucleic acid structures, but complex structural similarity queries may require additional downstream processing using biopython.
dp-archiveSearch and retrieve 3D macromolecular structures from the RCSB Protein Data Bank.
silversteinSearch RCSB PDB structures by sequence or attributes and download coordinate files.
jackspaceRetrieve 3D structural data from the RCSB PDB repository via GraphQL and REST APIs.
sanand0Search and retrieve 3D macromolecular structures from the RCSB PDB database.
