Search and retrieve 3D protein and nucleic acid structures from RCSB PDB.
npx skills add https://github.com/yf8578/clawomics --skill pdb-database-yf8578
Please help me install this Agent Skill. Skill: pdb-database Source: https://github.com/yf8578/clawomics/tree/main/skills/pdb-database Command: npx skills add https://github.com/yf8578/clawomics --skill pdb-database-yf8578
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.
Search for all human protein structures with a resolution better than 2.0 Angstroms.
High-intent search queries and answers about installing and using this skill.
You can search RCSB PDB for protein structures by using text queries to filter results based on organism, resolution better than specific Angstrom values, and other structural metadata. This enables targeted retrieval of 3D coordinate files for structural biology research.
The best way to download PDB and mmCIF coordinate files is by programmatically querying the RCSB database to retrieve structural data and associated metadata. This streamlines accessing 3D structural data of biological macromolecules for drug discovery and protein engineering workflows.
Yes, you can perform sequence and structural similarity searches against the RCSB database to find related protein and nucleic acid structures. This supports identifying structural homologs and analyzing binding sites for potential drug targets.
Yes, this skill works with Biopython and the rcsb-api dependency to enable structural biology analysis. It provides programmatic access to retrieve 3D structural data of biological macromolecules, facilitating detailed downstream protein engineering workflows.
When searching for 3D protein structures, you can retrieve detailed structural metadata including resolution, organism, and experimental methods alongside the coordinate files. This metadata facilitates structural biology research and helps identify suitable structures for drug target analysis.
robinbarvaagSearch and retrieve 3D protein and nucleic acid structures from RCSB PDB.
sanand0Search and retrieve 3D macromolecular structures from the RCSB PDB database.
MooseGoose0701Search and retrieve PDB/mmCIF coordinate files from RCSB PDB.
dp-archiveSearch and retrieve 3D macromolecular structures from the RCSB Protein Data Bank.
