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TO
tooluniverse-protein-structure-retrieval
维护者 FreedomIntelligence · 最近更新 2026年4月1日
Retrieves protein structure data from RCSB PDB, PDBe, and AlphaFold with protein disambiguation, quality assessment, and comprehensive structural profiles. Creates detailed structure reports with experimental metadata, ligand information, and download links. Use when users need protein structures, 3D models, crystallography data, or mention PDB IDs (4-character codes like 1ABC) or UniProt accessions.
原始来源
FreedomIntelligence/OpenClaw-Medical-Skills
https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/tooluniverse-protein-structure-retrieval
- 维护者
- FreedomIntelligence
- 许可
- MIT
- 最近更新
- 2026年4月1日
技能摘要
来自 SKILL.md 的关键信息
核心说明
- 获取 protein structures ，支持 proper disambiguation，quality assessment，、 comprehensive metadata。
- IMPORTANT：Always use English terms in tool calls (protein names，organism names)，even if user writes in another language. Only try original-language terms as fallback if English returns no results. Respond in user's language。
- if user_provided_pdb_id：# Direct structure retrieval pdb_id = user_provided_pdb_id.upper() elif user_provided_uniprot：# Get UniProt info，then search structures uniprot_id = user_provided_uniprot # Can also get AlphaFold structure af_structure = tu.tools.alphafold_get_structure_by_uniprot( uniprot_id=uniprot_id ) elif user_provided_protein_name：# Search by name result = tu.tools.search_structures_by_protein_name( protein_name=protein_name )。
原始文档
SKILL.md 摘录
Phase 0: Clarification (When Needed)
Ask the user ONLY if:
- Protein name matches multiple genes/families (e.g., "kinase" → which kinase?)
- Organism not specified for conserved proteins
- Intent unclear: need experimental structure vs AlphaFold prediction?
Skip clarification for:
- Specific PDB IDs (4-character codes)
- UniProt accessions
- Unambiguous protein names with organism
1.1 Resolve Protein Identity
from tooluniverse import ToolUniverse
tu = ToolUniverse()
tu.load_tools()
## 1.2 Identity Resolution Checklist
- [ ] Protein name/gene identified
- [ ] Organism confirmed
- [ ] UniProt accession (if available)
- [ ] Isoform/variant specified (if relevant)
适用场景
- 适合在users need protein structures，3D models，crystallography data，或 mention PDB IDs (4-character codes like 1ABC) 或 UniProt accessions时使用。
不适用场景
- Do not rely on this catalog entry alone ，用于 installation 或 maintenance details。
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