Augmented Nature PDB FAQs

Question 1

What is Augmented Nature PDB?

Accepted Answer

Augmented Nature PDB provides access to the Protein Data Bank (PDB), allowing you to search, retrieve, and analyze 3D structures of proteins, nucleic acids, and complex assemblies.

Question 2

How do I get started with Augmented Nature PDB?

Accepted Answer

Install the server using `npm install` and `npm run build`. Then, add it to your `claude_desktop_config.json` file. Example queries are provided in the documentation.

Question 3

What structure data formats are supported?

Accepted Answer

Augmented Nature PDB supports multiple structure data formats including PDB, mmCIF, mmTF (binary, compressed), and XML.

Question 4

What can I do with Augmented Nature PDB?

Accepted Answer

You can search for protein structures, download structure coordinates in various formats (PDB, mmCIF, mmTF, XML), find structures associated with UniProt accessions, and obtain structure quality metrics.

Question 5

How can I search for protein structures?

Accepted Answer

You can search by keyword, protein name, or PDB ID using the search_structures tool. The server integrates with the RCSB PDB REST and Search APIs to provide advanced search capabilities.

Augmented Nature PDB

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