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Tooluniverse Protein Structure Retrieval

Checked
mims-harvard·vlatest·other·Apache-2.0

This skill swiftly retrieves protein structures from various databases using ToolUniverse, aiding researchers in structural biology and drug discovery.

Repository

Install on your platform

Showing Claude Code. One command installs this skill into any of the agents below.

  1. 1

    Run this in your project

    terminal
    $ npx skills add mims-harvard/tooluniverse --skill tooluniverse-protein-structure-retrieval -a claude-code

  2. Uses the open-source skills CLI and needs Node.js. Add -g to install it for your user instead of this project.

What we know about this skill

Publisher

mims-harvard

Taken from the source listing. We haven't verified who controls this account.

Install target

Live repository

Not pinned. Installing fetches whatever the repository holds at the time you run the command.

No human has reviewed this code. The checks below are a static scan of the files at one commit — nobody has run this skill or judged whether it works. A skill runs with whatever access you give your agent, so read the source before you install it.

Automated safety checks

scanned

This skill passed all 6 checks. We read its files at one commit and looked for the things that make a skill dangerous to run — not for whether it works.

  • Declares what it does: passed

    SKILL.md parses and declares a name and a description.

    SKILL.md exists, its frontmatter parses, and it declares a name and a description.

  • No undeclared network calls: passed

    Makes no network calls.

    Every host the skill dials — from its scripts, its config endpoints or the commands it tells the agent to run — is either well-known package and API infrastructure or declared in its own frontmatter. Links in documentation are not counted.

  • No obfuscated payloads: passed

    No encoded or obfuscated payloads.

    No base64, hex or compressed blob is decoded and then executed, and no encoded shell commands.

  • No credential access: passed

    Reads no keys, tokens, keychains or credential files.

    Neither the code nor the SKILL.md instructions read SSH keys, cloud credentials, keychains, token stores, browser cookie databases or dotfiles that hold secrets.

  • No pipe-to-shell installers: passed

    No pipe-to-shell or download-and-run installers.

    No `curl … | sh` pattern, in the code or in the instructions, that runs code fetched at run time.

  • Pinned to a commit: passed

    Scanned mims-harvard/tooluniverse at f5c37eebeb.

    The exact upstream commit SHA that was scanned is recorded, so the result refers to specific bytes.

Commit
f5c37eebeb
Manifest
skills/tooluniverse-protein-structure-retrieval/SKILL.md
Scanned
9 files, 1,299 lines
Copies in repo
3 — all of them scanned
This is a static scan, not a review. It reads the skill's files; it does not run them, and it cannot tell you whether the skill is any good or whether the code does what its description says. A skill runs with whatever access you give your agent.
What each check looks for →

About this skill

What it does

This skill enables AI agents to discover and retrieve specific protein structures from the ToolUniverse database. It provides direct access to structural data essential for biological research and computational analysis.

When to use it

  • You need to locate the 3D coordinates of a specific protein by its identifier or name.
  • Your workflow requires integrating structural biology data into an automated research pipeline.
  • You are analyzing protein-ligand interactions and need precise structural parameters.
  • You want to query the ToolUniverse repository for available protein models without manual browsing.

Key capabilities

  • Searches the ToolUniverse database for protein entries.
  • Retrieves detailed structural information for identified proteins.
  • Facilitates direct data access for downstream AI agent tasks.

Example prompts

  • "Find the 3D structure of human hemoglobin in the ToolUniverse database."
  • "Retrieve structural details for Protein ID PDB_12345."
  • "List all available protein structures related to enzyme catalysis in ToolUniverse."

Tips & gotchas

Ensure you have a valid identifier or accurate protein name, as retrieval depends on precise matching within the ToolUniverse catalog. This skill is specific to the ToolUniverse ecosystem and may not access external databases like PDB directly unless integrated.