Tooluniverse
ynulihao/AgentSkillOS
A skill your agent uses when working with scientific research tools and workflows across bioinformatics, cheminformatics, genomics, structural biology, proteomics, and drug discovery.
Query IUPHAR/BPS Guide to Pharmacology (GtoPdb) for receptor-ligand interactions, target/ligand metadata, families, and approved drugs.
Install Gtopdb Database
$ npx skills add jaechang-hits/SciAgent-Skills --skill gtopdb-database -a claude-codeProject install by default; add -g for ~/.claude/skills/.
$ gh skill install jaechang-hits/SciAgent-Skills gtopdb-database --agent claude-codeProject scope by default; add --scope user for a personal install. Needs GitHub CLI 2.90.0 or later (public preview).
$ git clone --depth 1 https://github.com/jaechang-hits/SciAgent-Skills.git skills-src && mkdir -p .claude/skills && cp -r skills-src/skills/structural-biology-drug-discovery/gtopdb-database .claude/skills/gtopdb-database && rm -rf skills-srcUse ~/.claude/skills/ instead of .claude/skills for a personal install. The folder must contain SKILL.md.
Claude Code skills documentation · loads skills from .claude/skills/
Install the "gtopdb-database" agent skill from https://github.com/jaechang-hits/SciAgent-Skills/tree/main/skills/structural-biology-drug-discovery/gtopdb-database into .claude/skills/gtopdb-database/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "gtopdb-database", then confirm the skill loads.Claude Code copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$skill-installer install https://github.com/jaechang-hits/SciAgent-Skills/tree/main/skills/structural-biology-drug-discovery/gtopdb-databaseType this inside Codex. $skill-installer <name> installs a curated skill from openai/skills. The installer writes to $CODEX_HOME/skills (default ~/.codex/skills). Restart Codex if the skill does not show up.
$ npx skills add jaechang-hits/SciAgent-Skills --skill gtopdb-database -a codexProject install goes to .agents/skills/; add -g for ~/.codex/skills/.
$ gh skill install jaechang-hits/SciAgent-Skills gtopdb-database --agent codexProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/jaechang-hits/SciAgent-Skills.git skills-src && mkdir -p .agents/skills && cp -r skills-src/skills/structural-biology-drug-discovery/gtopdb-database .agents/skills/gtopdb-database && rm -rf skills-srcUse ~/.agents/skills/ instead of .agents/skills for a personal install.
Codex skills documentation · loads skills from .agents/skills/
Install the "gtopdb-database" agent skill from https://github.com/jaechang-hits/SciAgent-Skills/tree/main/skills/structural-biology-drug-discovery/gtopdb-database into .agents/skills/gtopdb-database/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "gtopdb-database", then confirm the skill loads.Codex copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ npx skills add jaechang-hits/SciAgent-Skills --skill gtopdb-database -a cursorProject install goes to .agents/skills/; add -g for ~/.cursor/skills/.
$ gh skill install jaechang-hits/SciAgent-Skills gtopdb-database --agent cursorProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/jaechang-hits/SciAgent-Skills.git skills-src && mkdir -p .cursor/skills && cp -r skills-src/skills/structural-biology-drug-discovery/gtopdb-database .cursor/skills/gtopdb-database && rm -rf skills-srcUse ~/.cursor/skills/ instead of .cursor/skills for a personal install.
Cursor skills documentation · loads skills from .cursor/skills/, .agents/skills/, .claude/skills/, .codex/skills/
Install the "gtopdb-database" agent skill from https://github.com/jaechang-hits/SciAgent-Skills/tree/main/skills/structural-biology-drug-discovery/gtopdb-database into .cursor/skills/gtopdb-database/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "gtopdb-database", then confirm the skill loads.Cursor copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ gemini skills install https://github.com/jaechang-hits/SciAgent-Skills.git --path skills/structural-biology-drug-discovery/gtopdb-database--scope user (default) or --scope workspace; --path is the subfolder of the repo that holds the skill; --consent skips the security confirmation prompt.
$ npx skills add jaechang-hits/SciAgent-Skills --skill gtopdb-database -a gemini-cliProject install goes to .agents/skills/; add -g for ~/.gemini/skills/.
$ gh skill install jaechang-hits/SciAgent-Skills gtopdb-database --agent gemini-cliProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/jaechang-hits/SciAgent-Skills.git skills-src && mkdir -p .gemini/skills && cp -r skills-src/skills/structural-biology-drug-discovery/gtopdb-database .gemini/skills/gtopdb-database && rm -rf skills-srcUse ~/.gemini/skills/ instead of .gemini/skills for a personal install, then run /skills reload.
Gemini CLI skills documentation · loads skills from .gemini/skills/, .agents/skills/
Install the "gtopdb-database" agent skill from https://github.com/jaechang-hits/SciAgent-Skills/tree/main/skills/structural-biology-drug-discovery/gtopdb-database into .gemini/skills/gtopdb-database/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "gtopdb-database", then confirm the skill loads.Gemini CLI copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ gh skill install jaechang-hits/SciAgent-Skills gtopdb-databaseInstalls for Copilot at project scope by default; add --scope user for a personal install. Preview a skill first with gh skill preview. Needs GitHub CLI 2.90.0 or later (public preview).
$ npx skills add jaechang-hits/SciAgent-Skills --skill gtopdb-database -a github-copilotProject install goes to .agents/skills/; add -g for ~/.copilot/skills/.
$ git clone --depth 1 https://github.com/jaechang-hits/SciAgent-Skills.git skills-src && mkdir -p .github/skills && cp -r skills-src/skills/structural-biology-drug-discovery/gtopdb-database .github/skills/gtopdb-database && rm -rf skills-srcUse ~/.copilot/skills/ instead of .github/skills for a personal install. Commit .github/skills so cloud agent and code review can use it.
GitHub Copilot skills documentation · loads skills from .github/skills/, .claude/skills/, .agents/skills/
Install the "gtopdb-database" agent skill from https://github.com/jaechang-hits/SciAgent-Skills/tree/main/skills/structural-biology-drug-discovery/gtopdb-database into .github/skills/gtopdb-database/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "gtopdb-database", then confirm the skill loads.GitHub Copilot copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ npx skills add jaechang-hits/SciAgent-Skills --skill gtopdb-database -a opencodeOpenCode documents no install command of its own. Project install goes to .agents/skills/; add -g for ~/.config/opencode/skills/.
$ gh skill install jaechang-hits/SciAgent-Skills gtopdb-database --agent opencodeProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/jaechang-hits/SciAgent-Skills.git skills-src && mkdir -p .opencode/skills && cp -r skills-src/skills/structural-biology-drug-discovery/gtopdb-database .opencode/skills/gtopdb-database && rm -rf skills-srcUse ~/.config/opencode/skills/ instead of .opencode/skills for a personal install.
OpenCode skills documentation · loads skills from .opencode/skills/, .claude/skills/, .agents/skills/
Install the "gtopdb-database" agent skill from https://github.com/jaechang-hits/SciAgent-Skills/tree/main/skills/structural-biology-drug-discovery/gtopdb-database into .opencode/skills/gtopdb-database/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "gtopdb-database", then confirm the skill loads.OpenCode copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
Facts
- Skill name
gtopdb-database- GitHub stars
- 371
- Used in
- 1 other repo
- Token cost
- ~4.9k tokens
- SKILL.md length
- 853 words
- Files
- 1
- Skills in repo
- 169
- Repo updated
- First seen
- Licence
- Custom licence
At a glance
Query IUPHAR/BPS Guide to Pharmacology (GtoPdb) for receptor-ligand interactions, target/ligand metadata, families, and approved drugs.
- Works in 6 steps: Use geneSymbol=/accession= for canonical… → Read sub-resources for everything beyond… → Filter interactions via… → …
- Tasks that involve Drug discovery and cheminformatics
- SKILL.md covers Overview, When to Use, Prerequisites and Quick Start, plus 9 more sections
- Calls pip; reaches guidetopharmacology.org
What it does
Gtopdb Database is an agent skill from jaechang-hits/SciAgent-Skills. Query IUPHAR/BPS Guide to Pharmacology (GtoPdb) for receptor-ligand interactions, target/ligand metadata, families, and approved drugs. Affinities (pKi/pIC50/pKd), action (Agonist/Antagonist/etc.), species, structures (SMILES/InChI). No auth. Always resolve targets via geneSymbol/accession; most metadata lives in sub-resources (/databaseLinks, /structure, /synonyms).
Its SKILL.md is about 4.9k tokens, which your agent loads only when the skill is triggered. It is a single SKILL.md file with no bundled scripts.
It sits in Research & Science, covering Drug discovery and cheminformatics, Cryptography and Protein structure and design. It works with UniProt. The repository describes itself as: 197 bioinformatics & life science skills for Claude Code and AI agents — BixBench 92.0% accuracy. RNA-seq, single-cell, drug discovery, proteomics, and more. Powers OmicsHorizon.
When your agent uses it
- Tasks that involve Drug discovery and cheminformatics
- Tasks that involve Cryptography
- Tasks that involve Protein structure and design
Example prompts
- “/gtopdb-database”
Requirements
- Python 3
Workflow steps
6 steps, taken from the first numbered list in SKILL.md.
- Use geneSymbol=/accession= for canonical lookups, never name= — fuzzy name= matches across all fields and silently returns the wrong target.
- Read sub-resources for everything beyond IDs. Base /targets/{id} and /ligands/{id} records lack gene symbols, UniProt, SMILES, ChEMBL…
- Filter interactions via /targets/{id}/interactions or /ligands/{id}/interactions — never /interactions?targetId=…, which silently ignores…
- Use type=Approved server alias to fetch approved drugs; approved=true query param is ignored.
- Always cast affinity numerically with errors="coerce" — it's a string that can be ranges, qualified, or missing.
- Family endpoint is /targets/families — not /families (which 404s).
What it can do on your machine
Read from SKILL.md and the folder at commit 82c862c. It shows what the files ask for, not the result of running them.
Tool permissions
Pre-approves nothing: there is no allowed-tools line, so your agent's usual permission prompts apply.
From allowed-tools in the SKILL.md frontmatter.
Runs code
Shell commands in SKILL.md call:
pip
From the folder's file list and the shell code blocks in SKILL.md.
Network
Hosts in commands or code, which the agent is likely to contact:
guidetopharmacology.org
Also links to:
doi.org
From URLs in SKILL.md, links to its own repository left out.
Credentials
Names no API keys, tokens, secrets or passwords.
From names ending in _API_KEY, _TOKEN, _SECRET, _KEY or _PASSWORD in SKILL.md.
Context cost
Gtopdb Database loads about 4.9k tokens when it runs. Until then it costs about 96 tokens; SKILL.md has 853 words of instructions outside code blocks.
Estimates: characters ÷ 4, the usual rule of thumb; real counts depend on the model's tokenizer. Scripts and assets cost tokens only if the agent reads them.
Safety
Auto-check passed
The automated check found no risky patterns in SKILL.md.
Automated static check — not a guarantee. Review scripts before installing. It scans the text of SKILL.md for risky patterns (piping downloads into a shell, reading credential files, hidden Unicode, destructive commands); files beside SKILL.md are not scanned.
SKILL.md
Its licence (Custom licence) doesn't allow us to republish the file, so here is its outline and opening line. It has 853 words (~4,855 tokens).
“The IUPHAR/BPS Guide to Pharmacology (GtoPdb) catalogues drug targets, ligands, and quantitative interactions across receptor pharmacology. The web services REST API at https://www.guidetopharmacology.org/services/ returns JSON for targets, ligands, interactions, and family hierarchies. Base records are intentionally lean — gene symbols…”
- name
- gtopdb-database
- license
- ODbL-1.0
Files
Just SKILL.md in skills/structural-biology-drug-discovery/gtopdb-database of jaechang-hits/SciAgent-Skills.
Open the folder on GitHubat commit 82c862c
Used in 1 other repository
We found 1 copy of this SKILL.md (exact, near-identical or edited) in other folders, from 1 other GitHub owner. This page covers the copy in jaechang-hits/SciAgent-Skills, which our catalogue first saw on October 7, 2026.
Compare with similar skills
Gtopdb Database next to the 5 skills that share the most tags, products or categories with it. Stars are the repository's; “used in” counts other GitHub owners with a copy.
| Skill | Stars | Used in | Tokens | Auto-check | Licence | Repo updated |
|---|---|---|---|---|---|---|
| Gtopdb Database this skilljaechang-hits/SciAgent-Skills | 371 | 1 repos | ~4.9k | Automated safety check: Pass | Custom licence | |
| Tooluniverseynulihao/AgentSkillOS | 617 | 2 repos | ~2.5k | Automated safety check: Pass | None | |
| Alphafold Database Fetch And Analyzegoogle-deepmind/science-skills | 3.2k | 2 repos | ~1.2k | Automated safety check: Pass | Apache-2.0 | |
| DiffDock Molecular DockingK-Dense-AI/scientific-agent-skills | 48k | 1 repos | ~3k | Automated safety check: Notes | MIT | |
| Biopipelineslocbp-uzh/biopipelines | 109 | — | ~2.4k | Automated safety check: Pass | MIT | |
| Bio DB ToolsDrugClaw/DrugClaw | 125 | — | ~1.4k | Automated safety check: Pass | Apache-2.0 |
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DiffDock Molecular Docking
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Biopipelines
locbp-uzh/biopipelines
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Gget
davila7/claude-code-templates
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Related
Works with
Categories
Questions about Gtopdb Database
What does Gtopdb Database do?
Query IUPHAR/BPS Guide to Pharmacology (GtoPdb) for receptor-ligand interactions, target/ligand metadata, families, and approved drugs. Gtopdb Database is an agent skill from jaechang-hits/SciAgent-Skills. Query IUPHAR/BPS Guide to Pharmacology (GtoPdb) for receptor-ligand interactions, target/ligand metadata, families, and approved drugs.
When should I use Gtopdb Database?
Gtopdb Database fits situations like: tasks that involve Drug discovery and cheminformatics; tasks that involve Cryptography; tasks that involve Protein structure and design.
How do I install Gtopdb Database in Claude Code?
Run `npx skills add jaechang-hits/SciAgent-Skills --skill gtopdb-database -a claude-code`. Or copy the skill folder (skills/structural-biology-drug-discovery/gtopdb-database in jaechang-hits/SciAgent-Skills) into .claude/skills/gtopdb-database in your project. Claude Code loads it when a task matches its description.
How do I install Gtopdb Database in Codex?
Run `npx skills add jaechang-hits/SciAgent-Skills --skill gtopdb-database -a codex`. Or copy the skill folder (skills/structural-biology-drug-discovery/gtopdb-database in jaechang-hits/SciAgent-Skills) into .agents/skills/gtopdb-database in your project. Codex loads it when a task matches its description.
Can I use Gtopdb Database in Cursor, Gemini CLI or GitHub Copilot?
Cursor, Gemini CLI, GitHub Copilot and OpenCode also load SKILL.md folders. With the skills CLI, run `npx skills add jaechang-hits/SciAgent-Skills --skill gtopdb-database -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/gtopdb-database, .gemini/skills/gtopdb-database, .github/skills/gtopdb-database and .opencode/skills/gtopdb-database in your project.
What does Gtopdb Database need to run?
Going by SKILL.md and its folder, Gtopdb Database needs the command-line tools its instructions call (pip). Our summary lists: Python 3.
Does Gtopdb Database access the network?
SKILL.md names 2 domains. In commands or code: guidetopharmacology.org; the agent is likely to contact it when it follows the instructions. As links in the text: doi.org. This is read from the text; nothing was executed.
Is Gtopdb Database safe to install?
Our automated static check of SKILL.md found no risky patterns, such as piping downloads into a shell, reading credential files or hidden Unicode. It is not a guarantee. Review the folder before installing.
What licence does Gtopdb Database use?
Gtopdb Database has a licence file (the repository's licence) that doesn't match a standard licence. Read it on GitHub before reusing the skill.
How many tokens does Gtopdb Database use?
About 4.9k tokens (SKILL.md is roughly 19k characters). Agents keep only the skill's name and description in context until a task matches; then they load SKILL.md in full.
What are the alternatives to Gtopdb Database?
Skills that share tags, products or a category with Gtopdb Database: Tooluniverse (ynulihao/AgentSkillOS, 617 stars), Alphafold Database Fetch And Analyze (google-deepmind/science-skills, 3.2k stars), DiffDock Molecular Docking (K-Dense-AI/scientific-agent-skills, 48k stars) and Biopipelines (locbp-uzh/biopipelines, 109 stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.
Who maintains Gtopdb Database?
jaechang-hits (a GitHub user) maintains it in jaechang-hits/SciAgent-Skills, which has 371 GitHub stars. The repository holds 169 skills in this directory. The repository was last updated on September 29, 2026.
Source: jaechang-hits/SciAgent-Skills on GitHub. Facts on this page come from the repository at the commit we read; the author's words are quoted as theirs.