AI Plugin Index
Protein MCP Server
Verified · npm:@cyanheadsMCP server by cyanheads · updated · ★ 6 · 316 downloads a week
Federated protein structure & annotation across experimental (PDB) and predicted (AlphaFold) models via MCP. STDIO or Streamable HTTP. Protein MCP Server is published by npm:@cyanheads from its verified domain in the official MCP Registry.
Last commit 5 days ago
Apache-2.0: permissive, fine for commercial use
Clear description, published package or server URL, original repository
No risky patterns in the files we checked
Install Protein MCP Server
Built from the published package, never by AIclaude mcp add protein-mcp-server -- npx -y @cyanheads/protein-mcp-serverRun in your terminal. Add --scope user to use it in every project.
{
"mcpServers": {
"protein-mcp-server": {
"command": "npx",
"args": [
"-y",
"@cyanheads/protein-mcp-server"
]
}
}
}Settings, Developer, Edit config. Paste into claude_desktop_config.json and restart.
{
"mcpServers": {
"protein-mcp-server": {
"command": "npx",
"args": [
"-y",
"@cyanheads/protein-mcp-server"
]
}
}
}Add to ~/.cursor/mcp.json (all projects) or .cursor/mcp.json (this project).
{
"servers": {
"protein-mcp-server": {
"command": "npx",
"args": [
"-y",
"@cyanheads/protein-mcp-server"
]
}
}
}Add to .vscode/mcp.json. VS Code uses "servers", not "mcpServers".
codex mcp add protein-mcp-server -- npx -y @cyanheads/protein-mcp-server{
"mcpServers": {
"protein-mcp-server": {
"command": "npx",
"args": [
"-y",
"@cyanheads/protein-mcp-server"
]
}
}
}Add to ~/.gemini/config/mcp_config.json (all projects) or .agents/mcp_config.json (this project).
gemini mcp add protein-mcp-server npx -y @cyanheads/protein-mcp-serverGemini CLI was replaced by Antigravity CLI in June 2026 and remains only for enterprise licences and paid API keys.
MCP servers run with your permissions and can read what you give them access to. Some need an API key: check the README and add it under env in the protein-mcp-server block.
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Security check
ANo download-and-run commands, hidden instructions or signs of sending keys out were found.
Checked automatically: README.md, package.json. This looks for known risky patterns and is not a full audit. How grades work
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Protein MCP Server: common questions
How do I install Protein MCP Server?
In Claude Code run claude mcp add protein-mcp-server -- npx -y @cyanheads/protein-mcp-server. For Claude Desktop, Cursor and VS Code, paste the config shown above and restart. See the install guides.
Is Protein MCP Server the official server?
Protein MCP Server is published by npm:@cyanheads from its verified domain in the official MCP Registry.
Is Protein MCP Server free?
The code is published under the Apache-2.0 licence. The service it connects to may have its own pricing.
Is Protein MCP Server safe to use?
It scores 78 of 100. Grades: maintenance A, licence A, quality C. Security check: grade A, no risky patterns found in the files checked. Review the code before you install. How grades work.
What are alternatives to Protein MCP Server?
Similar MCP servers: Jay Code, Apple Health, codescene-mcp-server, Jacobian.
Does Protein MCP Server work with ChatGPT?
Not directly. It runs locally, and ChatGPT only connects to remote servers with a URL. Use it in Claude Code, Claude Desktop, Cursor, VS Code or Codex.