Protein MCP Server

by cyanheads Your server? Claim it

local only

Protein MCP Server runs on your own machine — the client starts it, so there is no endpoint to ping. 40 installs a week from npm. Last commit 18 Oct 2026.

MCP Server for 3D protein structural data retrieval & analysis from RCSB PDB, PDBe, and UniProt.

Installs per day peak 9 · avg 4 · -20% w/w

a month agotoday

Installs / week

npm · protein-mcp-server

Stars

1 open issue

18 Oct 2026

Last commit

no releases in 90 days

Apache-2.0

License

TypeScript

Nothing serious here today

Today is the operative word: we check Protein MCP Server every 15 minutes and re-read its code on every release. Watch it and you find out the day that stops being true.

Connect this server

This server runs on your own machine — install it with the package manager and the client starts it for you. Package name taken from the official registry entry.

Claude Code Claude Desktop Codex Cursor VS Code

run in your terminal

claude mcp add protein-mcp-server -- npx -y protein-mcp-server

~/Library/Application Support/Claude/claude_desktop_config.json

{
  "mcpServers": {
    "protein-mcp-server": {
      "command": "npx",
      "args": [
        "-y",
        "protein-mcp-server"
      ]
    }
  }
}

~/.codex/config.toml

[mcp_servers.protein-mcp-server]
command = "npx"
args = ["-y", "protein-mcp-server"]

.cursor/mcp.json

{
  "mcpServers": {
    "protein-mcp-server": {
      "command": "npx",
      "args": [
        "-y",
        "protein-mcp-server"
      ]
    }
  }
}

.vscode/mcp.json

{
  "servers": {
    "protein-mcp-server": {
      "type": "stdio",
      "command": "npx",
      "args": [
        "-y",
        "protein-mcp-server"
      ]
    }
  }
}

Optional settings from the registry entry, left out of the block above: MCP_HTTP_HOST (The hostname for the HTTP server), MCP_HTTP_PORT (The port to run the HTTP server on), MCP_HTTP_ENDPOINT_PATH (The endpoint path for the MCP server), MCP_AUTH_MODE (Authentication mode to use: 'none', 'jwt', or 'oauth'), MCP_LOG_LEVEL (Sets the minimum log level for output (e.g., 'debug', 'info', 'warn')).

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Protein MCP Server — questions

Answers built from our own checks of this server.

Why is there no uptime for Protein MCP Server?

Protein MCP Server runs on your own machine over stdio — there is no network address to reach, so uptime cannot be measured for it by anyone. What can be measured is adoption: the npm package protein-mcp-server was installed 40 times last week.

How do I connect Protein MCP Server?

Copy the ready config from this page. We generate it for Claude Code, Claude Desktop, Codex, Cursor and VS Code, each in the form that client actually reads. It runs locally, so the command pulls protein-mcp-server straight from npm; nothing to host, nothing to sign up for.

How many people use Protein MCP Server?

The npm package protein-mcp-server was installed 40 times in the last week. Week over week that is -20%. We show installs rather than GitHub stars on purpose: a star is a bookmark, an install is someone actually running it.

Is Protein MCP Server open source?

Yes — it is published under the Apache-2.0 licence, written in TypeScript, 6 stars on GitHub and 1 open issue. The source link is on this page, so you can read exactly what it does with your data before you connect it.