Koskamo

InterPro MCP Server

A community-driven Model Context Protocol server that interfaces with the keyless EMBL-EBI InterPro API. It enables AI agents to search InterPro entries, map protein domains and functional sites onto UniProt proteins and PDB structures, walk Pfam and CDD clans, find proteins by domain, and scan raw protein sequences for matches.

Package and access

Local package with source-attributed installation metadata. Koskamo does not execute packages during review.

InterPro MCP Server logo, by cyanheadsCommunity listingLocal stdioSource reviewed; not executedPublished by cyanheads
Vendor documentation

What you can do with it

  • Search InterPro entries by GO annotation or text
  • Map UniProt protein domains to sequence coordinates
  • Scan raw protein sequences for domain matches
  • Find proteins carrying a specific domain signature

Source and maintenance

Community listingRegistry 0.2.0
mcp-registry: io.github.cyanheads/interpro-mcp-server@0.2.0Source repository
Maintenance checked

Packages and installation

Source-provided package data. Koskamo has not executed or live-probed this package.

@cyanheads/interpro-mcp-server 0.2.0

npmnpx
@cyanheads/interpro-mcp-server package definition
{
  "version": "0.2.0",
  "transport": "stdio",
  "identifier": "@cyanheads/interpro-mcp-server",
  "runtimeHint": "npx",
  "registryType": "npm",
  "registryBaseUrl": "https://registry.npmjs.org",
  "environmentVariables": [
    {
      "name": "MCP_LOG_LEVEL",
      "format": "string",
      "default": "info",
      "description": "Sets the minimum log level for output (e.g., 'debug', 'info', 'warn')."
    },
    {
      "name": "INTERPRO_SCAN_EMAIL",
      "format": "string",
      "description": "Contact email the EBI Job Dispatcher requires to submit InterProScan jobs. Optional: without it interpro_scan_sequence still returns precalculated matches for sequences already in UniParc and fails other sequences as scan_not_configured, and interpro_get_scan_result still reads existing jobs. EBI stores the address with job data for seven days, and one address covers every caller of the server."
    }
  ]
}

Tools

Reported by the attributed source; not independently observed by Koskamo.

No tool definitions available.

Connect from your client

Each snippet configures the same source-provided package; replace placeholders before use.

This server is operated by the named third party. Listing and endpoint checks are not an endorsement or a security audit. Review the operator's permissions, terms, and data handling before connecting. How listings are checked and corrected.

Cursor

Merge this local stdio configuration, replace every placeholder environment value, and restart Cursor. Koskamo has not executed this package.
Cursor configuration
{
  "mcpServers": {
    "interpro-mcp-server": {
      "command": "npx",
      "args": [
        "-y",
        "@cyanheads/interpro-mcp-server@0.2.0"
      ],
      "env": {
        "MCP_LOG_LEVEL": "<YOUR_MCP_LOG_LEVEL>",
        "INTERPRO_SCAN_EMAIL": "<YOUR_INTERPRO_SCAN_EMAIL>"
      }
    }
  }
}

Cline

Merge this local stdio configuration, replace every placeholder environment value, and restart Cline. Koskamo has not executed this package.
Cline configuration
{
  "mcpServers": {
    "interpro-mcp-server": {
      "command": "npx",
      "args": [
        "-y",
        "@cyanheads/interpro-mcp-server@0.2.0"
      ],
      "env": {
        "MCP_LOG_LEVEL": "<YOUR_MCP_LOG_LEVEL>",
        "INTERPRO_SCAN_EMAIL": "<YOUR_INTERPRO_SCAN_EMAIL>"
      }
    }
  }
}

VS Code

Merge this local stdio configuration, replace every placeholder environment value, and restart VS Code. Koskamo has not executed this package.
VS Code configuration
{
  "servers": {
    "interpro-mcp-server": {
      "type": "stdio",
      "command": "npx",
      "args": [
        "-y",
        "@cyanheads/interpro-mcp-server@0.2.0"
      ],
      "env": {
        "MCP_LOG_LEVEL": "<YOUR_MCP_LOG_LEVEL>",
        "INTERPRO_SCAN_EMAIL": "<YOUR_INTERPRO_SCAN_EMAIL>"
      }
    }
  }
}

Claude Desktop

Merge this local stdio configuration, replace every placeholder environment value, and restart Claude Desktop. Koskamo has not executed this package.
Claude Desktop configuration
{
  "mcpServers": {
    "interpro-mcp-server": {
      "command": "npx",
      "args": [
        "-y",
        "@cyanheads/interpro-mcp-server@0.2.0"
      ],
      "env": {
        "MCP_LOG_LEVEL": "<YOUR_MCP_LOG_LEVEL>",
        "INTERPRO_SCAN_EMAIL": "<YOUR_INTERPRO_SCAN_EMAIL>"
      }
    }
  }
}

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