MCP server

Complex Portal

io.github.pipeworx-io/complex-portal

Checked 26 Oct 2026, 08:29 UTC · Connected to it and listed its tools

EBI Complex Portal MCP.

Working at last checkOfficial: pipeworx.io's GitHub account (pipeworx-io)About 26,657 tokens per request once connected44 tools

https://gateway.pipeworx.io/complex-portal/mcp

At a glance

Type: MCP server
Publisher: pipeworx.io (verified by the MCP Registry)
Status: Working at last check
Tools: 44
Token cost: About 26,657 tokens per request
Sets up in: Claude Code, Claude Desktop, Codex, Gemini CLI, Cursor, VS Code, Antigravity, ChatGPT, OpenAI API, Grok
Last checked: 26 Oct 2026, 08:29 UTC

Opens the app, which shows the server and asks you to confirm. For other apps, copy the setup below.

Claude Code

claude mcp add --transport http complex-portal https://gateway.pipeworx.io/complex-portal/mcp

Claude Desktop

Settings → Connectors → Add custom connector, and paste the URL.

Codex (config.toml)

[mcp_servers.complex-portal]
url = "https://gateway.pipeworx.io/complex-portal/mcp"

Gemini CLI

{"mcpServers":{"complex-portal":{"httpUrl":"https://gateway.pipeworx.io/complex-portal/mcp"}}}

Cursor

{"mcpServers":{"complex-portal":{"url":"https://gateway.pipeworx.io/complex-portal/mcp"}}}

VS Code

{"servers":{"complex-portal":{"type":"http","url":"https://gateway.pipeworx.io/complex-portal/mcp"}}}

Antigravity

agy mcp add complex-portal https://gateway.pipeworx.io/complex-portal/mcp

ChatGPT

Settings → Apps & Connectors → Advanced settings: turn on Developer mode, then Create a connector and paste the URL. Which plans can do this varies.

OpenAI API (Responses tools)

{"type":"mcp","server_label":"complex-portal","server_url":"https://gateway.pipeworx.io/complex-portal/mcp","require_approval":"always"}

Grok (xAI API tools)

{"type":"mcp","server_label":"complex-portal","server_url":"https://gateway.pipeworx.io/complex-portal/mcp"}

get_complex ~141 tokens
Get a single Complex Portal record by its accession (e.g. CPX-7762). Returns the complex's participants (subunits) with UniProt identifiers, biological roles and stoichiometry, plus systematic name, function, species, and description. Keyless. Complements UniProt/IntAct/STRING.
search_complexes ~213 tokens
Search the EBI Complex Portal — a manually curated database of stable macromolecular protein complexes — by protein/complex name, gene, GO term, or biological process (e.g. "apoptosis", "SCF", "ribosome"). Returns matching complexes with their accession (e.g. CPX-7762), name, description, and organi

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