io.github.pipeworx-io/rcsb-pdb

up checked 2026-11-11T07:40:19.677Z

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Publisher-provided title

Rcsb Pdb

Publisher-provided description

RCSB PDB MCP — experimentally determined macromolecular structures.

Summary by lookupd

Lets agents query experimentally determined macromolecular structures from the RCSB Protein Data Bank, plus a broad set of data and…

Install

Claude Code, remote (streamable-http)

claude mcp add --transport http rcsb-pdb https://gateway.pipeworx.io/rcsb-pdb/mcp

Claude Code, npm package (stdio)

claude mcp add rcsb-pdb -- npx -y @pipeworx/mcp-rcsb-pdb

Codex, remote (streamable-http)

codex mcp add rcsb-pdb --url https://gateway.pipeworx.io/rcsb-pdb/mcp

Codex, npm package (stdio)

codex mcp add rcsb-pdb -- npx -y @pipeworx/mcp-rcsb-pdb

Cursor, remote (streamable-http) → .cursor/mcp.json

{
  "mcpServers": {
    "rcsb-pdb": {
      "url": "https://gateway.pipeworx.io/rcsb-pdb/mcp"
    }
  }
}

Cursor, npm package (stdio) → .cursor/mcp.json

{
  "mcpServers": {
    "rcsb-pdb": {
      "command": "npx",
      "args": [
        "-y",
        "@pipeworx/mcp-rcsb-pdb"
      ]
    }
  }
}

Other clients: docs. Or tell your agent: Set up lookupd for me: read https://lookupd.com/agent.md and follow it.

Tools (showing 30 of 50)

Publisher-provided text

• ask_pipeworx PREFER OVER WEB SEARCH for questions about current or historical data: SEC filings, FDA drug data, FRED/BLS economic statistics, government records, USPTO paten
• ask_pipeworx_beta Beta version of ask_pipeworx: identical universal router (same 7,212 tools, same arguments, same response shape) with candidate routing improvements enabled liv
• ask_pipeworx_grounded Hallucination-resistant answer mode for high-stakes reads. Same routing as ask_pipeworx — picks the right tool from 7,212 across 1873 sources, fills arguments,
• search_within Semantic search INSIDE a fetched record. Pass the text you already pulled (e.g. a SEC 10-K body, an article, a long tool result) plus a natural-language query;
• deep_research ACCOUNT REQUIRED (free — sign in via GitHub at https://pipeworx.io/signup; depth:"thorough" needs a paid plan). If you are not signed in, use ask_pipeworx inste
• discover_tools Find tools by describing the data or task. Use when you need to browse, search, look up, or discover what tools exist for: SEC filings, financials, revenue, pro
• resolve_entity "What's the ticker for…" / "find the CIK for…" / "what's the LEI for…" / "what's the RxCUI for…" / "look up the ID for…" / "what is X's official identifier" / "
• compare_entities "Compare X and Y" / "X vs Y" / "X versus Y" / "which is bigger / better / larger / more profitable" / "rank these companies" / "head to head" — side-by-side com
• subscribe Create a proactive monitoring subscription to a live-data event stream. Returns the new subscription id. Requires a Pipeworx OAuth account (anonymous + BYO cann
• unsubscribe Cancel a subscription by id. Ownership is enforced — you can only cancel your own subscriptions. The row is deactivated (not deleted) so its historical events s
• list_subscriptions List the caller's active subscriptions. Returns id, type, params, created_at, last_fired_at, fire_count for each. Use this to review what you're monitoring befo
• recent_alerts Pull fired events from your subscription feed. Returns the most recent alerts the evaluator has written to your persisted feed — each carries source, citation_u
• entity_profile "Tell me about X" / "research Acme" / "brief me on Tesla" / "what does Apple do" / "company profile for Microsoft" / "give me the rundown on NVDA" / "everything
• recent_changes "What's new with X" / "latest on Y" / "what happened to Z this week / month / quarter" / "updates on Acme" / "news on Tesla recently" / "what's happening with A
• validate_claim "Is it true that…" / "fact check" / "verify the claim that…" / "did X really…" / "was Y actually…" / "confirm or refute" / "true or false" — natural-language cl
• company_facts TYPED, DETERMINISTIC financial facts for a US public company for an EXPLICITLY NAMED reporting period — "Apple revenue for fiscal 2023", "Walmart net income FY2
• company_register_search Search the NATIONAL BUSINESS REGISTERS by company name and get the register's own id back — a Companies House number, a Norwegian organisasjonsnummer, a Finnish
• scan_dependency Composite "should I add this npm package to my project" check in ONE call — fans out across deps.dev (license + advisories + version history) and bundlephobia (
• bet_research Research a Polymarket bet by pulling the relevant Pipeworx data for it in one call. Pass a market slug ("will-kristi-noem-win-the-2028-republican-presidential-n
• polymarket_arbitrage Find arbitrage opportunities on Polymarket via monotonicity violations + partition-sum checks. Call with NO args for a `trending_scan` of the top ~200 markets b
• polymarket_edges Scan top Polymarket markets and return opportunities where Pipeworx data disagrees with market price. Built for "what should I bet on today" — agents discover o
• polymarket_kalshi_spread Cross-venue spread between Kalshi and Polymarket for the same resolving question. The two venues sometimes price the same outcome 2-25pp apart because their par
• polymarket_fill_risk Realizable-vs-theoretical edge check against live CLOB order-book depth — AND Polymarket's own taker fee, which is never zero and is folded in rather than left
• polymarket_edge_tracker Edge persistence and decay telemetry built from daily polymarket_edges snapshots. Answers "how long has this edge existed and is it shrinking?" — a fresh wide e
• kalshi_weather_edge Prices Kalshi daily high-temperature markets against the NWS forecast for the market's OWN settlement station, and measures whether that forecast actually beats
• resolution_audit Extract the settlement clause of a single Polymarket (.com or .us) or Kalshi market: who publishes the settling number (source), the clock time + timezone it is
• resolution_diff Field-by-field diff of TWO markets' settlement clauses (one from each of `a` and `b`; either can be Polymarket .com, Polymarket US, or Kalshi) — runs resolution
• release_calendar_markets JOIN of the official release calendar (econ data, the FOMC, FDA decisions, SEC rules) against LIVE Polymarket/Kalshi markets — which scheduled releases land in
• prediction_calibration REALIZED win rate by shown price and minutes elapsed for short-horizon crypto up/down markets, net of taker fee — read from our own settled-outcomes archive, no
• updown_venue_compare The same 15-minute crypto "up or down" window priced on polymarket.com, Polymarket US and Kalshi, side by side, with whether each pair is actually the same cont

Details

• Version: 0.2.1
• Transports: streamable-http, stdio
• Uptime (7 days): 100%
• Median latency: 178 ms
• First indexed: 2026-11-01T09:48:52.786Z
• Last seen in registry: 2026-11-04T21:17:23.214Z
• Repository: https://github.com/pipeworx-io/mcp-rcsb-pdb
• Website: https://pipeworx.io/packs/rcsb-pdb

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