Search / io.github.pipeworx-io/alphafold
Alphafold
R0· no sign-inAlphaFold DB MCP — predicted protein structures.
v0.1.3 · active · repository · website · descriptor JSON · versions
Search / io.github.pipeworx-io/alphafold
R0· no sign-inAlphaFold DB MCP — predicted protein structures.
v0.1.3 · active · repository · website · descriptor JSON · versions
{
"mcpServers": {
"alphafold": {
"type": "http",
"url": "https://gateway.pipeworx.io/alphafold/mcp"
}
}
}claude mcp add --transport http alphafold https://gateway.pipeworx.io/alphafold/mcp[mcp_servers.alphafold]
url = "https://gateway.pipeworx.io/alphafold/mcp"
{
"$schema": "https://opencode.ai/config.json",
"mcp": {
"alphafold": {
"type": "remote",
"url": "https://gateway.pipeworx.io/alphafold/mcp",
"enabled": true
}
}
}{
"mcpServers": {
"alphafold": {
"type": "http",
"url": "https://gateway.pipeworx.io/alphafold/mcp"
}
},
"deeplink": "cursor://anysphere.cursor-deeplink/mcp/install?name=alphafold&config=eyJ0eXBlIjoiaHR0cCIsInVybCI6Imh0dHBzOi8vZ2F0ZXdheS5waXBld29yeC5pby9hbHBoYWZvbGQvbWNwIn0%3D"
}{
"servers": {
"alphafold": {
"type": "http",
"url": "https://gateway.pipeworx.io/alphafold/mcp"
}
}
}{
"mcpServers": {
"alphafold": {
"httpUrl": "https://gateway.pipeworx.io/alphafold/mcp"
}
}
}extensions:
"alphafold":
enabled: true
name: "alphafold"
type: streamable_http
uri: "https://gateway.pipeworx.io/alphafold/mcp"
timeout: 300
Not scored: fewer than three checks apply, usually because no remote answered a credential-free probe or the server is a local package.
protocol.modernnewest supported version is 2025-03-26; 2026-07-28 not supported, older versions are deprecated until 2027-07-28protocol.statelessonly applies to 2026-07-28 serversprotocol.transportstreamable HTTPprotocol.list_ttlonly applies to 2026-07-28 serversauth.prm, auth.as_metadata, auth.cimdno remote uses OAuthauth.secret_in_urlno templated URLtools.descriptions, tools.description_length, tools.schemas, tools.annotations, tools.directory_hints, tools.token_cost, tools.api_dumptool list unknown (behind auth, not probed, or empty)stability.changes, stability.rug_pulltool list unknowndeps.known_vulns, deps.mcp_sdk_version, deps.resolvableno npm or PyPI packagepipeworx_feedbackremovedTell the Pipeworx team something is broken, missing, or needs to exist. Use when a tool returns wrong/stale data (bug), when a tool you wish existed isn't in the catalog (feature/data_gap), or when something worked surprisingly well (praise). ONLY for tools served by this Pipeworx connection — if the tool came from a different MCP server in your client (another vendor's Gmail, Splunk, Slack, etc. connector), we cannot fix it and reporting it here only delays you; file it with that server instead. Not sure? Pipeworx tool names are the ones this connection lists. Describe the issue in terms of Pipeworx tools/packs — don't paste the end-user's prompt. Filing without an account returns a `claim_token`; pass it back later as pipeworx_feedback({claim_token:"pwfb_…"}) to read whether it was fixed and what changed. The team reads digests daily and signal directly affects roadmap. Rate-limited to 5 per identifier per day. Free; doesn't count against your tool-call quota.
resolve_entityremoved"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" / "who owns X" / "is X a subsidiary of Y" — resolve a user-spoken NAME to the canonical/official identifiers other tools require as input. Use FIRST whenever you have a name but need an ID. SUPPORTED TYPES: "company" (cross-source identity spine: 10-digit CIK + ticker + company_name from SEC EDGAR, legal-entity LEI from GLEIF with parent/ultimate-parent/children ownership when the LEI resolves, and security FIGI from OpenFIGI — by exact ticker map when a ticker is implied, and otherwise by name search, so NON-EQUITY instruments that never have a ticker (municipal and corporate bonds, notes, authority debt) DO resolve here; when a name matches more than one instrument it asserts nothing and returns `figi_candidates` to pick from, which is the correct answer to an issuer name that does not identify a single bond; every identifier is labelled with the source that established it, and an identifier that could NOT be resolved is stated explicitly under `unresolved` rather than omitted — accepts ticker, CIK, ISIN, or company name as input; an ISIN like "CH0038863350" resolves to the LEGAL ENTITY that issued the security via the GLEIF ISIN-to-LEI mapping, covering non-US issuers EDGAR cannot reach), "drug" (returns RxCUI + ingredient + brand from RxNorm + pipeworx://rxnorm/concept/{rxcui} citation; accepts brand or generic name). LEI/FIGI enrichment degrades gracefully — if GLEIF or OpenFIGI is unavailable, the EDGAR identifiers still return. Each call cascades through several lookup endpoints internally — using resolve_entity replaces 2-3 manual lookups.
uniprotremovedFetch AlphaFold structure prediction metadata (PDB/CIF/PAE download URLs, pLDDT scores) by UniProt accession (e.g. "P00533"); equivalent to `prediction` but takes uniprot_id explicitly.
annotationsremovedSequence-level annotations (e.g. MUTAGEN, LOW_CONFIDENCE_REGIONS).
summaryremovedShort summary for a prediction (organism, sequence, mean pLDDT).
predictionremovedFull prediction metadata + structure file URLs (PDB, CIF, PAE).
recallremovedRetrieve a value previously saved via remember, or list all saved keys (omit the key argument). Use to look up context the agent stored earlier — the user's target ticker, an address, prior research notes — without re-deriving it from scratch. Scoped to your identifier (anonymous IP, BYO key hash, or account ID). Pair with remember to save, forget to delete.
rememberremovedSave data the agent will need to reuse later — across this conversation or across sessions. Use when you discover something worth carrying forward (a resolved ticker, a target address, a user preference, a research subject) so you don't have to look it up again. Stored as a key-value pair scoped by your identifier. Authenticated users get persistent memory; anonymous sessions retain memory for 24 hours. Pair with recall to retrieve later, forget to delete.
scan_competitor_ai_presenceremovedCompare AI visibility across multiple entities side-by-side. Probes each entity (your brand + N competitors) with ai_visibility_check, ranks by score, surfaces which is most/least recognized. Useful for competitive AI-marketing audits: "does Claude know about us as well as our competitors?". Returns ranked list with score, confidence, signal density per entity.
ai_visibility_checkremovedProbe one or more LLMs for what they know about a business / brand / product / topic and score visibility (0-100) per model. Default model is Workers AI Llama-3.3-70b (free); pass `_apiKey` to also probe Anthropic (BYO key — you pay Anthropic directly for those calls). Returns per-model {score, confidence, signals, raw_response} + a combined view. Useful for AI-marketing audits, pre-launch brand checks, competitive monitoring.
Showing the latest 10. Full history: list_changes · trend: quality JSON.
Checks run on what our credential-free, read-only probes observe; tools are never called and no code audit is performed. How it is computed.
+repository +namespace-matches-repo +website +reachable +uptime-100% +updated-1d-ago
Derived from observable signals (official registry feed and our own credential-free probes); no code audit performed. How it is computed.
| remote | auth | reachable | uptime 30d | p50 | protocol | last ok |
|---|---|---|---|---|---|---|
https://gateway.pipeworx.io/alphafold/mcp streamable-http | none | yes | 100% | 33 ms | 2025-03-26 | 2026-10-20 |
No tools observed. Tools appear once a credential-free probe can list them.
Schemas: list_tools.
And 1,855 more from this publisher.
{
"name": "io.github.pipeworx-io/alphafold",
"title": "Alphafold",
"$schema": "https://static.modelcontextprotocol.io/schemas/2025-12-11/server.schema.json",
"remotes": [
{
"url": "https://gateway.pipeworx.io/alphafold/mcp",
"type": "streamable-http"
}
],
"version": "0.1.3",
"repository": {
"url": "https://github.com/pipeworx-io/mcp-alphafold",
"source": "github"
},
"websiteUrl": "https://pipeworx.io/packs/alphafold",
"description": "AlphaFold DB MCP — predicted protein structures."
}