Alphafold MCP server

by mrfentmen·io.github.mrfentmen/alphafold-mcp·v1.0.0

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Keyless MCP server for AlphaFold: protein structure predictions by UniProt accession, confidence...

A89/100grade A

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Safety scan

A89/100

full report

Adoption

Growing

0 stars120 downloads/wk

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If you have run it, two minutes of your experience saves the next person an afternoon.

Alphafold tools (2)

write = sends, deletes, buys or posts

Read from the package source without running it. The installed server may list more.

get_prediction
Get AlphaFold structure predictions for a UniProt accession: confidence scores, pipeline, dates.
model_files
Direct AlphaFold model file links (mmCIF, PDB, PAE) plus the entry page, without fetching.

Public scan report

scanner v0.1.10 · 2026-11-01 · same rubric, same numbers if you re-run it

no findings

Code scan7 source files scanned25/25
–Live reliabilityno gateway calls yet and no remote to proben/a
–Tool poisoningtools not inspected (local package is not executed); not countedn/a
Auth qualitylocal package, no credentials required12/15
Maintenancelast push 0 days ago15/15
Maintainer identityregistry namespace matches repository owner6/10

Overall 89/100. Components that don't apply are left out of the denominator. Any critical finding is an F.Rubric Appeal a finding JSON

How Alphafold compares

Against every graded MCP server, from our own scans and uptime checks. Updated after each scan run.

Safety score: 89/100; higher than 82% of 48,114 servers
Tools: 2; the typical server has 7
Tools that change things: 0%; typical: 0%. Fewer write tools means less an agent can break
Downloads a week: 120; more than 61% of 15,093 servers with a package

What its tools let an agent do: 2 read

Install Alphafold in Claude Code, Cursor or VS Code

Runs npx -y alphafold-mcp on your machine. Read the scan report first; the gateway never runs local packages.

claude mcp add alphafold-mcp -- npx -y alphafold-mcp

Add to Cursor

What the publisher says

From the Alphafold repository's README, as published. We do not edit it. Read it on GitHub

Awesome MCPs

A monorepo of MCP servers from the mrfentmen account and local workspace.

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Browser extensions are maintained separately in private repositories and are intentionally not included here.

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Shortened. The full README is on GitHub.

Nothing above is checked by us. What we check is on the safety report.

Alphafold: common questions

Is Alphafold MCP server safe?: Yes, by our scan: it is graded A (89/100). Read the Alphafold safety report
How do I install Alphafold?: It runs on your machine. Copy the Claude Code, Cursor, VS Code or Claude Desktop config from the install section.
Does Alphafold need an API key?: Not as far as the registry entry and our scan can tell: no credentials are declared or required.
Is Alphafold maintained?: The last commit was 14 days ago (2026-11-01). The latest release is v1.0.0.
How does Alphafold compare with other MCP servers?: safety score 89/100 (higher than 82% of 48,114 servers); tools 2 (the typical server has 7); tools that change things 0% (typical: 0%. Fewer write tools means less an agent can break). Full comparison.