Uniprot MCP Server vs ChemCP
A side-by-side look at the Uniprot MCP Server and ChemCP MCP servers: transport, auth, tools, quality signals, and the config to install either one in Claude, Cursor, Windsurf or VS Code.
Verdict: choose Uniprot MCP Server for biology & bioinformatics work; choose ChemCP for biology & bioinformatics as a local process. You can also run both side by side in one mcpServers block.
Which MCP server should you choose?
Choose Uniprot MCP Server when
- You need dedicated capabilities in the Biology & Bioinformatics domain.
- Its auth model fits you: No auth required.
- You want tools like
uniprot_search_proteins, uniprot_get_entry, uniprot_map_ids.
Choose ChemCP when
- You need dedicated capabilities in the Biology & Bioinformatics domain.
- You prefer a local stdio subprocess transport.
Feature & specification comparison
Rows where the two servers differ are marked.
| Spec | ||
|---|---|---|
| Category | Biology & Bioinformatics | Biology & Bioinformatics |
| Quality signal | 49/100 · Fair | 40/100 · Fair |
| Install command | Not confirmed yet | Confirmed |
| Transport | — | Local subprocess (stdio) |
| Auth | No auth required | Not declared |
| Pricing | Free | Not declared |
| Required env vars | None listed | None listed |
| Verified owner | Community listing | Community listing |
| GitHub stars | 2 | 2 |
| Directory activity | 2 views 0 installs 0 upvotes | 2 views 0 installs 0 upvotes |
| Tools | 6 | Not listed |
| Full listing | View Uniprot MCP Server | View ChemCP |
Tools & capabilities
Uniprot MCP Server tools 6
uniprot_search_proteinsSearch UniProtKB by plain text or a Lucene field query, with the reviewed (Swiss-Prot) filter foregrounded and optional server-side facet counts. Cursor-paginated. The discovery entry point.uniprot_get_entryFetch full curated entries by accession in one batch (up to 20) — function, catalytic activity, disease, variants, isoforms, GO terms, cross-references. Partial-success output; an oversized record returns a section outline.uniprot_map_idsTranslate identifiers across databases via UniProt's async ID-mapping service — gene names, Ensembl, RefSeq, ChEMBL, PDB, GeneID ↔ UniProtKB accessions. Polls within a budget; running jobs return a ticket and completed pages return a continuation.uniprot_get_proteomeFetch a reference proteome by UPID or NCBI taxon ID — protein count, BUSCO completeness, genome assembly inline, plus an opt-in capped page of the proteins.uniprot_get_taxonomyResolve a taxonomy record by NCBI taxon ID or scientific name — name, rank, parent, full lineage, and optionally the immediate children, cursor-paginated.uniprot_get_sequenceFetch the canonical amino-acid sequence (FASTA) for an accession, with length and parsed header — and optionally the isoform sequences. The cheap sequence-only path.
ChemCP tools
No tool names declared yet. Check the project README from the listing page.
Ready-to-paste client configs
Paste either block (or both) into your client config, e.g. claude_desktop_config.json or ~/.cursor/mcp.json. We only show a config when the install command is confirmed.
Uniprot MCP Server
No confirmed install command for Uniprot MCP Server yet — follow the setup steps linked from its listing page rather than a guessed package name.
ChemCP
{
"mcpServers": {
"chemcp": {
"command": "npx",
"args": [
"-y",
"cloudflared"
]
}
}
}
Frequently asked questions
Uniprot MCP Server is categorized under Biology & Bioinformatics and uses an install path we have not confirmed yet. ChemCP belongs to Biology & Bioinformatics and uses a local stdio subprocess. Pick Uniprot MCP Server for biology & bioinformatics work and ChemCP for biology & bioinformatics.
Copy the mcpServers block from the config section on this page into your client's config (for example claude_desktop_config.json or ~/.cursor/mcp.json), then fully restart the client. Uniprot MCP Server has no confirmed install command yet — follow its own setup instructions.
Uniprot MCP Server is listed as free. Auth: no auth required. ChemCP has no declared pricing — check the project's own site. If a server needs environment variables such as API keys, define them under the env key in your client's MCP config.
Yes. MCP clients support multiple servers: add uniprot-mcp-server and chemcp as separate keys in the same mcpServers object, and your assistant will call tools from either one.
On AllMCPs, Uniprot MCP Server has a quality signal of 49/100 (Fair) with 2 views, 0 installs and 2 GitHub stars. ChemCP has 40/100 (Fair) with 2 views, 0 installs and 2 GitHub stars.