STRING Database is a remote MCP server that gives an AI agent 17 tools, among them string_all_interaction_partners, string_create_file, string_enrichment. It answers at https://mcp.string-db.org/ over streamable HTTP, and it listed its tools to an anonymous client, so no sign-in was needed for that. Our probes reached it 6 of 6 times since 12 September 2026; the last check, on 24 October 2026, succeeded.
Query STRING interactions, enrichment, annotations, homology, and PPI networks.
Description as the publisher wrote it.
| Tool | What it does |
|---|---|
string_all_interaction_partners | Retrieves all interaction partners for one or more proteins from STRING. This tool returns all known interactions between your query protein(s) and **any other proteins in the STRING database**. - Use this when asking **“What does TP53 inte Inputs: identifiers, species, required_score, network_type |
string_create_file | Creates a downloadable file for STRING-derived results. Use this tool when the user explicitly asks to download, save, export, or receive a file containing STRING data, tables, protein lists, enrichment results, networks, etc. When a respon Inputs: filename, content |
string_enrichment | This tool retrieves functional enrichment for a set of proteins using STRING. - If queried with a single protein, the tool expands the query to include the protein’s 10 most likely interactors; enrichment is performed on this set, not the o Inputs: proteins, species, expand_category |
string_enrichment_image_url | Retrieves the STRING enrichment figure image *URL* for a set of proteins. Inputs: identifiers, species, category, group_by_similarity, color_palette, number_of_terms_shown |
string_functional_annotation | This tool retrieves curated functional annotations for a set of proteins. Each input protein is mapped to known biological terms from ontologies, pathway databases, tissues, compartments and domains — such as Gene Ontology (GO), KEGG, and U Inputs: identifiers, species, detail_for_term |
string_help | Provides explanatory text for STRING features and limitations. Use this tool when the user question involves: - What is STRING is or how to use the tool (how_to_use_string, cytoscape) - functionality not available via MCP tools (e.g. GSEA, Inputs: topic |
string_homology | Retrieves pairwise protein similarity scores (Smith–Waterman bit scores) for the query proteins. - If no target species (`species_b`) is provided, results are intra-species (within the query species). - To retrieve homologs in other species Inputs: proteins, species, species_b |
string_interaction_evidence | Retrieves direct links to STRING evidence pages for protein–protein interaction pairs. Use this tool only when a STRING evidence page/link is needed. To determine whether an interaction is supported, use `string_interactions_query_set`. It Inputs: identifier_a, identifiers_b, species |
string_interactions_query_set | Retrieves the interactions between the query proteins. Use this method only when you specifically need to list the interactions between all proteins in your query set. If user asks for 'physical' or 'complex' use 'physical' network type. - Inputs: proteins, species, required_score, network_type, extend_network |
string_network_clustering | Performs **network clustering** on a STRING interaction network and returns both a **network image URL** and details about each detected cluster. Use the same parameters as in the network creation step to ensure consistency. If the network Inputs: proteins, species, extend_network, required_score, network_type, clustering_algorithm |
string_network_link | Retrieves a stable URL to an interactive STRING network for one or more proteins. - For a single protein: includes the protein and its top 10 most likely interactors. - For multiple proteins: includes all known interactions **within the que Inputs: proteins, species, extend_network, required_score, network_flavor, network_type |
string_ppi_enrichment | This tool tests if your network is enriched in protein-protein interactions compared to the background proteome-wide distribution (i.e., if your proteins are more functionally connected than expected by chance). - The enrichment is assessed Inputs: identifiers, species, required_score |
string_proteins_for_term | Retrieve proteins annotated with a functional term or descriptive text in a single species. You can query for tissues, compartments, diseases, processes, pathways, and domains. IMPORTANT: For cross-species comparisons, run this tool separat Inputs: term_text, species, detail_for_term |
string_query_species | Search for species or clades available in STRING by free-text query and return their NCBI taxonomy IDs. - Use this when the user asks which species or clades are present in STRING, or when you need the correct NCBI taxon ID to pass to other Inputs: species_text |
string_resolve_proteins | Maps one or more protein identifiers to their corresponding STRING metadata, including: gene symbol, description, sequence, domains, species, and internal STRING ID. This method is useful for translating raw identifiers into readable, annot Inputs: proteins, species, show_sequence |
string_sequence_search | Searches the STRING database using **amino acid sequences** to identify matching proteins. - Accepts a single sequence or multiple sequences in FASTA format. - Returns the most similar STRING protein(s) for the specified species, based on s Inputs: sequences, species |
string_visual_network | Retrieves a URL to a **STRING interaction network image** for one or more proteins. - For a single protein: includes the protein and its top 10 most likely interactors. - For multiple proteins: includes all known interactions **within the q Inputs: proteins, species, extend_network, required_score, network_type, network_flavor |
Every block below points at https://mcp.string-db.org/. Pick your client and copy.
claude mcp add --transport http string-database https://mcp.string-db.org/
{
"mcpServers": {
"string-database": {
"command": "npx",
"args": ["-y", "mcp-remote", "https://mcp.string-db.org/"]
}
}
}{
"mcpServers": {
"string-database": {
"url": "https://mcp.string-db.org/"
}
}
}{
"servers": {
"string-database": {
"type": "http",
"url": "https://mcp.string-db.org/"
}
}
}{
"context_servers": {
"string-database": {
"url": "https://mcp.string-db.org/"
}
}
}{
"mcpServers": {
"string-database": {
"serverUrl": "https://mcp.string-db.org/"
}
}
}{
"mcpServers": {
"string-database": {
"url": "https://mcp.string-db.org/"
}
}
}name: STRING Database
version: 0.0.1
schema: v1
mcpServers:
- name: STRING Database
type: streamable-http
url: https://mcp.string-db.org/{
"mcpServers": {
"string-database": {
"httpUrl": "https://mcp.string-db.org/"
}
}
}{
"mcpServers": {
"string-database": {
"type": "http",
"url": "https://mcp.string-db.org/"
}
}
}{
"mcpServers": {
"string-database": {
"url": "https://mcp.string-db.org/"
}
}
}goose://extension?url=https%3A%2F%2Fmcp.string-db.org%2F&type=streamable_http&id=string-database&name=STRING%20Database
It answered our last check on 24 October 2026 in 179 ms. Over 6 checks since 12 September 2026 it answered 6. Status here comes from Neuronto's own probes, not from the publisher.
Yes. It is published by string-db.org and served from mcp.string-db.org, the vendor's own domain: https://mcp.string-db.org/.
17, as returned by the server's own tools/list on 23 September 2026: string_all_interaction_partners, string_create_file, string_enrichment, string_enrichment_image_url, string_functional_annotation, string_help, string_homology, string_interaction_evidence, and 9 more.
It answered our last check on 24 October 2026 in 179 ms. Over 6 checks since 12 September 2026 it answered 6.
Put the server under mcpServers in ~/.cursor/mcp.json with the URL https://mcp.string-db.org/. The exact JSON is above, with the same setup for Claude Code, Claude Desktop, VS Code, Windsurf, Zed, Gemini CLI and the rest.
It listed its tools to an anonymous client, so reading the tool list needs no key. Individual tools can still ask for credentials in their own inputs.
Publisher: org.string-db. Endpoint host: mcp.string-db.org. ARD identifier: urn:air:org.string-db:mcp:string-mcp.
First indexed 10 September 2026. The tools are exactly what the server returned; nothing on this page
is inferred from its name. Ranking in Neuronto search is never for sale.