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Aggregates structural, chemical, and literature data to evaluate druggable protein binding pockets for drug discovery.
Do not connect
A critical issue was found. Do not connect this server as-is.
Scanned 28 days ago Due for re-check
A server can change after it's graded. Re-run the automated scan to refresh this report.
This grade is deterministic and reproducible: the same server surface always yields the same grade under a given algorithm version. It is a real automated assessment computed by the MCPGrade engine from what the probe actually observed — not a fabricated or opinion score. It is not a manual human pentest, so it can miss context-specific risks.
Every signal below was measured directly by the automated probe. The grade is derived only from evidence like this — nothing is assumed.
The PocketScout MCP server exposes 8 tools, focused primarily on general-purpose capabilities. Its published description reads: "Aggregates structural, chemical, and literature data to evaluate druggable protein binding pockets for drug discovery". It communicates over Streamable HTTP using the 2025-06-18 protocol revision, and does not require authorization to connect. MCPGrade currently rates PocketScout F — a critical issue was found and the server should not be connected as-is. Its most notable findings include "Hidden instructions in a tool description" and "Cross-tool shadowing". This report is a deterministic, reproducible automated assessment: the same observed surface always yields the same grade under a given algorithm version, and it is refreshed as new scans arrive and free to read — but it is not a substitute for a manual human security review. Always re-check PocketScout's advertised tools, transport security, and authorization posture before connecting an autonomous agent or sharing sensitive context with it.
Add PocketScout to an MCP client using the endpoint below. Review the grade and findings above before granting an autonomous agent access.
MCP endpoint
https://pocketscout-mcp.up.railway.app/mcpStreamable HTTP transport. This is the MCP endpoint, not a website — paste it into your MCP client server list rather than a browser.
Captured passively during the read-only scan. Click any value to find servers that match it.
The tools this server advertises via tools/list — names, purposes, and the parameters each accepts, exactly as enumerated read-only.
Establish biological context for a drug target protein. Retrieves protein function, family classification, subcellular location, disease associations, and AlphaFold structure confidence. This should b
Find all PDB structures for a target protein. Returns all available experimental structures, sorted by resolution. Use this to understand structural coverage: how many structures exist, what ligands h
Sorted worst-first. Each finding shows its severity, what it means, its OWASP MCP Top-10 mapping, and a recommended fix — the check id links to the exact methodology row that produced it.
tool: CharacterizeTarget
A tool description contains imperative text aimed at the model (e.g. "ignore previous", "before answering read …").
this context. IMPORTANT: AlphaFold confidence flags regions where predicRecommendationRemove model-directed instructions from tool descriptions.
tool: GetRelatedStructures
A tool description tries to alter the model’s use of another tool.
Call this AFTER CharacterizeTarget and BEFORE GetBindingSites to identify which stRecommendationDescriptions must describe only their own tool.
tool: GetBindingSites
A tool description tries to alter the model’s use of another tool.
s identified by GetRelatedStructures. For comprehensive analysis, call on multiple sRecommendationDescriptions must describe only their own tool.
tool: CheckConservation
A tool description tries to alter the model’s use of another tool.
positions from GetBindingSites.RecommendationDescriptions must describe only their own tool.
tool: CheckKnownVariants
A tool description tries to alter the model’s use of another tool.
positions from GetBindingSites.RecommendationDescriptions must describe only their own tool.
tool: SearchTargetLiterature
A tool exposes a free-text/webhook/feedback parameter with no honest purpose — a classic exfil channel.
parameter "context"RecommendationRemove side-channel parameters; constrain tool inputs.
tool: SearchTargetLiterature
A tool description tries to alter the model’s use of another tool.
is LAST — after CharacterizeTarget, GetRelatedStructures, GetBindingSites, GetLigaRecommendationDescriptions must describe only their own tool.
tool: ConsolidateBindingSites
A tool description tries to alter the model’s use of another tool.
rget. Fans out GetBindingSites over the top structures and clusters pockets byRecommendationDescriptions must describe only their own tool.
The server accepts tool enumeration (and likely invocation) with no authentication.
RecommendationRequire OAuth 2.1 authorization for any server exposing non-public tools.
tool: CharacterizeTarget
The server advertises open-world / broadly-scoped capabilities.
annotations.openWorldHint = trueRecommendationScope tools to the minimum needed.
tool: GetRelatedStructures
The server advertises open-world / broadly-scoped capabilities.
annotations.openWorldHint = trueRecommendationScope tools to the minimum needed.
tool: GetBindingSites
The server advertises open-world / broadly-scoped capabilities.
annotations.openWorldHint = trueRecommendationScope tools to the minimum needed.
tool: GetLigandHistory
The server advertises open-world / broadly-scoped capabilities.
annotations.openWorldHint = trueRecommendationScope tools to the minimum needed.
tool: CheckConservation
The server advertises open-world / broadly-scoped capabilities.
annotations.openWorldHint = trueRecommendationScope tools to the minimum needed.
tool: CheckKnownVariants
The server advertises open-world / broadly-scoped capabilities.
annotations.openWorldHint = trueRecommendationScope tools to the minimum needed.
tool: SearchTargetLiterature
The server advertises open-world / broadly-scoped capabilities.
annotations.openWorldHint = trueRecommendationScope tools to the minimum needed.
tool: ConsolidateBindingSites
The server advertises open-world / broadly-scoped capabilities.
annotations.openWorldHint = trueRecommendationScope tools to the minimum needed.
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Map all known binding sites in a protein structure from co-crystallized ligands. Identifies binding pockets by analyzing non-polymer entities (ligands, cofactors) in the structure, filtering out cryst
Retrieve the bioactivity landscape for a drug target from ChEMBL. Shows what compounds have been tested, how potent the best ones are, whether any have reached clinical trials, and how crowded the com
Check conservation at binding site residues across mouse, rat, and cynomolgus. Critical for preclinical translatability: if key binding site residues differ between human and a preclinical model, that
Flag known sequence variants and mutagenesis hits at binding-site residues. Binding-site residues that are documented disease/resistance variants (e.g. EGFR T790M) mark pockets that mutate under drug
Search PubMed for recent structural biology and drug design papers. Focuses specifically on binding site characterization, allosteric mechanisms, resistance mutations, and prior design campaigns — the
Map the union of binding pockets across all structures of a target. Fans out GetBindingSites over the top structures and clusters pockets by residue overlap, so recurrent pockets (e.g. the ATP site ap