{"id":"pdbe-mcp-server","name":"pdbe-mcp-server","homepage":"https://pypi.org/project/pdbe-mcp-server/","repo_url":null,"category":"ai-ml","subcategories":[],"tags":["mcp","pdbe","protein-structure","bioinformatics","agent-tools","data-retrieval"],"what_it_does":"Provides an MCP (Model Context Protocol) server for working with PDBe (Protein Data Bank in Europe) related resources, exposing PDBe functionality to MCP-capable agents/tools.","use_cases":["Letting AI agents query PDBe/structural biology data via MCP tools","Automating retrieval of PDB-related metadata for research assistants","Building RAG/workflows that need structured access to PDBe information"],"not_for":["Direct production API usage without MCP support","Use cases requiring strict enterprise auth/compliance guarantees without verifying implementation","Workflows that depend on pagination/search semantics without confirmed tool schemas"],"best_when":"You want an agent-friendly MCP integration to browse and retrieve PDBe-related information as structured tool calls.","avoid_when":"You need fully specified REST/OpenAPI contracts, guaranteed auth/rate-limit semantics, or you cannot inspect the server implementation for safety/error handling.","alternatives":["Custom scripts calling PDBe REST APIs directly","Generic web search + extraction pipelines (less structured, less reliable)","Other MCP servers in the ecosystem that already wrap common bioinformatics endpoints"],"af_score":42.5,"security_score":37.5,"reliability_score":20.0,"package_type":"mcp_server","discovery_source":["pypi"],"priority":"low","status":"evaluated","version_evaluated":null,"last_evaluated":"2026-04-04T21:49:05.598523+00:00","interface":{"has_rest_api":false,"has_graphql":false,"has_grpc":false,"has_mcp_server":true,"mcp_server_url":null,"has_sdk":false,"sdk_languages":[],"openapi_spec_url":null,"webhooks":false},"auth":{"methods":[],"oauth":false,"scopes":false,"notes":"No authentication details were provided in the supplied content, so this is treated as unknown for evaluation scoring."},"pricing":{"model":null,"free_tier_exists":false,"free_tier_limits":null,"paid_tiers":[],"requires_credit_card":false,"estimated_workload_costs":null,"notes":"No pricing information was provided."},"requirements":{"requires_signup":false,"requires_credit_card":false,"domain_verification":false,"data_residency":[],"compliance":[],"min_contract":null},"agent_readiness":{"af_score":42.5,"security_score":37.5,"reliability_score":20.0,"mcp_server_quality":55.0,"documentation_accuracy":40.0,"error_message_quality":0.0,"error_message_notes":null,"auth_complexity":50.0,"rate_limit_clarity":20.0,"tls_enforcement":50.0,"auth_strength":30.0,"scope_granularity":20.0,"dependency_hygiene":40.0,"secret_handling":50.0,"security_notes":"No repository/implementation details were provided (e.g., TLS termination, auth, secret management, dependency CVEs). Scores reflect uncertainty rather than confirmed safety properties.","uptime_documented":0.0,"version_stability":30.0,"breaking_changes_history":20.0,"error_recovery":30.0,"idempotency_support":"false","idempotency_notes":"MCP tool idempotency depends on the specific tool implementations; not enough information was provided.","pagination_style":"none","retry_guidance_documented":false,"known_agent_gotchas":["Tool parameter schemas and response formats may differ from what agents expect unless tool definitions are reviewed.","Without documented rate limits and error codes, agents may retry too aggressively or mishandle partial failures."]}}