PDBe MCP Servers
未认领PDBe MCP Servers integrate Protein Data Bank Europe resources with LLMs via Model Context Protocol. Provides seamless access to protein structure data through API tools and graph database schema assistance for intelligent Cypher query generation, bridging structural biology and AI research.
01 / 选择客户端
03 / 添加配置
claude mcp add --transport stdio 'pdbe-mcp-servers' -- 'uvx' 'pdbe-mcp-server'04 / 在客户端中确认
打开客户端的 MCP 设置，确认服务器已连接并列出工具。复制配置不代表连接成功。
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浏览完整目录安全概况
已认领和已认证的服务器每周接受一次静态扫描，显示代码能触及的范围（外部服务、环境变量、shell 命令、代理配置目录）以及带有已知公告的依赖。认领此列表即可获得。 安全概况的工作原理
15 个工具中显示 15 个
文档中列出的工具 (15)
内容来自项目文档。服务器握手不会验证每个工具的说明或行为。
experimental_method
Structure determination method
get_pdbe_search_schema
Retrieves the complete Solr search schema showing all available fields, data types, and descriptions. Use this to understand what fields you can search and filter on.
ligand_name
Bound ligands
molecule_type
Type of molecule (protein, DNA, RNA, etc.)
organism_scientific_name
Source organism
pdb_id
PDB entry identifier
pdbe_graph_edges
Retrieves metadata about all relationship types (edges) defined in the PDBe graph database schema. This uses the public graph schema and does not require local Neo4j credentials.
pdbe_graph_example_queries
Retrieves example Cypher queries that demonstrate how to interact with the PDBe graph database. This uses the public graph schema and does not require local Neo4j credentials.
pdbe_graph_node_relationships
Verifies selected node labels and returns the incoming, outgoing, and self-loop relationship patterns defined for each label. This uses the public graph schema and does not require local Neo4j credentials.
pdbe_graph_nodes
Retrieves metadata about all node types (labels) defined in the PDBe graph database schema. This uses the public graph schema and does not require local Neo4j credentials.
pdbe_run_cypher_query
Execute custom read-only Cypher queries against your configured Neo4j graph database. This tool is only available when Neo4j environment variables are configured.
release_date
Structure release date
resolution
Structure resolution (Å)
run_pdbe_search_query
Execute Solr-style search queries with flexible field selection, filter queries, facets, grouping, sorting, and pagination options.
title
Structure title/description