Skip to main content
Glama
PDBeurope

PDBe MCP Servers

Official
by PDBeurope
OverviewSchemaSourceRelated ServersDiscussionsAdmin
Python
Remote

Related Servers

Alternatives to PDBe MCP Servers

No user-submitted related servers found.

    Related Servers

    • Protein MCP Server

      gqy20
      A
      license
      B
      quality
      D
      maintenance
      Enables searching, retrieving, and downloading protein structure data from the RCSB Protein Data Bank. Supports intelligent protein structure search, comprehensive data retrieval, and multiple file format downloads for bioinformatics research.
      3
      MIT

    • Structural Biology MCP Server

      sanatava
      F
      license
      Not graded
      quality
      Not graded
      maintenance
      Enables interaction with the RCSB Protein Data Bank to search, analyze, and visualize protein structures. It provides specialized tools for downloading coordinate files and performing structural modifications like residue mutations and metal atom replacements.
      -

    • mcp-alphafold

      zeinab-sheikhi
      F
      license
      B
      quality
      D
      maintenance
      Provides programmatic access to AlphaFold protein structure predictions and UniProt data, enabling users to retrieve protein structures, summaries, and annotations through natural language.
      3
      -

    • mcp-alphafold

      pipeworx-io
      A
      license
      Not graded
      quality
      B
      maintenance
      Provides access to AlphaFold predicted protein 3D structures from EBI, enabling retrieval of prediction metadata, summaries, annotations, and UniProt data.
      148 npm
      MIT
    Deploy Server
    One endpoint for every MCP toolRayrun runs every MCP server behind one URL and holds the credentials. Each call is decided per client, tool, and argument, then recorded.ray.runAd

    TDQS

    B3.4/5.0

    Scored across 33 tools

    Disambiguation4/5

    Tools have distinct purposes as described, but the large number (33) and similar naming patterns for related functions (e.g., multiple 'get_uniprot_*' tools) could cause confusion for an agent without careful reading. Most are clearly differentiated.

    Naming Consistency2/5

    All tool names start with 'get_', but the rest is inconsistent and includes full API endpoint paths (e.g., 'get_entry_chain_sequence_api_pdb_sequence__pdb_id___chain_id'). No standard verb_noun pattern; naming is messy and overly long.

    Tool Count2/5

    33 tools is high, exceeding the 25+ threshold for being excessive. While the domain is complex, many tools cover narrow sub-functionalities (e.g., two similar best-structure tools), suggesting the set could be consolidated.

    Completeness4/5

    The tool set covers a broad range of PDBe functionality: sequences, ligands, complexes, validation, UniProt mappings, annotations, and variations. Minor gaps exist (e.g., no general search tool), but the core workflows are well-supported.

    Maintenance

    ActivitySlowing
    ResponsivenessWithin a week

    Resources