What is the key difference between Mesh and Pdbe?

Mesh belongs to the Biology & Bioinformatics category with local stdio execution, while Pdbe belongs to the Biology & Bioinformatics category with local stdio execution.

How do I install Mesh or Pdbe in Claude Desktop or Cursor?

Copy the mcpServers JSON configuration snippet provided on this page into your claude_desktop_config.json or ~/.cursor/mcp.json file and restart your AI client.

Are Mesh and Pdbe free or paid?

Mesh operates under a Free / Open Source model (No auth required). Pdbe operates under a Free / Open Source model (No auth required).

Which MCP server has more tools and community activity?

Mesh lists 0 tools with 0 views and 0 GitHub stars. Pdbe lists 0 tools with 0 views and 0 GitHub stars.

Can I use both Mesh and Pdbe together in the same MCP host?

Yes! MCP hosts like Claude Desktop, Cursor, Windsurf, Cline, and VS Code support configuring multiple servers under the mcpServers object simultaneously.

Side-by-Side Model Context Protocol Comparison

Mesh vs Pdbe

In-depth architectural comparison of the Mesh and Pdbe MCP servers. Compare execution transports, security boundaries, tool capabilities, quality scores, and ready-to-paste client installation snippets for Claude, Cursor, Windsurf, and VS Code.

At a Glance & Executive Verdict

Mesh

Biology & Bioinformatics · Local stdio

Quality: 27/100 (Emerging) | Auth: No auth required

Pdbe

Biology & Bioinformatics · Local stdio

Quality: 28/100 (Emerging) | Auth: No auth required

Verdict Summary: Choose Mesh if you need specialized Biology & Bioinformatics tools running via a local process. Choose Pdbe if your workspace requires Biology & Bioinformatics integration with local subprocess execution. Both servers can be configured concurrently in your client's mcpServers manifest.

Which MCP Server Should You Choose?

Choose Mesh when:

You need dedicated capabilities in the Biology & Bioinformatics domain.
You prefer local stdio subprocess transport architecture.
Your security boundary fits: No auth required (Free / Open Source).

Explore Mesh Details

Choose Pdbe when:

You need dedicated capabilities in the Biology & Bioinformatics domain.
You prefer local stdio subprocess transport architecture.
Your security boundary fits: No auth required (Free / Open Source).

Explore Pdbe Details

Feature & Specification Comparison

Specification	Mesh Biology & Bioinformatics	Pdbe Biology & Bioinformatics
Summary	NLM MeSH (Medical Subject Headings) MCP.	PDBe (Protein Data Bank in Europe, EBI) MCP.
Category & Scope	Biology & Bioinformatics	Biology & Bioinformatics
Quality signal

Tools & Capabilities Breakdown

Mesh Tools (0)

No explicit tool names declared in metadata yet. Check project README on main listing page.

Pdbe Tools (0)

No explicit tool names declared in metadata yet. Check project README on main listing page.

Ready-to-Paste Client Configurations

Paste either (or both) of these JSON server blocks into your client config file (e.g. claude_desktop_config.json or ~/.cursor/mcp.json).

Mesh Configuration

mcpServers (Claude Desktop / Cursor)

{
  "mcpServers": {
    "mesh": {
      "command": "npx",
      "args": [
        "-y",
        "mesh"
      ]
    }
  }
}

Pdbe Configuration

mcpServers (Claude Desktop / Cursor)

{
  "mcpServers": {
    "pdbe": {
      "command": "npx",
      "args": [
        "-y",
        "pdbe"
      ]
    }
  }
}

Frequently Asked Questions

Mesh is categorized under Biology & Bioinformatics and uses a local stdio subprocess. In contrast, Pdbe belongs to Biology & Bioinformatics using local stdio subprocess. Select Mesh when you need capabilities focused on biology & bioinformatics and Pdbe when you require tools for biology & bioinformatics.

More alternatives to Mesh More alternatives to Pdbe Biology & Bioinformatics category hub