Sabdab Tools

Configuration File: sabdab_tools.json Tool Type: Local Tools Count: 3

This page contains all tools defined in the sabdab_tools.json configuration file.

Available Tools

SAbDab_get_structure (Type: SAbDabTool)

Get antibody structure details from SAbDab by PDB ID. Returns CDR annotations, chain information,…

SAbDab_get_structure tool specification

Tool Information:

  • Name: SAbDab_get_structure

  • Type: SAbDabTool

  • Description: Get antibody structure details from SAbDab by PDB ID. Returns CDR annotations, chain information, and antigen binding data. Useful for structural analysis of antibody-antigen complexes.

Parameters:

  • operation (string) (required) No description

  • pdb_id (string) (required) 4-character PDB ID (e.g., 1IGT, 6W41)

Example Usage:

query = {
    "name": "SAbDab_get_structure",
    "arguments": {
        "operation": "example_value",
        "pdb_id": "example_value"
    }
}
result = tu.run(query)

SAbDab_get_summary (Type: SAbDabTool)

Get SAbDab database summary and statistics. Returns information about database content, features,…

SAbDab_get_summary tool specification

Tool Information:

  • Name: SAbDab_get_summary

  • Type: SAbDabTool

  • Description: Get SAbDab database summary and statistics. Returns information about database content, features, and access URLs. Good starting point for exploring antibody structural data.

Parameters:

  • operation (string) (required) No description

Example Usage:

query = {
    "name": "SAbDab_get_summary",
    "arguments": {
        "operation": "example_value"
    }
}
result = tu.run(query)

SAbDab_search_structures (Type: SAbDabTool)

Search SAbDab structural antibody database. SAbDab contains all antibody structures from PDB with…

SAbDab_search_structures tool specification

Tool Information:

  • Name: SAbDab_search_structures

  • Type: SAbDabTool

  • Description: Search SAbDab structural antibody database. SAbDab contains all antibody structures from PDB with CDR annotations, chain pairings, and antigen information. Search by antigen, species, or keywords. No authentication required.

Parameters:

  • operation (string) (required) No description

  • query (string) (required) Search query - antigen name, species, or keywords

  • limit (integer) (optional) Maximum results (default: 50)

Example Usage:

query = {
    "name": "SAbDab_search_structures",
    "arguments": {
        "operation": "example_value",
        "query": "example_value"
    }
}
result = tu.run(query)