Cortexa research tool·structure·proteinsplus

ProteinsPlus Predict Binding Sites

Predict druggable binding sites and pockets in protein structures using DoGSiteScorer algorithm. Input can be a PDB ID (e.g., '1A2B') or uploaded PDB file content. Returns predicted binding pockets with druggability scores, volume, surface area, and residue composition. Essential for identifying potential drug binding sites before docking or screening. Complements crystal structure data by identifying potential cryptic pockets and ranking sites by druggability.

SlowCortexa

Status

Succeeds, but routinely takes more than 8 seconds. Hidden from the agent's default toolset; available via opt-in.

Note: Upstream throttles to ~5 req/min; not exposed to anonymous Try-It.

Last probed: never
Last success: never
Last latency: —

Schema

JSON Schema the agent (or your API call) must match.

{
  "properties": {
    "chain": {
      "description": "Specific chain to analyze (e.g., 'A'). Optional - if not provided, all chains analyzed.",
      "type": "string"
    },
    "pdb_content": {
      "description": "Raw PDB file content as string (multi-line text starting with 'HEADER'). Use either pdb_id or pdb_content, not both. Example: Upload custom structures not in PDB.",
      "type": "string"
    },
    "pdb_id": {
      "description": "PDB identifier (e.g., '1A2B', '4HHB'). Use either pdb_id or pdb_content, not both.",
      "type": "string"
    }
  },
  "required": [],
  "type": "object"
}

Examples (1)

Default ProteinsPlus Predict Binding Sites call

input

{
  "pdb_id": "1AKI"
}

Expected response keys: success

Identifiers

Catalog ID: tu_ProteinsPlus_predict_binding_sites
Tool name: ProteinsPlus_predict_binding_sites
Added: 2026-04-30 22:47Z
Tags: tooluniverse, slow

ProteinsPlus Predict Binding Sites

SlowCortexa

Schema

JSON Schema the agent (or your API call) must match.

{ "properties": { "chain": { "description": "Specific chain to analyze (e.g., 'A'). Optional - if not provided, all chains analyzed.", "type": "string" }, "pdb_content": { "description": "Raw PDB file content as string (multi-line text starting with 'HEADER'). Use either pdb_id or pdb_content, not both. Example: Upload custom structures not in PDB.", "type": "string" }, "pdb_id": { "description": "PDB identifier (e.g., '1A2B', '4HHB'). Use either pdb_id or pdb_content, not both.", "type": "string" } }, "required": [], "type": "object" }