Education
Single-point 1:1 Kd estimate: Kd = [P] × (1−f)/f from a direct fraction or anisotropy-derived fraction, plus ΔG° = RT·ln(Kd) and affinity bands from very tight (<1 nM) to weak (>1 µM). Cantor & Schimmel / Heyduk & Lee / Lakowicz derived. Educational use only.
Call this tool from your code in three languages.
curl -X POST 'http://127.0.0.1:3003/en/api/tools/protein-dna-binding-affinity' \
-H 'Content-Type: application/json' \
-d '{"mode":"fraction","proteinConcNm":50,"fractionBound":0.5,"anisotropy":0.18,"anisotropyFree":0.12,"anisotropyBound":0.25,"temperatureC":25,"decimalPlaces":2}'Send a POST request with your inputs as JSON. File parameters require a separate upload first.
POST http://127.0.0.1:3003/en/api/tools/protein-dna-binding-affinity| Name | Type | Required | Description |
|---|---|---|---|
| mode | select | Yes | Enter the bound fraction directly, or derive it from anisotropy values. |
| proteinConcNm | number | Yes | Total protein concentration in the binding reaction (kept well above the labeled DNA). |
| fractionBound | number | Yes | Fraction of labeled DNA in complex (fraction mode; strictly between 0 and 1). |
| anisotropy | number | Yes | Anisotropy of the sample (anisotropy mode). |
| anisotropyFree | number |
Add this tool to your Model Context Protocol server so AI agents can list and call it.
Add this block to your MCP client configuration:
{
"mcpServers": {
"elysiatools-protein-dna-binding-affinity": {
"name": "protein-dna-binding-affinity",
"description": "Single-point 1:1 Kd estimate: Kd = [P] × (1−f)/f from a direct fraction or anisotropy-derived fraction, plus ΔG° = RT·ln(Kd) and affinity bands from very tight (<1 nM) to weak (>1 µM). Cantor & Schimmel / Heyduk & Lee / Lakowicz derived. Educational use only.",
"baseUrl": "http://127.0.0.1:3003/mcp/sse?toolId=protein-dna-binding-affinity",
"command": "",
"args": [],
"env": {},
"isActive": true,
"type": "sse"
}
}
}After connecting to the SSE endpoint, list the exposed tools:
{
"jsonrpc": "2.0",
"id": 1,
"method": "tools/list"
}Invoke the tool by its id, passing arguments built from its parameters:
{
"jsonrpc": "2.0",
"id": 2,
"method": "tools/call",
"params": {
"name": "protein-dna-binding-affinity",
"arguments": {
"mode": "fraction",
"proteinConcNm": 50,
"fractionBound": 0.5,
"anisotropy": 0.18,
"anisotropyFree": 0.12,
"anisotropyBound": 0.25,
"temperatureC": 25,
"decimalPlaces": 2
}
}
}| Yes |
| Anisotropy of the unbound labeled DNA alone. |
| anisotropyBound | number | Yes | Anisotropy of the fully bound complex (protein-saturated). |
| temperatureC | number | Yes | Incubation temperature, used for ΔG° = RT·ln(Kd). |
| decimalPlaces | number | No | — |
JSON result
{
"key": {...},
"metadata": {
"key": "value"
},
"error": "Error message (optional)",
"message": "Notification message (optional)"
}Questions or issues? Contact [email protected]