get_protein_interactions
Retrieve protein-protein interaction networks for a UniProt accession number to analyze molecular relationships and biological pathways.
Instructions
Protein-protein interaction networks
Input Schema
TableJSON Schema
| Name | Required | Description | Default |
|---|---|---|---|
| accession | Yes | UniProt accession number |
Implementation Reference
- src/index.ts:1401-1439 (handler)The handler function for the 'get_protein_interactions' tool. Fetches detailed protein information from the UniProt API and extracts relevant interaction data including cross-references to STRING and IntAct databases, as well as INTERACTION and SUBUNIT comments.
private async handleGetProteinInteractions(args: any) { if (!isValidProteinInfoArgs(args)) { throw new McpError(ErrorCode.InvalidParams, 'Invalid protein interactions arguments'); } try { const response = await this.apiClient.get(`/uniprotkb/${args.accession}`, { params: { format: 'json' }, }); const protein = response.data; const interactionInfo = { accession: protein.primaryAccession, stringReferences: protein.uniProtKBCrossReferences?.filter((ref: any) => ref.database === 'STRING') || [], intactReferences: protein.uniProtKBCrossReferences?.filter((ref: any) => ref.database === 'IntAct') || [], interactionComments: protein.comments?.filter((c: any) => c.commentType === 'INTERACTION') || [], subunitComments: protein.comments?.filter((c: any) => c.commentType === 'SUBUNIT') || [], }; return { content: [ { type: 'text', text: JSON.stringify(interactionInfo, null, 2), }, ], }; } catch (error) { return { content: [ { type: 'text', text: `Error fetching protein interactions: ${error instanceof Error ? error.message : 'Unknown error'}`, }, ], isError: true, }; } } - src/index.ts:570-579 (registration)Registration of the 'get_protein_interactions' tool in the listTools response, including name, description, and input schema definition.
name: 'get_protein_interactions', description: 'Protein-protein interaction networks', inputSchema: { type: 'object', properties: { accession: { type: 'string', description: 'UniProt accession number' }, }, required: ['accession'], }, }, - src/index.ts:759-760 (registration)Registration of the tool handler in the CallToolRequestSchema switch statement, mapping the tool name to its handler method.
case 'get_protein_interactions': return this.handleGetProteinInteractions(args); - src/index.ts:79-89 (schema)Input validation function used by the handler to validate arguments, effectively serving as schema enforcement for the tool's input.
const isValidProteinInfoArgs = ( args: any ): args is { accession: string; format?: string } => { return ( typeof args === 'object' && args !== null && typeof args.accession === 'string' && args.accession.length > 0 && (args.format === undefined || ['json', 'tsv', 'fasta', 'xml'].includes(args.format)) ); };