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MCP servers tagged protein-engineering
25 live MCP servers tagged "protein-engineering", ranked by trust score. Tags come from package metadata and repository topics, so this list covers servers across every category that work with protein-engineering.
Blatant Why
AI-powered biologics design campaign agent — multi-agent orchestration with BoltzGen, PXDesign, Protenix, and 200+ cloud tools. Antibodies, nanobodies, de novo binders, and beyond.
Mutcompute MCP
MutCompute MCP server for protein mutation effect prediction
Boltzgen MCP
BoltzGen MCP server for protein binder design
Bindcraft MCP
BindCraft MCP server for de novo protein binder design
Boltz MCP
Boltz2 MCP server for protein structure and affinity prediction
Netmhc2pan MCP
NetMHCIIpan MCP server for MHC Class II binding prediction
Prottrans MCP
ProtTrans MCP server for protein embeddings and fitness modeling
Alphafold3 MCP
AlphaFold3 MCP server for protein structure prediction, supporting batch prediction
Proteinmpnn MCP
ProteinMPNN MCP server for protein sequence design (inverse folding)
Ev Onehot MCP
EV+Onehot MCP server for protein fitness prediction combining evolutionary coupling and one-hot encoding
Rfdiffusion2 MCP
RFdiffusion2 MCP server for protein structure generation (backbone)
Gromacs MCP
GROMACS MCP server for molecular dynamics simulations
Spired Stab MCP
SPIRED-Stab MCP server for protein stability prediction
Ligandmpnn MCP
LigandMPNN MCP server for ligand-aware scaffold-based sequence generation (inverse folding)
Msa MCP
MSA MCP server for generating multiple sequence alignments using ColabFold
Protein Sol MCP
Protein-Sol MCP server for protein solubility prediction
Mmseqs2 MCP
MMseqs2 MCP server for sequence search, clustering, and MSA generation
Plmc MCP
PLMC MCP server for evolutionary coupling analysis for protein fitness prediction
Interpro MCP
InterProScan MCP server for protein domain and functional analysis
Esm MCP
ESM MCP server for protein embedding and fitness modeling
Netmhcpan MCP
NetMHCpan MCP server for MHC Class I binding prediction
Alphafold2 MCP
AlphaFold2 MCP server for protein structure prediction, supporting complex and batch predictions
Esmfold MCP
ESMFold MCP server for protein structure prediction
Chai1 MCP
Chai-1 MCP server for protein structure prediction
Rosetta MCP
Rosetta MCP server for molecular modeling and protein design