Bio Mega Server

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GPU backend: Boltz-2 submits through the Slurm/Singularity runner adapter. Other tools stay visible until their adapters are configured.

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Protein Protein Docking

PRODIGY

secondsPaperCodeProduction Ready

Protein-protein binding affinity prediction

Details Paper Code

Job Name

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EXAMPLES

Protein File *

Readiness

Readiness: Production Ready
Smoke: passed
Artifacts: passed
Production: production_pass
Storage: <5
Strategy: validated; shared CPU PRODIGY venv using upstream prodigy-prot
Next: Expose PDB/mmCIF upload, chain selection, contact list toggle, and temperature controls.

PRODIGY 2.4.0 installed in shared /home/nik/bio_server_venvs/prodigy venv. Official 3BZD benchmark matched documented output: 51 contacts, -9.4 kcal/mol, Kd 1.3e-07 M. Slurm job 237 completed with 9 artifacts.

ColabDock

Protein-protein docking using inverted AlphaFold

Protein Protein Docking

EquiDock

Rigid body protein-protein docking

Protein Protein Docking

GeoDock

Deep learning protein-protein docking with SE(3) equivariance

Protein Protein Docking

AF2Dock

AlphaFold2-derived diffusion model for protein-protein docking. Upload receptor and ligand structures; outputs docked PDBs and ipTM scores per sample.

Protein Protein Docking

Binding ddG

Binding ddG prediction of protein complexes

Protein Protein Docking