OpenDDE
Predict and inspect a biomolecular complex.
Results
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Method & evidence
Predict an all-atom complex, then inspect the structure, confidence, entity conservation, and geometry checks together.
Scope & limitations
- The upstream OpenDDE project is labeled preview; interpret predictions accordingly.
- Templates, external MSA search, and alternate inference settings are not supported in this analysis.
- One Run accepts up to four complexes, keeps one model process loaded, and predicts them sequentially; larger complexes may take many minutes.
Interpreting results
- pLDDT summarizes local model confidence; pTM summarizes global fold confidence; interface pTM is useful only for multichain interfaces.
- Confidence scores are model evidence, not a probability that an interaction occurs or an affinity estimate.
- Inspect low-confidence loops, interfaces, clashes, and geometry alongside experimental or orthogonal structural evidence.
References
Input requirements & outputs
Input checks
- One to four ordered complexes and at most eight entities per complex
- At most 512 total polymer residues/bases including copies per complex
- Explicit one-based entity, copy, residue, modification, and covalent-bond references
Expected results
- Interactive all-atom structure — Inspect the predicted mmCIF structure directly in the shared Mol* viewer.
- Confidence summary — Review pLDDT, pTM, interface pTM, predicted distance error, clashes, and chain metrics.
- Structure validation — Confirm entity sequence conservation, finite coordinates, atom/residue counts, and backbone geometry.
