Property prediction

AggreScan3D

Map aggregation-prone patches onto a protein structure and score them.

Runs the AggreScan3D standalone package, which projects intrinsic aggregation propensities onto a structure and weights them by solvent exposure, giving a per-residue score and a total for the protein. The dynamic mode reruns the analysis over a CABS-flex ensemble instead of the single deposited conformation.

Documentation ↗ Home page ↗ Source code ↗

Input

Configure a small job

POST

Job name

Protein PDB

Chain (optional) Restrict the analysis to one chain. Empty analyses the whole structure.

Aggregation sphere radius (angstroms) Residues within this radius of each alpha carbon contribute to its score.

Score over a CABS-flex ensemble Much slower, but accounts for flexibility instead of scoring one conformation.

Mutations to score (optional) One per line, as wild-type residue, mutant residue, position, and chain, for example MW1A. Needs FoldX.

Solubility mutations to suggest Ask A3D to propose this many stability-aware solubility mutations. 0 skips the search. Needs FoldX.

Ready

Endpoint POST /api/aggrescan3d/

Send JSON or standard form data. A GET request returns this tool's field schema.

API reference for AggreScan3D →

Response

JSON result

{
  "status": "Ready for a request"
}