Use RoseTTAFold All-Atom

Protein Folding

Overview

RoseTTAFold All-Atom is a highly accurate neural network made by The Baker Lab and is substantially faster than competing models. RoseTTAFold All-Atom predicts a variety of protein complexes with high accuracy.

Features

  • Predict DNA - protein complexes, protein - protein complexes, and protein - small molecule complexes.
  • Quick performance relative to competing models.
  • Includes readouts and figures of pLLDT, PAE, and easy to digest structure confidence metrics.
View Paper

Configuration & Options

Model Inputs

Amino acid sequences of the chains you want to predict in FASTA format. Note that each sequence must have a unique alphanumeric name. Warning: We query a 3rd party service to perform sequence searches, if you do not wish to share your sequence please upload a Custom MSA instead.

Nucleotide sequence of the DNA / RNA ligand you want to predict in FASTA format. Do not include the complementary sequence, they are automatically generated. If you are not predicting a nucleotide - protein complex you must leave this blank.

Input small molecules in the SDF format. To use multiple small molecules, put them all a zip file and upload the zip file. Small molecules can include metal ions, ligands, etc, but not nucleotides.

Optionally provide a custom MSA in a3m format for RoseTTAFold All-Atom to use during the prediction. Warning: We query a 3rd party service to perform sequence searches, if you do not wish to share your sequence than you must upload an MSA here.

Hallucination Warnings

RoseTTAFold All-Atom has shown to occasionally generate structures with disconnected DNA bases and residues. While this is uncommon, be aware that it is likely not an error with your input, but rather RoseTTAFold All-Atom itself.

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