FOLDIFY

Input Form

Guided step-by-step configuration

Use JSON instead?

1
Basic Information

Job Name *

E-mail

Model Seeds *

2
Sequences and Ligands

Entity 1

•Protein

Type *

IDs *

Sequence *

Protein sequence (no FASTA header). Copy IDs must be unique.

Model Configuration

MSA and Templates

Use precomputed MSA

Faster computation against public MMseqs2 server (unofficial).

Use precomputed templates

Enhanced structure prediction quality

Advanced Parameters

Bonded Atom Pairs

Bond Pair 1

•Covalent Bond

1First Atom

Entity ID *

Residue #

Atom Name

bond

2Second Atom

Entity ID *

Residue #

Atom Name

Entity IDs must match those defined in your sequences above. Define covalent bonds between atoms. Example: Chain A residue 145 atom SG bonded to ligand L residue 1 atom C04.

Custom Component Dictionary

Upload custom ligand definitions for specialized molecular components not available in the standard CCD database.

CCD File

Requirements

Reference custom components in your sequences section with matching data_… IDs from your CIF file.

Resources

Download example Format guidelines

Force Computation

Force re-computation even if results exist

Make Results Public

Allow others to view your results

Large Input

Process large molecular complexes

You will receive an email notification when your job completes

* Required fields.