AlphaFold-predicted structures of IL-6 dimers

1. Pre-processed files 2. Processed files: CIF files from AF3 were converted to PDB format only C_alpha atoms were kept polyG linkers were deleted and chain IDs for the second part were renamed to "B" chain "A" was aligned to reference structure using the non-swapped amino acids the models were classified into "non-swapped", "swapped" and "other" # Approach Weights name Templates Dropout N_models (different weights) N_runs (different seeds) 1 AlphaFold 2.3.2 as a monomer with 50×Gly linker monomer_ptm Y N 5 5 2 monomer_ptm N N 5 5 3 ColabFold 1.5.5 as a monomer with 50×Gly linker alphafold2_ptm Y Y 5 5 4 alphafold2_ptm Y N 5 5 5 alphafold2_ptm N Y 5 5 6 alphafold2_ptm N N 5 5 7 AlphaFold 2.3.2 as a dimer multimer Y N 5 5 8 multimer N N 5 5 9 ColabFold 1.5.5 as a dimer alphafold2_multimer_v3 Y Y 5 5 10 alphafold2_multimer_v3 Y N 5 5 11 alphafold2_multimer_v3 N Y 5 5 12 alphafold2_multimer_v3 N N 5 5 13 AlphaFold3 as a monomer with 50×Gly linker Default (accessed on 24.06.2024) 5 20 14 AlphaFold3 as a dimer Default (accessed on 24.06.2024) 5 20 15 SPEACH_AF alphafold2_ptm N N 5 5