SPIN-CGNN: Improved fixed backbone protein design with contact map-based graph construction and contact graph neural network
Table 5
Comparison of sequences designed by SPIN-CGNN, RosettaFixBB, OSCAR-design, ProteinMPNN, and PiFold on CATH4.2-StructNR193 and PDB-StructNR156 test sets according to perplexity, median sequence recovery, median relative deviation of the frequency of amino-acid residue types, the median relative BLOSUM score, the fraction of low complexity regions, conservation of hydrophobic and hydrophilic sequence positions, the mean steric clash count of refolded structures, and the difference between refolded and target structures in term of RMSD, GDT-TS and TM-score.