Fig. 5: Edited denoising for symmetric and repeat proteins.
From: Efficient protein structure generation with sparse denoising models
a, Schematic of the structure editing procedure for point-symmetric repeat protein design. b, Example generated point-symmetric repeat proteins for different subunit sizes (50 and 100 residues) and cyclic groups (C3, C4, C6 and C7). The idealized symmetric design is shown in grey, and the ESMFold prediction for each design is coloured by the residue index. scRMSD values are reported for each example structure. c, Schematic of the structure editing procedure for screw-symmetric repeat proteins. d, Example screw-symmetric designs (grey) for different angles (30°–180°) and radii (0 Å and 10 Å), with a fixed inter-subunit translation of 12 Å. An ESMFold-predicted structure (turquoise) is superimposed onto the designed repeat (left). Additionally, a structure of the design predicted by AlphaFold 3 (ref. 72) replicated three times (coloured by residue index) is shown together with the scRMSD of the design to that extended repeat protein. e, Design success rates for cyclic and screw-symmetric designs using VP and VE models with different symmetry groups, radii and rotation angles based on n = 20 generated backbones per condition.
