Table 2. Sequence recovery rates in Rosetta combinatorial sequence optimisation.

	Sequence recovery1			Homology recovery2
	buried	exposed	all	buried	exposed	all
ref2015_memb	0.52	0.32	0.42	0.86	0.81	0.83
ref2015	0.53	0.33	0.43	0.85	0.71	0.78
RosettaMP	0.23	0.20	0.21	0.64	0.70	0.67

¹ Only exact matches to the natural protein sequence are counted as recovered

² For each target protein, a position-specific scoring matrix (PSSM) was computed from a multiple-sequence alignment. At each position, recovery was considered if the amino acid identity had a PSSM score ≥ 0.