Automated Alphabet Reduction for Protein Datasets

BMC Bioinformatics

Table 8 Reduced alphabets compared to the DualRMI strategy.

Name	Description	#letters	Reference
WW5	AHT/CFILMVWY/DE/GP/KNQRS/X	6	[9]
SR5	AEHKQRST/CFILMVWY/DN/G/P/X	6	[6]
MU4	AGPST/CILMV/DEHKNQR/FYW/X	5	[46]
MM5	AG/C/DEKNPQRST/FILMVWY/H/X	6	[16]
HD1	AV/CGNP/D/EKRQ/FWYH/ILM/ST/X	8	This work
HD2	AV/CGNP/D/EKR/Q/FWY/H/ILM/ST/X	10	This work
HD3	AV/C/GNP/D/EKR/Q/FWY/H/IL/M/ST/X	12	This work

These alphabets have been extended with a letter corresponding to the end of chain symbol. HD n = Human Designed alphabet n.

ISSN: 1471-2105