Peptide-based functional annotation of carbohydrate-active enzymes by conserved unique peptide patterns (CUPP)

Table 3 F-score of CUPP prediction in relation to dbCAN2 CAZy family annotation tools

Species of CAZomes	CUPP F-score		dbCAN2 tools F-score				Relevant Proteins in CAZome
Species of CAZomes	CUPP fast-filtering	CUPP full-filtering	Predicted by ≥ 2 tools	dbCAN-HMM	dbCAN-Hotpep	dbCAN-Diamond	Relevant Proteins in CAZome
Arabidopsis thaliana	99.39	98.76	99.23	97.70	97.71	96.52	980
Aspergillus nidulans FGSC A4	96.98	96.40	97.95	95.63	92.60	95.44	424
Saccharomyces cerevisiae S288c	98.58	98.58	99.80	98.58	99.80	97.33	91
Average of Eukaryote CAZomes	98.32	97.91	98.99	97.30	96.70	96.43
Caldicellulosiruptor bescii DSM 6725	98.61	94.80	96.59	96.59	89.68	89.02	94
Escherichia coli K-12 MG1655	98.38	97.27	97.27	95.56	97.02	94.38	119
Hungateiclostridium thermocellum ATCC 27405	97.19	94.73	96.75	98.72	87.11	74.74	125
Average of bacterial CAZomes	98.06	95.60	96.87	96.96	91.27	86.05
Average of CAZomes	98.19	96.76	97.93	97.13	93.99	91.24
Complete runtime for the CAZomes [s]	34.33	54.23	255.23	128.61	91.25	35.37

ISSN: 2731-3654