Bioinformatic characterisation of genes encoding cell wall degrading enzymes in the Phytophthora parasitica genome

Table 3 P. parasitica proteins containing carbohydrate esterase (CE) and polysaccharide lyase (PL) modules

CAZyme family	Substrate	Enzyme activity	EC number	Number	References
CE1	hemicellulose	feruloyl esterase	3.1.1.73	3	43, 45, 93, 101
CE2	hemicellulose	acetyl xylan esterase	3.1.1.72	1	100, 102
CE3	hemicellulose	acetyl xylan esterase	3.1.1.72	1	100, 103
CE4	hemicellulose	acetyl xylan esterase	3.1.1.72	2	100, 104, 105
	N-linked oligosaccharides	peptidoglycan GlcNAc deacetylase	3.5.1.-
CE5	hemicellulose	acetyl xylan esterase	3.1.1.72	4	100, 107-109
		cutinase	3.1.1.74
CE8	pectin (HG)	pectin methylesterase	3.1.1.11	15	18, 123
CE12	pectin (HG, RGI)	pectin and RGI acetylesterase	3.1.1.-	14	18, 125
		acetyl xylan esterase	3.1.1.72
CE13	pectin (HG)	pectin acetylesterase	3.1.1.-	6	124
Total				46
PL1	pectin (HG)	pectate lyase	4.2.2.2	21	119-121
		exo-pectate lyase	4.2.2.9
		pectin lyase	4.2.2.10
PL3	pectin (HG, RGI)	pectate lyase	4.2.2.2	17	119, 122
PL4	pectin (RGI)	rhamnogalacturonan lyase	4.2.2.-	6	119, 122
Total				44

Potential substrates, likely enzyme activity, EC number, the number of family members and references used to identify putative activities are shown. Proteins accession numbers and other characteristics are tabulated in Additional file 2. HG = homogalacturonan, RGI = rhamnogalacturonan I; GlcNAc = N-acetylglucosamine.

ISSN: 1471-2164