. Author manuscript; available in PMC: 2010 Oct 1.

Published in final edited form as: Epigenomics. 2009 Oct 1;1(1):163–175. doi: 10.2217/epi.09.3

Table II.

Classes of SET Domain Methyltransferases [51-53]

	Substrate^a	Additional Motifs/Domains^b	Function^c	S. cerevisiae proteins^d	D. melanogaster proteins^d
Class I	H3K27	Pre-SET, SANT	euchromatic silencing X-inactivation		EZ
Class II	H3K36	Pre-SET, Post-SET, PWWP, PHD, HMG, BAH, eaf3	transcriptional elongation transcriptional silencing	Set2	ASH1 Mes-4 SET2
Class III	H3K4	Post SET, PWWP, PHD, RRM, Chd1, MBT, JMJD2A, WDR5	transcriptional activation transcriptional elongation	Set1	Trx
Class IV	H3K4?	PHD	?	Set3 Set4	Mes-4
Class V	H3K9	Pre-SET, Post SET, HP1, CDY1, JMJD2A, ankyrin repeats, MBD, YDG	euchromatic silencing,, heterochromatic silencing transcriptional repression transcriptional activation		Su(var) 3-9 G9a
Class VI	H3K36?	pre-SET, Post-SET	cell-cycle silencing transcriptional silencing	Set5 Set6	Bzd^e
Class VII	Non-histones			Rkm1-4 Ctm1 YHL039W	Dmel\CG32732^f
EZH2 family	H1K26	PreSET, SANT	transcriptional silencing		HP1
H4K20 family	H4K20	PostSET, Crb2, JMJD2A	transcirptional silencing transcriptional activation cell cycle silencing mitosis, cytokinesis, heterochromic silencing		SET8 SUV4-H20

Ref. 46, 51-53.

For domain/motif assignments and designations, see Ref. 40, 46, 52, 53.

Function includes information from all SET proteins among a variety of organisms. Adapted from Refs. 40 and 46.

The program HHpred is used with a multiple alignment generated by ClustalW of each SET class of proteins obtained from Ref. 53 against the yeast and Drosophila melanogaster proteomes.

Orthologous to mammalian ASHR1.

Contains the substrate-binding region of Rubisco large subunit methyltransferase.