TABLE 2:

Functional classification of DDX6 partners.

		Untreated		RNase treated
		Score	Peptides	Score	Peptides	Pathway/complex
mRNA decay	DCP1A	1974	31	2243	29	5′, 3′ mRNA decay
	DCP1B	1807	28	2067	31
	EDC3	2194	36	2235	33
	EDC4	1043	25	2904	46
	XRN1	851	22	316	8
	XRN2	119	4	–	–
	DCP2	82	3	298	7
	LSM1	244	4	153	3
	LSM2	389	7	325	5
	LSM3	58	2	34	1
	LSM4	294	5	214	5
	LSM6	207	5	158	4
	LSM7	101	2	111	2
	CNOT6L	–	–	30	1	3′, 5′ mRNA decay
	UPF1	2435	50	125	3	NMD
	UPF3B	39	1	–	–
	SMG6	149	4	–	–
	eIF4A3	592	14	–	–	EJC core
	MAGOH	193	5	–	–
	MLN51	187	4	–	–
	Y14	77	2	–	–
Translational repressors	4E-T	2325	41	646	12	CPEB complex
	PAT1B	2083	36	1490	26
	LSM14B	1811	27	1709	25
	LSM14A	1578	29	1342	25
	ATXN2L	2305	44	3230	53	miRNA pathway
	ATXN2	2127	37	3047	52
	MOV10	1658	32	168	4
	AGO2	104	3	–	–
	GIGYF2	224	6	1870	37	eIF4E2-BP
	NUFIP2	1698	27	2165	28	FMRP complex
	FMRP	432	8	–	–
	FXR2	618	11	–	–
	FXR1	403	8	–	–
Miscellaneous	PABPC4	2360	39	2603	38	Poly(A)- binding
	PABPC1	2359	39	2431	39
	PABPC3	1131	20	1206	21
	PABPN1	–	–	78	2
	LSM12	430	7	591	7	ATXN2 associated
	DHX30	2205	44	–	–	Helicases
	DHX9	2032	41	–	–
	HELZ	–	–	2022	39
	YTHDC2	1611	36	29	1
	HSPA1A	1807	31	2255	32	Chaperone and regulators
	HSPA8	1356	23	1836	29
	HSPA9	857	13	1766	30
	HSPA5	1234	20	1312	21
	HSPH1	–	–	161	4
	BAG4	257	5	406	7
	BAG2	–	–	75	2
	G3BP2	955	18	1417	22	G3BP complex
	G3BP1	548	10	809	15
	CAPRIN1	185	3	–	–
	LARP1	1446	30	1766	36	TOP mRNA translation
	PRMT5	544	13	1531	27	PTM
	NCBP1	1011	17	–	–	Nuclear CBC and associated proteins
	NCBP2	237	4	–	–
	DDX3	106	3	–	–
	ZC3H18	192	6	–	–
	ARS2	100	4	–	–
	eIF4E2	112	2	268	7	eIF4F
	eIF4E1	181	5	189	3
	eIF4G	43	2	376	11
	eIF4B	38	1	45	1
	eIF4A1	–	–	56	2

The 20 proteins with highest Mascot scores are in bold.