Table 2.

Selected Entries for Putative Nucleolar SUMO2 Substrates from MaxQuant Analysis

Number in Figure 1	Protein Names	Gene Names	Uniprot	ELUATE Seq. Cov. (%)	ELUATE Log2 H/L Norm.	ELUATE H/L Sign. A	ELUATE H/L Count	INPUT Whole H/L Sign. B	SUMO Site?	Other Ref.
1	Alkaline phosphatase; tissue-nonspecific isozyme	ALPL	P05186	15.6	2.46E	1.04E-03	3	6.94E-21	No	–
2	H/ACA ribonucleoprotein complex subunit 4	DKC1	A8MUT5	24.5	3.34	1.30E-05	10	0.305	Yes	Manza et al., 2004; Blomster et al., 2009
3	H/ACA ribonucleoprotein complex subunit 2	NHP2	Q9NX24	39.9	5.26	1.56E-11	3	0.177	Yes	Blomster et al., 2009; Golebiowski et al., 2009
4	Nucleolar phosphoprotein p130	NOLC1	Q14978	8.2	2.86	1.66E-04	7	0.292	Yes	Golebiowski et al., 2009
5	Nucleolar protein 58	NOP58	Q9Y2X3	53.7	3.61	2.68E-06	101	3.15E-02	Yes	Zhao et al., 2004; Manza et al., 2004; Schimmel et al., 2008; Golebiowski et al., 2009
20	Cyclin-dependent kinase inhibitor 2A; isoform 4	CDKN2A	Q8N726	39.9	5.29	1.20E-11	6	5.67E-18	No	–
21	Glucose-6-phosphate isomerase	GPI	P06744	45.9	2.24	2.59E-03	36	0.497	Yes	Manza et al., 2004
22	KLHDC3 protein	KLHDC3	Q96GH7	22.9	2.14	3.82E-03	5	–	No	–
23	Nuclear factor 1 X-type	NFIX	Q14938	10.2	2.30	2.00E-03	2	–	Yes	Golebiowski et al., 2009
24	PDZ and LIM domain protein 7	PDLIM7	Q9NR12	23.9	2.24	2.54E-03	12	1.77E-06	Yes	–
25	Small ubiquitin-related modifier 3	SUMO3	A8MU27	17	5.70	2.93E-13	18	1.16E-07	Yes	–

Same as Table 1 except that the first entry of each column for protein groups with ratio H/L significance A < 0.01 (with ratio count >1) is shown.