Identification of new autoantibody specificities directed at proteins involved in the transforming growth factor β pathway in patients with systemic sclerosis

Table 3 Proteins specifically recognised by IgG from at least four pools of patients with unidentified ANA

Protein ID on gel	HEp-2 cell protein	SwissProt accession number	MW th/es	pH_i th/es	Number of unique identified peptides^#	Total ion score	Best ion score	Sequence coverage (%)
550	Far upstream element-binding protein 2 (N)	[SwissProt:FUBP2_HUMAN]	73/80	6.8/7.1	10/17	554	108	37
553	Far upstream element-binding protein 2 (N)	[SwissProt:FUBP2_HUMAN]	73/79	6.8/7.3	11/17	864	153	32
554	Far upstream element-binding protein 2 (N)	[SwissProt:FUBP2_HUMAN]	73/79	6.8/7.5	10/17	598	105	34
617	Lamin A/C (N)	[SwissProt:LMNA_HUMAN]	74/73	6.6/7.0	11/29	680	127	50
762	RNA-binding protein FUS (N)	[SwissProt:FUS_HUMAN]	53/61	9.4/7.8	2/5	64	45	17
771	Ras GTPase-activating protein-binding protein 1 (N)	[SwissProt:G3BP1_HUMAN]	52/61	5.4/6.0	5/12	381	131	39
913	Lamin A/C (T)	[SwissProt:LMNA_HUMAN]	74/77	6.6/7.0	5/14	120	39	28
914	Lamin A/C (T)	[SwissProt:LMNA_HUMAN]	74/77	6.6/6.8	7/23	121	38	42
921	RuvB-like 1 (N)	[SwissProt:RUVB1_HUMAN]	50/50	6.0/6.8	8/16	591	131	50
	Protein DEK (N)	[SwissProt:DEK_HUMAN]	43/50	8.7/6.8	2/4	162	92	12
924	Heterogeneous nuclear ribonucleoprotein H (N)	[SwissProt:HNRH1_HUMAN]	49/49	5.9/6.4	8/15	440	80	53
1132	60-kDa heat shock protein, mitochondrial precursor (T)	[SwissProt:CH60_HUMAN]	61/61	5.7/5.5	7/15	176	36	28
1191	Serine/threonine protein phosphatase PP1-β catalytic subunit (N)	[SwissProt:PP1B_HUMAN]	37/34	5.8/6.1	2/10	62	41	35
1629	Annexin A1 (T)	[SwissProt:ANXA1_HUMAN]	39/38	6.6/6.7	6/13	233	73	50
2212	Stathmin (T)	[SwissProt:STMN1_HUMAN]	17/18	5.8/6.2	2/6	82	51	32
2039	Histone-binding protein RBBP4 (N)	[SwissProt:RBBP4_HUMAN]	48/48	4.7/5.1	7/10	414	103	27

^aANA: antinuclear antibody; FUS: fused in sarcoma; MW: molecular weight (in kilodaltons); N: proteins recognised in HEp-2 cell-enriched nuclear protein extract; pH_i, intracellular pH; PP1: protein phosphatase 1; SSc: systemic sclerosis; T: proteins recognised in HEp-2 cell total protein extract; th/es: theoretical/estimated. ^bNumber of uniquely identified peptides in tandem mass spectrometry (MS/MS) and mass spectrometry + MS/MS searches.

ISSN: 1478-6362