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Table 4 Proteins specifically recognised by IgG from patients with the same phenotype and expressing unidentified ANAa

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

Subset of patients Protein ID on gel HEp-2 cell protein SwissProt accession number MW th/es pHi th/es Number of unique identified peptides# Total ion score Best ion score Sequence coverage (%)
dcSSc/SRC 1100 Calreticulin precursor (T) [SwissProt:CALR_HUMAN] 48/63 4.3/4.4 5/16 136 36 25
  1420 Pre-mRNA splicing factor SPF27 (N) [SwissProt:SPF27_HUMAN] 26/25 5.5/5.9 6/10 377 115 47
  1636 Eukaryotic translation initiation factor 5A-1 (N) [SwissProt:IF5A1_HUMAN] 17/16 5.1/5.7 3/3 163 101 33
  2249 Eukaryotic translation initiation factor 5A-1 (T) [SwissProt:IF5A1_HUMAN] 17/17 5.1/5.6 2/5 80 69 22
dcSSc/PAH - - - - -     
dcSSc/ILD 589 Probable ATP-dependent RNA helicase DDX17 (N) [SwissProt:DDX17_HUMAN] 72/76 8.8/8.0 8/20 207 35 36
  1101 Poly(rC)-binding protein 2 (N) [SwissProt:PCBP2_HUMAN] 39/39 6.3/6.9 5/10 132 56 41
  1151 Serine/threonine protein phosphatase PP1-α catalytic subunit (N) [SwissProt:PP1A_HUMAN] 37/35 5.9/6.5 10/17 476 114 61
dcSSc* 1417 DNA-directed RNA polymerases I, II and III, subunit RPABC1 (N) [SwissProt:RPAB1_HUMAN] 25/25 5.7/6.3 2/4 150 117 21
  2163 Cofilin 1 (T) [SwissProt:COF1_HUMAN] 19/19 8.2/9.5 3/7 134 72 54
lcSSc/DU 2317 Histone H2A type 1-J (T) [SwissProt:H2A1J_HUMAN] 14/16 10.9/6.1 2/3 37 20 27
lcSSc/PAH 882 Telomeric repeat binding factor 2-interacting protein 1 (N) [SwissProt:TE2IP_HUMAN] 44/52 4.6/4.9 9/15 286 71 48
  1119 Heterogeneous nuclear ribonucleoprotein A/B (N) [SwissProt:ROAA_HUMAN] 36/38 8.2/6.5 3/5 55 27 15
  2079 Peroxiredoxin 2 (T) [SwissProt:PRDX2_HUMAN] 22/23 5.7/6.0 5/7 143 40 26
lcSSc/ILD 901 78-kDa glucose-regulated protein precursor (T) [SwissProt:GRP78_HUMAN] 72/76 5.1/5.4 13/29 711 121 28
  2063 ATP-dependent DNA helicase 2, subunit 1 (N) [SwissProt:KU70_HUMAN] 70/70 6.2/6.9 3/14 89 45 29
lcSSc* 820 U4/U6 small nuclear ribonucleoprotein Prp31 (N) [SwissProt:PRP31_HUMAN] 55/57 5.6/6.4 3/7 112 64 16
  1478 Calumenin precursor (T) [SwissProt:CALU_HUMAN] 37/44 4.5/4.6 3/7 82 39 29
  1895 Tumour protein D54 (T) [SwissProt:TPD54_HUMAN] 22/29 5.3/5.6 1/3 47 47 23
  1. aANA: antinuclear antibody; dcSSc: diffuse cutaneous systemic sclerosis; DU: digital ulcer; ILD: interstitial lung disease; lcSSc: limited cutaneous systemic sclerosis; MW: molecular weight (in kilodaltons); N: proteins recognised in HEp-2 cell-enriched nuclear protein extract; PAH: pulmonary arterial hypertension; SRC: scleroderma renal crisis; SSc: systemic sclerosis; T: proteins recognised in HEp-2 cell total protein extract; th/es: theoretical/estimated. bNumber of unique identified peptides in MS/MS and in MS+MS/MS searches. cWithout visceral involvement.