Table 3

Proteins newly identified in OA synovial fluids

Protein namea

Accession no.b

Scorec

% Coveraged

No. of peptidese


Zinc-α2-glycoprotein

P25311

140.54

35

10


Ig α1 chain C region

P01876

128.82

37

9


Ig γ-1 chain C region

P01857

115.3

35

9


Ig κ chain C region

P01834

87.06

85

6


Calgranulin A (MRP-8)

P05109

67.87

33

5


Collagen α1(I) chain

P02452

40.14

4

4


Complement component C9

P02748

36.76

9

4


Serum paraoxonase/arylesterase 1

P27169

34.77

13

3


Ig κ chain V-III region SIE

P01620

33.65

38

3


Ig heavy-chain V-III region BRO

P01766

28.94

24

2


NF-κB-repressing factor

O15226

23.76

8

3


A-kinase anchor protein-like protein 8

Q9ULX6

23.65

11

3


Structural maintenance of chromosomes 4-like 1 protein

Q9NTJ3

23.43

1

2


Bromodomain adjacent to zinc-finger domain 2B (hWALp4)

Q9UIF8

22.6

3

3


Histone deacetylase 5

Q9UQL6

22.4

4

3


Voltage-dependent R-type calcium channel α-1E subunit

Q15878

22.29

1

2


Inhibitor of nuclear factor κB kinase β subunit

O14920

22.07

8

3


β platelet-derived growth factor receptor precursor (EC 2.7.1.112) (CD140b antigen)

P09619

20.93

5

2


Leucine-rich α2-glycoprotein

P02750

20.55

5

2


Mitochondrial 28S ribosomal protein S29

P51398

19.76

6

2


Glucose-6-phosphate 1-dehydrogenase

P11413

19.58

14

3


Collagen α2(I) chain

P08123

18.98

7

3


Histone H4

P62805

18.73

16

2


Macrophage inflammatory protein 2-β

P19876

18.72

28

2


Collagen α3(IV) chain

Q01955

18.15

5

2


Histone-lysine N-methyltransferase, H3 lysine-9 specific 4

Q15047

17.82

4

2


Toll-like receptor 6

Q9Y2C9

17.38

2

2


Nuclear factor NF-κB p100 subunit

Q00653

17.22

7

2


Possible global transcription activator SNF2L1 (SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 1)

P28370

16.37

5

2


RRP5 protein homologue

Q14690

16.35

3

2


Interleukin-20 receptor α chain

Q9UHF4

16.22

11

2


NF-κB inhibitor-like protein 1

Q9UBC1

16.13

14

2


Platelet endothelial cell-adhesion molecule

P16284

15.87

10

2


Fibroblast growth factor receptor 2

P21802

15.4

2

2


Interleukin-1 receptor-associated kinase 1

P51617

14.92

11

2


Cadherin EGF LAG seven-pass G-type receptor 1

Q9NYQ6

14.84

1

2


Collagen α2(V) chain

P05997

14.78

5

2


Zinc-finger A20 domain-containing protein 1

Q6GQQ9

14.61

6

2


Low-density lipoprotein receptor-related protein 1 (apolipoprotein E receptor)

Q07954

14.54

1

2


Microtubule-actin crosslinking factor 1, isoforms 1/2/3/5

Q9UPN3

14.53

1

2


Zinc-finger DHHC domain-containing protein 13

Q8IUH4

14.48

11

2


Death-associated protein kinase 1

P53355

14.41

3

2


Collagen α1(V) chain

P20908

13.78

4

2


Integrin α-V (Vitronectin receptor α subunit)

P06756

13.52

3

2


Misshapen-like kinase 1(MAPK/ERK kinase kinase kinase 6)

Q8N4C8

13.36

4

2


Cadherin EGF LAG seven-pass G-type receptor

Q9NYQ7

13.26

1

3


Regulator of G-protein signaling 14

O43566

13.21

8

2


Collagen α1(VII) chain

Q02388

13.19

1

2


Interleukin-12 receptor β2 chain

Q99665

13.1

5

2


Interleukin-1β (IL-1β)

P01584

12.94

20

2


Platelet-derived growth factor B chain

P01127

12.91

18

2


Collagen α1(II) chain

P02458

12.65

6

2


Pappalysin-1

Q13219

12.58

2

2


Complement C1q tumor necrosis factor-related protein 5

Q9BXJ0

11.97

23

2


Interleukin-18 receptor 1 precursor (IL-1 receptor-related protein)

Q13478

11.8

4

2


A kinase anchor protein 10, mitochondrial (PRKA10)

O43572

11.36

8

2


Neutrophil collagenase

P22894

11.34

9

2


Protein-arginine deiminase type I

Q9ULC6

11.34

5

2


TNF receptor-associated factor 5 (RING finger protein 84)

O00463

10.92

8

2


Macrophage receptor MARCO

Q9UEW3

10.89

8

2


Collagen α3(V) chain

P25940

10.32

1

2


Histone acetyltransferase MYST3

Q92794

10.14

2

2


Leukocyte immunoglobulin-like receptor subfamily B member 4

Q8NHJ6

9.43

11

2


Mast/stem cell growth-factor receptor

P10721

9.3

5

2


aShown in bold are the proteins classified as plasma proteins (as assessed by www.HPRD.org webcite). bUniProtKB/Swiss-Prot database. cAn aggregate score of the quality of the peptide spectra obtained, the total number of peptides identified, and percentage coverage of the protein. dThe number of amino acids identified as a percentage of the total number of amino acids in the corresponding protein. eThe number of peptides identified that correspond to the protein indicated.

Sohn et al. Arthritis Research & Therapy 2012 14:R7   doi:10.1186/ar3555

Open Data