Proteomic Analysis of Plasma-Purified VLDL, LDL, and HDL Fractions from Atherosclerotic Patients Undergoing Carotid Endarterectomy: Identification of Serum Amyloid A as a Potential Marker
Table 2
MALDI TOF MS data obtained from triplicate experiments.
Apolipoprotein
No. of isoforms
Accession no.
Nominal mass
pI
Start
End
Observeda
Mr. (expt.)b
Mr. (calc.)c
Delta
Miss
Unique peptided
Protein scoree
Prot. Seq. Cov. (%)f
Apo AI
6
gi∣90108664
28061
5.27
1
10
1226.6349
1225.6276
1225.5364
0.0913
0
−.DEPPQSPWDR.V
209
48
24
40
1815.9786
1814.9713
1814.8435
0.1278
1
K.DSGRDYVSQFEGSALGK.Q
28
40
1400.7913
1399.7840
1399.6620
0.1221
0
R.DYVSQFEGSALGK.Q
46
59
1612.9009
1611.8936
1611.7781
0.1156
0
K.LLDNWDSVTSTFSK.L
60
77
2202.2297
2201.2224
2201.1117
0.1108
1
K.LREQLGPVTQEFWDNLEK.E
62
77
1933.0461
1932.0388
1931.9265
0.1123
0
R.EQLGPVTQEFWDNLEK.E
62
83
2618.3394
2617.3321
2617.2660
0.0661
1
R.EQLGPVTQEFWDNLEKETEGLR.Q
97
106
1252.7203
1251.7130
1251.6136
0.0995
0
K.VQPYLDDFQK.K
97
107
1380.8340
1379.8267
1379.7085
0.1182
1
K.VQPYLDDFQKK.W
107
116
1411.7921
1410.7848
1410.6601
0.1247
1
K.KWQEEMELYR.Q
108
116
1283.7026
1282.6953
1282.5652
0.1301
0
K.WQEEMELYR.Q
119
131
1467.9192
1466.9119
1466.7841
0.1278
1
K.VEPLRAELQEGAR.Q
132
140
1152.6199
1151.6126
1151.6298
−0.0172
1
R.QKLHELQEK.L
161
171
1301.7749
1300.7676
1300.6411
0.1265
0
R.THLAPYSDELR.Q
Apo AIV
2
gi∣178779
43358
5.22
32
45
1635.0740
1634.0667
1633.8311
0.2356
0
K.SELTQQLNALFQDK.L
180
44
46
58
1407.9354
1406.9281
1406.7041
0.2240
0
K.LGEVNTYAGDLQK.K
60
70
1311.9370
1310.9297
1310.6983
0.2315
0
K.LVPFATELHER.L
93
103
1235.8699
1234.8626
1234.6670
0.1957
0
R.LLPHANEVSQK.I
115
123
1104.7449
1103.7376
1103.5611
0.1765
0
R.LEPYADQLR.T
150
167
1994.2684
1993.2611
1992.9864
0.2747
0
R.ENADSLQASLRPHADELK.A
170
180
1300.9045
1299.8972
1299.6783
0.2190
1
K.IDQNVEELKGR.L
192
200
1102.7498
1101.7425
1101.5666
0.1759
0
K.IDQTVEELR.R
192
201
1258.8846
1257.8773
1257.6677
0.2096
1
K.IDQTVEELRR.S
202
213
1350.8658
1349.8585
1349.6463
0.2122
0
R.SLAPYAQDTQEK.L
268
284
1928.2228
1927.2155
1926.9435
0.2720
0
K.SLAELGGHLDQQVEEFR.R
268
285
2084.2964
2083.2891
2083.0446
0.2445
1
K.SLAELGGHLDQQVEEFRR.R
286
296
1352.8851
1351.8778
1351.6520
0.2258
1
R.RVEPYGENFNK.A
297
308
1445.0040
1443.9967
1443.7868
0.2100
1
K.ALVQQMEQLRTK.L
309
325
1806.1775
1805.1702
1804.9108
0.2594
0
K.LGPHAGDVEGHLSFLEK.D
Apo CII
1
gi∣14277770
8909
4.66
1
19
2203.1370
2202.1297
2202.0627
0.0670
0
−.TQQPQQDEMPSPTFLTQVK.E
82
68
20
30
1286.6555
1285.6482
1285.5826
0.0656
0
K.ESLSSYWESAK.T
56
76
2233.2034
2232.1961
2232.1348
0.0613
0
K.STAAMSTYTGIFTDQVLSVLK.G
56
79
2548.3137
2547.3064
2547.2414
0.0650
1
K.STAAMSTYTGIFTDQVLSVLKGEE.−
Apo CIII
2
gi∣186972736
8759
4.72
1
17
1907.0851
1906.0778
1905.8488
0.2290
0
−.SEAEDASLLSFMQGYMK.H
71
64
25
40
1717.0728
1716.0655
1715.8438
0.2217
0
K.DALSSVQESQVAQQAR.G
41
51
1196.7615
1195.7542
1195.5874
0.1669
0
R.GWVTDGFSSLK.D
41
58
2076.2444
2075.2371
2075.0000
0.2371
1
R.GWVTDGFSSLKDYWSTVK.D
Apo D
3
gi∣114034
21547
5.06
28
41
1657.8419
1656.8346
1656.7566
0.0780
0
K.CPNPPVQENFDVNK.Y
50
22
46
60
1883.0264
1882.0191
1881.9261
0.0930
1
R.WYEIEKIPTTFENGR.C
52
60
1034.6072
1033.5999
1033.5193
0.0807
0
K.IPTTFENGR.C
152
164
1423.8282
1422.8209
1422.7354
0.0855
0
R.NPNLPPETVDSLK.N
Apo E
5
gi∣178853
36185
5.81
34
43
1247.6713
1246.6640
1246.5691
0.0950
0
R.QQTEWQSGQR.W
90
30
57
79
2730.4333
2729.4260
2729.3872
0.0388
0
R.WVQTLSEQVQEELLSSQVTQELR.A
94
108
1730.9484
1729.9411
1729.8370
0.1041
0
K.SELEEQLTPVAEETR.A
208
224
1752.9147
1751.9074
1751.9642
−0.0568
1
R.VRAATVGSLAGQPLQER.A
210
224
1497.9037
1496.8964
1496.7947
0.1017
0
R.AATVGSLAGQPLQER.A
259
269
1313.8163
1312.8090
1312.7099
0.0992
1
R.AKLEEQAQQIR.L
270
278
1033.5950
1032.5877
1032.5352
0.0525
0
R.LQAEAFQAR.L
281
292
1536.8112
1535.8039
1535.7079
0.0961
0
K.SWFEPLVEDMQR.Q
Apo J
2
gi∣338305
36712
5.74
29
43
1873.0469
1872.0396
1871.8407
0.1989
0
R.QQTHMLDVMQDHFSR.A
80
35
44
55
1393.8494
1392.8421
1392.6885
0.1536
0
R.ASSIIDELFQDR.F
60
75
2000.1421
1999.1348
1998.9588
0.1760
0
R.EPQDTYHYLPFSLPHR.R
168
183
1762.9714
1761.9641
1761.8203
0.1438
0
R.EILSVDCSTNNPSQAK.L + Carbamidomethyl (C)
187
197
1288.7798
1287.7725
1287.6306
0.1419
0
R.ELDESLQVAER.L
247
269
2314.3184
2313.3111
2313.1700
0.1411
0
R.VTTVASHTSDSDVPSGVTEVVVK.L
270
286
1874.1448
1873.1375
1872.9833
0.1542
0
K.LFDSDPITVTVPVEVSR.K
AP SAA
2
gi∣225986
11675
5.89
2
15
1550.6927
1549.6854
1549.7202
−0.0347
0
R.SFFSFLGEAFDGAR.D
70
60
26
39
1670.7418
1669.7345
1669.7848
−0.0503
1
R.EANYIGSDKYFHAR.G
48
62
1456.6875
1455.6802
1455.7106
−0.0304
0
R.GPGGVWAAEAISDAR.E
68
87
2177.8303
2176.8230
2176.9562
−0.1332
0
R.FFGHGAEDSLADQAANEWGR.S
value of the observed peak in MS analysis; bmolecular weight expected for peptide; cmolecular weight calculated; dunique peptides identified in the spot; eMascot score; fpercentage of protein coverage.
