Table 2.
List of HDL proteins, peptides and corresponding transitions
| Fragment Ion (m/z) | ||||||||
|---|---|---|---|---|---|---|---|---|
| Protein | Peptide | Precursor Ion (m/z) | 1 | 2 | 3 | 4 | 5 | 6 |
| ALB | FQNALLVR | 480.8 | 685.4 | 500.4 | ||||
| ALB | LVNEVTEFAK | 575.3 | 937.5 | 694.4 | ||||
| APOA1 | DLATVYVDVLK | 618.3 | 936.5 | 736.4 | ||||
| APOA1# | DLATVYVDVLK | 624.3 | 945.5 | 743.4 | ||||
| APOA1 | DYVSQFEGSALGK | 700.8 | 1023.5 | 808.4 | ||||
| APOA1# | DYVSQFEGSALGK | 708.3 | 1035.5 | 817.4 | ||||
| APOA1 | VQPYLDDFQK | 626.8 | 1025.5 | 513.3 | ||||
| APOA1# | VQPYLDDFQK | 633.3 | 1035.5 | 518.2 | ||||
| APOA2 | EPC[+57.0]VESLVSQYFQTVTDYGK | 1175.5 | 1436.7 | 583.3 | ||||
| APOA2 | EQLTPLIK | 471.3 | 571.4 | 470.3 | ||||
| APOA2 | SPELQAEAK | 486.8 | 788.4 | 443.2 | ||||
| APOA4 | LGEVNTYAGDLQK | 704.4 | 794.4 | 631.3 | ||||
| APOA4 | LTPYADEFK | 542.3 | 772.4 | 435.2 | ||||
| APOA4 | SELTQQLNALFQDK | 817.9 | 835.4 | 537.3 | ||||
| APOA5 | LRPLSGSEAPR | 591.8 | 913.5 | 816.4 | 703.3 | 616.3 | 559.3 | |
| APOA5 | SVAPHAPASPAR | 580.8 | 903.5 | 669.4 | 598.3 | 487.8 | 452.2 | 403.7 |
| APOB | IEIPLPFGGK | 535.8 | 828.5 | 715.4 | ||||
| APOB | SVSLPSLDPASAK | 636.3 | 1085.6 | 885.5 | ||||
| APOC1 | EFGNTLEDK | 526.7 | 605.3 | 504.3 | ||||
| APOC1 | EWFSETFQK | 601.3 | 739.4 | 523.3 | ||||
| APOC1 | TPDVSSALDK | 516.8 | 834.4 | 466.2 | ||||
| APOC2 | TAAQNLYEK | 519.3 | 865.4 | 666.3 | ||||
| APOC2 | TYLPAVDEK | 518.3 | 771.4 | 658.3 | ||||
| APOC3 | DALSSVQESQVAQQAR | 858.9 | 1144.6 | 573.3 | ||||
| APOC3 | DYWSTVK | 449.7 | 620.3 | 434.3 | ||||
| APOC3 | GWVTDGFSSLK | 598.8 | 953.5 | 854.4 | ||||
| APOC4 | AWFLESK | 440.7 | 623.3 | 476.3 | ||||
| APOC4 | ELLETVVNR | 536.8 | 588.3 | 388.2 | ||||
| APOD | IPTTFENGR | 517.8 | 824.4 | 461.2 | ||||
| APOD | NPNLPPETVDSLK | 712.4 | 1098.6 | 985.5 | ||||
| APOD | VLNQELR | 436.3 | 659.3 | 545.3 | ||||
| APOE | AATVGSLAGQPLQER | 749.4 | 827.4 | 642.4 | ||||
| APOE | SELEEQLTPVAEETR | 865.9 | 902.5 | 801.4 | ||||
| APOF | SGVQQLIQYYQDQK | 849.4 | 1085.5 | 972.4 | ||||
| APOF | SLPTEDC[+57.0]ENEK | 661.3 | 923.3 | 561.2 | ||||
| APOF | SYDLDPGAGSLEI | 668.8 | 743.4 | 261.1 | ||||
| APOH | ATVVYQGER | 511.8 | 751.4 | 652.3 | ||||
| APOH | TC[+57.0]PKPDDLPFSTVVPLK | 638.7 | 743.5 | 357.2 | ||||
| APOL1 | LNILNNNYK | 553.3 | 878.5 | 765.4 | ||||
| APOL1 | VTEPISAESGEQVER | 815.9 | 1301.6 | 1091.5 | 804.4 | |||
| APOM | AFLLTPR | 409.3 | 599.4 | 486.3 | ||||
| APOM | DGLC[+57.0]VPR | 408.7 | 531.3 | 371.2 | ||||
| APOM | SLTSC[+57.0]LDSK | 505.7 | 810.4 | 709.3 | ||||
| C3 | TGLQEVEVK | 501.8 | 731.4 | 422.7 | ||||
| C3 | TIYTPGSTVLYR | 685.9 | 1156.6 | 892.5 | ||||
| C4A | GSFEFPVGDAVSK | 670.3 | 919.5 | 772.4 | ||||
| C4A | VFALDQK | 410.7 | 721.4 | 574.3 | 503.3 | |||
| CETP | ASYPDITGEK | 540.8 | 759.4 | 662.3 | ||||
| CETP | GTSHEAGIVC[+57.0]R | 593.8 | 804.4 | 675.4 | ||||
| CETP | VIQTAFQR | 481.8 | 750.4 | 622.3 | ||||
| CLU | ASSIIDELFQDR | 697.4 | 1035.5 | 922.4 | ||||
| CLU | ELDESLQVAER | 644.8 | 802.4 | 474.3 | 375.2 | |||
| CLU | LFDSDPITVTVPVEVSR | 937.5 | 886.5 | 686.4 | ||||
| HBB | LLVVYPWTQR | 637.9 | 850.4 | 687.4 | ||||
| HBB | SAVTALWGK | 466.8 | 774.5 | 675.4 | ||||
| HP | VTSIQDWVQK | 602.3 | 1003.5 | 916.5 | 803.4 | |||
| HPR | GSFPWQAK | 460.7 | 629.3 | 532.3 | 388.7 | |||
| HPR | LPEC[+57.0]EAVC[+57.0]GKPK | 463.2 | 589.3 | 244.2 | ||||
| HPR | TEGDGVYTLNDK | 656.3 | 1081.5 | 909.5 | 590.3 | |||
| HPR | VGYVSGWGQSDNFK | 772.4 | 1125.5 | 795.4 | ||||
| IHH | AFQVIETQDPPR | 700.9 | 955.5 | 369.2 | ||||
| LCAT | LEPGQQEEYYR | 706.3 | 1169.5 | 585.3 | ||||
| LCAT | SSGLVSNAPGVQIR | 692.9 | 941.5 | 669.4 | ||||
| LCAT | STELC[+57.0]GLWQGR | 653.8 | 876.4 | 716.4 | ||||
| LPA | GTLSTTITGR | 503.8 | 735.4 | 446.3 | ||||
| LPA | TPAYYPNAGLIK | 654.4 | 875.5 | 712.4 | ||||
| LpPLA2 | ASLAFLQK | 439.3 | 719.4 | 606.4 | 535.3 | |||
| LpPLA2 | IAVIGHSFGGATVIQTLSEDQR | 767.1 | 634.3 | 547.2 | ||||
| PCYOX1 | LFLSYDYAVK | 609.8 | 958.5 | 845.4 | ||||
| PCYOX1 | LVC[+57.0]SGLLQASK | 588.3 | 963.5 | 482.3 | ||||
| PLTP | AVEPQLQEEER | 664.3 | 1028.5 | 514.8 | ||||
| PLTP | FLEQELETITIPDLR | 909 | 714.4 | 500.3 | ||||
| PLTP | GAFFPLTER | 519.3 | 762.4 | 615.3 | ||||
| PON1 | IFFYDSENPPASEVLR | 942.5 | 982.5 | 868.5 | ||||
| PON1 | IQNILTEEPK | 592.8 | 943.5 | 716.4 | ||||
| PON1 | STVELFK | 412.2 | 635.4 | 536.3 | 294.2 | |||
| PON3 | AQALEISGGFDK | 618.3 | 1036.5 | 723.4 | ||||
| PON3 | LLNYNPEDPPGSEVLR | 907 | 1195.6 | 854.5 | ||||
| PON3 | SVNDIVVLGPEQFYATR | 954.5 | 1068.5 | 1011.5 | ||||
| RBP4 | LLNLDGTC[+57.0]ADSYSFVFSR | 1033 | 742.4 | 409.2 | ||||
| RBP4 | YWGVASFLQK | 599.8 | 849.5 | 350.1 | ||||
| SAA1/2 | DPNHFRPAGLPEKY | 820.9 | 763.4 | 536.3 | ||||
| SAA1/2 | SFFSFLGEAFDGAR | 775.9 | 935.5 | 822.4 | ||||
| SAA4 | FRPDGLPK | 465.3 | 686.4 | 244.2 | ||||
| SAA4 | GPGGVWAAK | 421.7 | 688.4 | 475.3 | ||||
| SERPINA1 | LSITGTYDLK | 555.8 | 910.5 | 797.4 | ||||
| SERPINA1 | SVLGQLGITK | 508.3 | 829.5 | 716.4 | ||||
| SERPINA4 | IAPANADFAFR | 596.8 | 1008.5 | 504.7 | ||||
| SERPINA4 | VGSALFLSHNLK | 643.4 | 971.6 | 711.4 | ||||
| VDBP | THLPEVFLSK | 390.9 | 494.3 | 352.2 | 234.1 | |||
| VDBP | VLEPTLK | 400.2 | 700.4 | 587.3 | ||||
| VTN | DVWGIEGPIDAAFTR | 823.9 | 1076.5 | 947.5 | ||||
| VTN | FEDGVLDPDYPR | 711.8 | 875.4 | 647.3 | ||||
| VTN | GQYC[+57.0]YELDEK | 652.8 | 1119.5 | 956.4 | 796.4 | |||
Note - # 15N labeled peptides originating from 15N-APOA-I. Protein abbreviation, protein name: ALB, serum albumin; APOA1, apolipoprotein A-I; APOA2, apolipoprotein A-II; APOA4, apolipoprotein A-IV; APOA5, apolipoprotein A-V; APOB, apolipoprotein B; APOC1, apolipoprotein C-I; APOC2, apolipoprotein C-II; APOC3, apolipoprotein C-III; APOC4, apolipoprotein C-IV; APOD, apolipoprotein D; APOE, apolipoprotein E; APOF, apolipoprotein F; APOH, apolipoprotein H; APOL1, apolipoprotein L-1; APOM, apolipoprotein M; C3, complement C3; C4A, complement C4A; CETP, cholesterol ester transfer protein; CLU, clusterin (apolipoprotein J); HBB, hemoglobin beta; HP, haptoglobin; HPR, haptoglobin related protein; IHH, Indian hedgehog protein; LCAT, Phosphatidylcholine-sterol acyltransferase; LPA, lipoprotein a; LpPLA2, Lipoprotein-Associated Phospholipase A2; PCYOX1, prenylcysteine oxidase 1; PLTP, phospholipid transfer protein; PON1, paraoxonase 1; PON3, paraoxonase 3; RBP4, retinol binding protein 4; SAA1/2, serum amyloid A1/2; SAA4, serum amyloid A4; SERPINA1, serpin A1 (alpha-1-antitrypsin); SERPINA4, serpin A4 (kallistatin); VDBP, vitamin D binding protein; VTN, vitronectin.