Table 2.
Deiminated proteins in pre-motor PD rat plasma (Rattus norvegicus), as identified by F95-enrichment and LC-MS/MS analysis. Deiminated proteins from pre-motor PD rat plasma were isolated by immunoprecipitation using the pan-deimination F95 antibody. The resulting F95-enriched eluate was then analysed by LC-MS/MS and peak list files submitted to mascot. Rattus norvegicus species-specific peptide sequence hits are listed, showing number of sequences for protein hits and total score. Pink highlighted rows indicate protein hits identified in pre-motor PD plasma but not sham-treated rat plasma.
| Protein Name | Symbol | Sequences | Total Score (p < 0.05) ⱡ |
|---|---|---|---|
| Complement C3 | M0RBF1_RAT | 89 | 5530 |
| Alpha-1-macroglobulin | A1M_RAT | 74 | 4911 |
| Alpha-1-inhibitor 3 | A1I3_RAT | 59 | 3845 |
| Fibronectin | A0A096P6L8_RAT | 64 | 3722 |
| Murinoglobulin-1 | MUG1_RAT | 57 | 3618 |
| Serum albumin | ALBU_RAT | 56 | 3564 |
| Serum albumin | A0A0G2JSH5_RAT | 56 | 3550 |
| Fibrinogen beta chain | FIBB_RAT | 53 | 3399 |
| Serotransferrin | TRFE_RAT | 53 | 3384 |
| Ac1873 | Q7TQ70_RAT | 56 | 3317 |
| Isoform Gamma-A of Fibrinogen gamma chain | FIBG_RAT | 31 | 2185 |
| Similar to histidine-rich glycoprotein | A0A0G2K9Y5_RAT | 38 | 2137 |
| Kininogen-1 | KNG1_RAT | 33 | 1981 |
| Complement C2 | Q6MG73_RAT | 30 | 1875 |
| Ceruloplasmin | A0A0G2K9I6_RAT | 32 | 1816 |
| Complement factor H | G3V9R2_RAT | 28 | 1570 |
| Kallikrein B, plasma 1 | Q5FVS2_RAT | 27 | 1552 |
| Ig gamma-2C chain C region | IGG2C_RAT | 21 | 1447 |
| Complement factor B | A0A0U1RRP9_RAT | 24 | 1405 |
| Hemopexin | HEMO_RAT | 25 | 1388 |
| Keratin, type II cytoskeletal 5 | K2C5_RAT | 24 | 1284 |
| Uncharacterized protein | G3V9J1_RAT | 22 | 1197 |
| Inter alpha-trypsin inhibitor, heavy chain 4 | Q5EBC0_RAT | 22 | 1192 |
| Carboxypeptidase N catalytic chain | CBPN_RAT | 18 | 1172 |
| Uncharacterized protein | A0A0G2JVP4_RAT | 18 | 1133 |
| Ig gamma-2A chain C region | IGG2A_RAT | 16 | 1108 |
| Complement C4 | CO4_RAT | 20 | 1070 |
| Carboxypeptidase N subunit 2 | F1LQT4_RAT | 19 | 1042 |
| Plasminogen | PLMN_RAT | 20 | 1001 |
| Apolipoprotein A-IV | APOA4_RAT | 17 | 989 |
| Uncharacterized protein | A0A0G2JZW1_RAT | 13 | 980 |
| Inter-alpha trypsin inhibitor, heavy chain 1 | B2RYM3_RAT | 18 | 960 |
| Complement C5 | A0A096P6L9_RAT | 21 | 959 |
| Apolipoprotein E | A0A0G2K151_RAT | 13 | 813 |
| Keratin, type I cytoskeletal 14 | K1C14_RAT | 14 | 779 |
| Complement C4B (Chido blood group) | Q6MG90_RAT | 13 | 769 |
| Ab1-233 | A0A0G2JYK0_RAT | 14 | 760 |
| Inter-alpha-trypsin inhibitor heavy chain 2 | D3ZFH5_RAT | 15 | 755 |
| Uncharacterized protein | F1LTJ5_RAT | 14 | 735 |
| Serine protease inhibitor A3L | SPA3L_RAT | 14 | 734 |
| Serine protease inhibitor A3K | SPA3K_RAT | 12 | 685 |
| Keratin, type I cytoskeletal 42 | K1C42_RAT | 12 | 660 |
| Uncharacterized protein | A0A0G2K477_RAT | 11 | 656 |
| Haptoglobin | A0A0H2UHM3_RAT | 14 | 650 |
| Keratin, type I cytoskeletal 17 | A0A0G2K9Q9_RAT | 14 | 634 |
| Alpha-1-antiproteinase | A0A0G2JY31_RAT | 11 | 613 |
| Inter-alpha-trypsin inhibitor heavy chain H3 | D3ZBS2_RAT | 13 | 610 |
| Selenoprotein P | SEPP1_RAT | 9 | 590 |
| C-type lectin domain family 11 member | CLC11_RAT | 12 | 587 |
| Uncharacterized protein | M0RA79_RAT | 10 | 571 |
| Apolipoprotein A-I | APOA1_RAT | 10 | 558 |
| C-reactive protein | CRP_RAT | 7 | 554 |
| Coagulation factor XII | A0A0H2UI19_RAT | 11 | 550 |
| Ig kappa chain C region, A allele | KACA_RAT | 7 | 536 |
| Uncharacterized protein | F1M3X3_RAT | 9 | 536 |
| Insulin-like growth factor binding protein, acid labile subunit, isoform CRA_b | F1LRE2_RAT | 9 | 529 |
| Kininogen-1 | A0A0G2JVQ5_RAT | 9 | 524 |
| Uncharacterized protein | F1LXY6_RAT | 7 | 507 |
| Keratin 16 | Q6IFU9_RAT | 9 | 504 |
| Uncharacterized protein | A0A0G2K828_RAT | 7 | 500 |
| Keratin, type II cytoskeletal 75 | A0A0H2UHH5_RAT | 9 | 496 |
| Uncharacterized protein | D4ACR1_RAT | 8 | 471 |
| Apolipoprotein B-100 | F1M6Z1_RAT | 12 | 457 |
| Keratin, type II cytoskeletal 6A | K2C6A_RAT | 9 | 446 |
| Keratin, type II cytoskeletal 8 | K2C8_RAT | 8 | 435 |
| Apolipoprotein H | Q5I0M1_RAT | 9 | 435 |
| Uncharacterized protein | D3ZZ08_RAT | 7 | 433 |
| Ig gamma-2B chain C region | IGG2B_RAT | 8 | 433 |
| Carboxylesterase 1C | EST1C_RAT | 8 | 431 |
| Hemoglobin subunit alpha-1/2 | HBA_RAT | 8 | 411 |
| Angiopoietin-like 6 | B2RYM1_RAT | 8 | 407 |
| Alpha-2-HS-glycoprotein | FETUA_RAT | 8 | 403 |
| Uncharacterized protein | M0R9U2_RAT | 6 | 403 |
| Hemoglobin subunit beta-1 | HBB1_RAT | 6 | 380 |
| Uncharacterized protein | A0A0G2K290_RAT | 6 | 378 |
| Uncharacterized protein | F1LZ11_RAT | 7 | 373 |
| Ig lambda-2 chain C region | LAC2_RAT | 6 | 340 |
| Uncharacterized protein | M0RAB8_RAT | 5 | 330 |
| Fetub protein | Q6IRS6_RAT | 7 | 314 |
| Uncharacterized protein | D4A3D1_RAT | 5 | 312 |
| Afamin | G3V9R9_RAT | 7 | 312 |
| Keratin, type I cytoskeletal 19 | K1C19_RAT | 7 | 308 |
| Uncharacterized protein | A0A0G2JUY4_RAT | 5 | 307 |
| Uncharacterized protein | M0RDF2_RAT | 5 | 281 |
| Uncharacterized protein | M0RBK4_RAT | 3 | 272 |
| Uncharacterized protein | A0A0G2JY98_RAT | 4 | 268 |
| Uncharacterized protein | A0A0G2JXP0_RAT | 4 | 257 |
| Extracellular matrix protein 1 | ECM1_RAT | 5 | 255 |
| Group specific component | Q68FY4_RAT | 6 | 247 |
| Desmoplakin | F1LMV6_RAT | 6 | 244 |
| Vitronectin | Q3KR94_RAT | 6 | 233 |
| Uncharacterized protein | M0RAV0_RAT | 3 | 225 |
| Peptidoglycan recognition protein 2 | M0R485_RAT | 5 | 220 |
| Uncharacterized protein | A0A0G2K7I1_RAT | 2 | 211 |
| Uncharacterized protein | A0A0G2JW41_RAT | 2 | 210 |
| Uncharacterized protein | A0A0G2K7P6_RAT | 3 | 204 |
| Glutathione peroxidase | A0A0G2K531_RAT | 4 | 201 |
| Uncharacterized protein | A0A0G2JTG4_RAT | 3 | 200 |
| Uncharacterized protein | F1LVL4_RAT | 3 | 199 |
| C4b-binding protein alpha chain | C4BPA_RAT | 6 | 196 |
| RCG21066 | D3ZJW6_RAT | 4 | 194 |
| Alpha-2-macroglobulin | A2MG_RAT | 4 | 194 |
| Uncharacterized protein | A0A0G2K304_RAT | 4 | 193 |
| Uncharacterized protein | A0A0G2K4I8_RAT | 4 | 188 |
| Uncharacterized protein | M0R693_RAT | 4 | 187 |
| Complement C1q subcomponent subunit B | G3V7N9_RAT | 3 | 186 |
| T-kininogen 1 | KNT1_RAT | 4 | 174 |
| Uncharacterized protein | A0A0G2K332_RAT | 3 | 169 |
| Protein AMBP | AMBP_RAT | 2 | 169 |
| Uncharacterized protein | A0A0G2JZV7_RAT | 3 | 164 |
| Uncharacterized protein | A0A0G2JXB7_RAT | 4 | 161 |
| Uncharacterized protein | M0RD98_RAT | 2 | 161 |
| Junction plakoglobin | PLAK_RAT | 2 | 154 |
| Actin, cytoplasmic 1 | A0A0G2K3K2_RAT | 3 | 153 |
| Uncharacterized protein | A0A0G2JV42_RAT | 2 | 153 |
| Uncharacterized protein | F1M7B3_RAT | 2 | 151 |
| Uncharacterized protein | A0A0G2K245_RAT | 2 | 150 |
| Uncharacterized protein | M0R4Z4_RAT | 3 | 142 |
| Uncharacterized protein | F1M1R0_RAT | 2 | 138 |
| Uncharacterized protein | F1LYF1_RAT | 2 | 134 |
| Complement C8 gamma chain | D3ZPI8_RAT | 2 | 134 |
| Uncharacterized protein | D3ZC54_RAT | 2 | 133 |
| Uncharacterized protein | F1M3E9_RAT | 3 | 132 |
| CD5 antigen-like | Q4KM75_RAT | 2 | 129 |
| Collagen type XVIII alpha 1 chain | F1LR02_RAT | 2 | 128 |
| Serpin family F member 2 | F7FHF3_RAT | 2 | 126 |
| Uncharacterized protein | M0R628_RAT | 2 | 124 |
| Uncharacterized protein | G3V8Z5_RAT | 3 | 118 |
| Uncharacterized protein | F1LZH0_RAT | 2 | 117 |
| Ab1-233 | A0A0H2UHI5_RAT | 2 | 105 |
| Papilin, proteoglycan-like sulfated glycoprotein | D3ZD40_RAT | 3 | 104 |
| Uncharacterized protein | A0A0G2K3K8_RAT | 2 | 104 |
| Uncharacterized protein | F1LWS4_RAT | 3 | 103 |
| Uncharacterized protein | D3ZPL2_RAT | 1 | 101 |
| Uncharacterized protein | D4A4L6_RAT | 2 | 101 |
| Uncharacterized protein | M0R816_RAT | 1 | 99 |
| Glutamine synthetase | GLNA_RAT | 3 | 99 |
| Uncharacterized protein | A0A0G2K5D2_RAT | 2 | 98 |
| Uncharacterized protein | F1M663_RAT | 1 | 96 |
| Uncharacterized protein | M0R8G6_RAT | 1 | 93 |
| Uncharacterized protein | M0R8Q4_RAT | 1 | 91 |
| Uncharacterized protein | F1LWD0_RAT | 2 | 91 |
| Similar to RIKEN cDNA | A0A0G2K896_RAT | 2 | 86 |
| Uncharacterized protein | M0R5A0_RAT | 2 | 83 |
| Uncharacterized protein | F1M5L5_RAT | 2 | 77 |
| Uncharacterized protein | D3ZFF8_RAT | 2 | 75 |
| Uncharacterized protein | A0A0G2K4K2_RAT | 2 | 73 |
| Prothrombin | G3V843_RAT | 2 | 73 |
| Uncharacterized protein | M0R7Q2_RAT | 2 | 69 |
| Uncharacterized protein | A0A096P6M7_RAT | 1 | 65 |
| Tripartite motif-containing 33 | D3ZUK4_RAT | 2 | 65 |
| Uncharacterized protein | M0R8B5_RAT | 1 | 61 |
| Uncharacterized protein | M0R4C5_RAT | 1 | 60 |
| Ig kappa chain V region S211 | KVX01_RAT | 1 | 59 |
| Uncharacterized protein | F1LTY5_RAT | 1 | 57 |
| Uncharacterized protein | M0R4G1_RAT | 1 | 55 |
| Suprabasin | F7FEM5_RAT | 1 | 53 |
| NADH:ubiquinone oxidoreductase subunit B10 | D4A0T0_RAT | 2 | 52 |
| Complement C1q subcomponent subunit A | C1QA_RAT | 1 | 52 |
| Ciliary rootlet coiled-coil, rootletin | F1M6Q2_RAT | 2 | 52 |
| E3 ubiquitin-protein ligase HUWE1 | A0A0G2JVW5_RAT | 2 | 52 |
| Complement factor properdin | B0BNN4_RAT | 1 | 52 |
| Uncharacterized protein | A0A0G2JX36_RAT | 1 | 51 |
| Tubulin beta-2B chain | TBB2B_RAT | 1 | 51 |
| Uncharacterized protein | A0A0G2K0N6_RAT | 1 | 50 |
| Cadherin-1 | CADH1_RAT | 1 | 46 |
| Caspase 8-associated protein 2 | D4A7V6_RAT | 2 | 46 |
| Phospholipase A2 | A0A0G2JZ44_RAT | 1 | 46 |
| PEX5-related protein | F1LMT5_RAT | 2 | 44 |
| Collectin sub-family member 11 | F1LSS7_RAT | 1 | 44 |
| Oxysterol-binding protein | A0A0G2K0D5_RAT | 2 | 43 |
| Uncharacterized protein | F1M6N0_RAT | 1 | 42 |
| Obscurin-like protein 1 | OBSL1_RAT | 2 | 42 |
| Serum amyloid A protein | Q5M878_RAT | 1 | 41 |
| Proline-rich protein 5 | A0A0H2UHJ6_RAT | 1 | 41 |
| Complement component C9 | F7F389_RAT | 1 | 39 |
| Methyltransferase-like 3 | Q4V8G6_RAT | 1 | 36 |
| Complement C8 alpha chain | D3ZWD6_RAT | 1 | 35 |
| Serine (Or cysteine) peptidase inhibitor, clade C (Antithrombin), member 1 | Q5M7T5_RAT | 1 | 33 |
| Cell cycle checkpoint control protein RAD9B | RAD9B_RAT | 1 | 33 |
| Heparin cofactor 2 | A0A0G2K8K3_RAT | 1 | 33 |
| Histone H4 | H4_RAT | 1 | 33 |
| Uncharacterized protein (Fragment) | A0A096MK45_RAT | 1 | 32 |
| Phosphatidylinositol glycan anchor biosynthesis, class Q | Q642B8_RAT | 1 | 32 |
ⱡ Ions score is −10*Log(P), where P is the probability that the observed match is a random event. Individual ions scores > 31 indicated identity or extensive homology (p < 0.05). Protein scores were derived from ions scores as a non-probabilistic basis for ranking protein hits.