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Legends

Legends. For ETD data In the spectra v = precursor ions, charge-reduced ones too; * = charge-reduced ion from a coeluting precursor ion with different, usually (2+), charge; m = neutral sugar losses In the sequences residue in bold = corresponding z . or z+1 ion detected;

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Legends

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  1. Legends For ETD data In the spectra • v = precursor ions, charge-reduced ones too; • * = charge-reduced ion from a coeluting precursor ion with different, usually (2+), charge; • m = neutral sugar losses In the sequences • residue in bold = corresponding z.or z+1 ion detected; • residue underlined = corresponding c or c-1. ion detected; For both HCD and ETD data The Table following the spectra contains all the masses used in the database search (Protein Prospector uses the 20 most abundant ions from each half of the spectra) as well as their assignments

  2. SERPINA3-6 A2I7N2 Thr-31 v 541.9304 (3+) v v * m LPENVT(HexNAc)PEEQHK

  3. SERPINA11 protein A5PK77 Identification from HCD, site assignment from ETD Thr-387 v 630.6404 (3+) v v * SLNAT(HexNAc)SAPHAGFNRPF

  4. CCDC80 protein A5PKA3 Thr-89 v 515.6072(3+) v v m * VAHAT(HexNAc)APPASLGIH

  5. ADAMTSL4 protein A6QLD8 Thr-605 v 780.0562(3+) m * QYVISSPPPNLENPT(HexNAc)PEPR

  6. Uncharacterized protein Similar to Collagen alpha-3(VI) chain E1BB91 From Orbitrap Elite Thr-2929 v 557.3142(3+) v * v TAT(HexNAc)ARPAAAAKPAAAK

  7. Uncharacterized protein Similar to Hepatocyte growth factor activator E1BCW0 Thr-355, Thr-360 & Thr-365 v 945.4916(3+) m v * IQPPPT(HexNAc)EALLT(HexNAc)LPGPT(HexNAc)AAGPAGR

  8. Uncharacterized protein Similar to human Interleukin-18-binding protein E1BI67 Ser-50 v 547.9600(3+) v * v APC(Carbamidomethyl)S(HexNAc)SRPLALPAAK

  9. Uncharacterized protein Similar to human Polypeptide N-acetylgalactosaminyltransferase 5 E1BKQ9 Thr-429 v 472.5819(3+) v * v IDAT(HexNAc)LSPRDPK

  10. Uncharacterized protein Similar to human Basement membrane-specific heparan sulfate proteoglycan core protein F1MER7 Thr-3374 v 954.8297(3+) m v * GPSGSLPAT(HexNAc)PAPAGSAPTVQVTPQLETK

  11. Uncharacterized protein Similar to human Protein AMBP F1MMK9 Thr-198 v 676.3133(3+) cmCys! m * GEC(Carbamidomethyl)VPGEQDPVPT(HexNAc)PVSR

  12. Uncharacterized protein Similar to human Gelsolin F1N1I6 Thr-27 & Thr-34 v 572.6365(3+) v v * LAT(HexNAc)PARPGAT(HexNAc)QAR

  13. Uncharacterized protein Similar to human Gelsolin F1N1I6 Thr-44 v 558.0357(4+) v v VT(HexNAc)EARPGSMVVEHPEFLK

  14. Tenascin-X O18977 Thr-3146 or Thr-3147 v v 635.6015(4+) v RVGPASTVGVTASLT(HexNAc)TERPLAPR

  15. The green assignments indicate glycosylation of Thr-1346.

  16. Prothrombin P00735 Thr-193 v 844.7391(3+) v * EEC(Carbamidomethyl)SVPVC(Carbamidomethyl)GQDRVT(HexNAc)VEVIPR

  17. Prothrombin P00735 Thr-205 v 732.3419(3+) v * m SGGSTT(HexNAc)SQSPLLETC(Carbamidomethyl)VPDR

  18. Fragments in blue support the site assignment

  19. Prothrombin P00735 Thr-205 & Ser-206, mixture! v 803.3839(3+) v * SGGSTTS(HexNAc)QSPLLETC(Carbamidomethyl)VPDRGR

  20. The blue assignments indicate Thr-205 as the modification site, the green fragments identify Ser-206 glycosylated.

  21. Complement C4 P01030 Thr-420 v 987.8339(3+) v m DIGDKLYWGSVTTSPSNVLSPT(HexNAc)PAPR

  22. Fragments in green identify Ser-418 as the modification site, fragments in blue place the carbohydrate on Thr-420. HCD data also confirm the site as Thr-420: y6 was detected modified.

  23. Kininogen-1 P01044 Thr-586 v 555.9546(3+) m v v m KLISDFPET(HexNAc)TSPK

  24. Fibrinogen alpha chain P02672 Thr-464 v 493.2675(3+) * VITKTVT(HexNAc)NADGR

  25. Fibrinogen alpha chain P02672 Thr-525 v 665.6400(3+) v m v * SSHEFDGRT(HexNAc)GLAPEFAA

  26. Plasminogen P06868 Thr-366 v 883.9084(2+) v TIPSC(Carbamidomethyl)ESSPLST(HexNAc)ER

  27. Plasminogen P06868 Thr-378 v 1025.4580(3+) v m MDVPVPPEQT(HexNAc)PVPQDC(Carbamidomethyl)YHGNGQSYR

  28. Vitamin K-dependent protein S P07224 Thr-104 v 584.6357(3+) v TAARLST(HexNAc)NAYPDLR

  29. Insulin-like growth factor 2 P07456 Thr-99 (& Thr-106) v 814.3936(3+) m DVSASTT(HexNAc)VLPDDVT(HexNAc)AYPVGK

  30. Insulin-like growth factor 2 P07456 (Ser-154, Thr-163 &) Thr-168 v 570.8846(5+) v v v m S(HexNAc)HRPLIALPT(HexNAc)QDPAT(HexNAc)HGGASSK

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