Table III. Qualitative analysis of glycoproteins from the periplasmic protein extracts of C. jejuni 11168 (wt) and the isogenic pglD mutant.
| Accession number | Gene name | Protein name | Precursora | z | Sequences of identified glycopeptidesb | Oligosaccharide compositionc | Ion scored | Sequence coverage | RT |
|---|---|---|---|---|---|---|---|---|---|
| m/z | % | min | |||||||
| YP_002343627 | Cj0168c | Putative periplasmic protein | 940.14 | 3 | (F)ANTPSDVNQTHTK(A) | BacGalNAc5Glc | 23 | 16.0 | |
| ″ | ″ | ″ | 926.14 | 3 | ″ | deAcBacGalNAc5Glc | 79 | 15.2 | |
| NP_281430 | Cj0235c | Protein export membrane protein | 1035.21 | 3 | (N)SIAPSAPQLPSDVNSSK(−) | BacGalNAc5Glc | 14 | 24.8 | |
| ″ | ″ | ″ | 1021.20 | 3 | ″ | deAcBacGalNAc5Glc | 55 | 23.6 | |
| YP_002343658 | Cj0200c | Putative periplasmic protein | 962.14 | 3 | (K)LEGTIAQIYDNNK (T) | BacGalNAc5Glc | 11 | 25.8 | |
| ″ | ″ | ″ | 948.14 | 3 | ″ | deAcBacGalNAc5Glc | 97 | 24.2 | |
| CAL34323 | Cj0152c | Hypothetical protein | 1231.31 | 3 | (K)NISIENNISENNTTLLDEEK(N) | BacGalNAc5Glc | 6 | 27.2 | |
| ″ | ″ | ″ | 1218.64 | 3 | ″ | deAcBacGalNAc5Glc | 66 | 27.0 | |
| YP_002345038 | Cj1670c | Putative membrane protein or CgpAe | 1036.22 | 3 | (K)TDQNITLVAPPEFQK(E) | BacGalNAc5Glc | 7 | 29.2 | |
| ″ | ″ | ″ | 1022.22 | 3 | ″ | deAcBacGalNAc5Glc | 57 | 27.4 | |
| YP_002343574 | Cj0864 | Putative periplasmic protein | 1058.10 | 3 | (K)DoxiMNVSK(A) | BacGalNAc5Glc | 49 | 5 | 19.7 |
| ″ | ″ | ″ | 1037.10 | 3 | ″ | deAcBacGalNAc5Glc | |||
| YP_002344271 | Cj0114 | Putative periplasmic protein | 1133.05 | 4 | (K)TITPSVVVSTTDSNSTIENNNTQNTQDDK(A) | BacGalNAc5Glc | 26 | 25.6 | |
| ″ | ″ | ″ | 1122.55 | 4 | ″ | deAcBacGalNAc5Glc | 72 | 24.5 | |
| ″ | ″ | Putative periplasmic protein | 1295.35 | 3 | (R)LSQVEENNQNIENNFTSEIQK(L) | BacGalNAc5Glc | 60 | 27.5 | |
| ″ | ″ | ″ | 1281.40 | 3 | ″ | deAcBacGalNAc5Glc | 25.6 | ||
| YP_002344190 | Cj0783 | Periplasmic nitrate reductase cytochrome c-type subunit | 1692.12 | 2 | (K)VNLVEANFTTLQPGESTR(F) | BacGalNAc5Glc | 41 | 10 | 29.7 |
| ″ | ″ | ″ | 1671.12 | 2 | ″ | deAcBacGalNAc5Glc |
a The m/z and charge of precursors (MS2 fragments) for acquisition of MS3 spectra are provided in supplemental Fig. S2.
b The periplasmic protein, Cj0114, is identified by two peptides, and all other glycoproteins identified are single-peptide-based.
c Bac, 2,4-diacetamido-2,4,6-trideoxyglucopyronose; deAcBac, 2-acetamido-4-amino-2,4,6-trideoxyglucopyronose, i.e. deAcBac is monoacetylated Bac at the C-2 position only (30, 39, 40). The consensus sequence of possible N-glycosylation sites for prokaryotic proteins are highlighted (32). oxiM, oxidized methionine; wt, wild-type; ″, the same as above.
d Ion scores are available only for precursors on which MS3 were acquired and used for database searches with 0.00% false positive rate.
e According to Linton et al. (41).