TABLE 2.
Identified INTER-peptide BS3 cross-links in isolated lipid-free apoA-IΔ185–243 monomeric and dimeric samples derived from mixed 14N- and 15N-labeled proteins
| Cross-link | Peptides involveda | Mod.b | Samplec | Peptide massc |
Span | |||||
|---|---|---|---|---|---|---|---|---|---|---|
| 14N | 14N/15N | 15N/14N | 15N | |||||||
| Da | ||||||||||
| Lys118-Ser142 | 117QKVEPLR123 | XL | M | 2037.12 | NDd | ND | 2061.06 | Intra | ||
| 141LSPLGEEMR149 | D | ND | ND | ND | ND | ND | ||||
| Lys118–Lys133 | 117QKVEPLR123 | XL | M | 2158.25 | 2185.17 | Intra | ||||
| 132QKLHELQEK140 | D | 2158.24 | 2170.21 | 2173.20 | 2185.17 | Inter | ||||
| NT–Lys182 | −1GDEPPQSPWDR10 | XL | M | 2236.10 | ND | ND | 2261.03 | Intra | ||
| 178LEALKEN184 | D | ND | ND | ND | ND | ND | ||||
| NT–Lys118 | −1GDEPPQSPWDR10 | XL | M | ND | ND | ND | ND | ND | ||
| 117QKVEPLR123 | D | 2289.17 | 2301.13 | 2305.12 | 2317.07 | Inter | ||||
| Lys12–Lys182 | 11VKDLATVYVDVLK23 | XL | M | 2415.39 | ND | ND | 2439.32 | Intra | ||
| 178LEALKEN184 | D | ND | ND | ND | ND | ND | ||||
| Lys107–Lys118 | 107KWQEEMELYR116 | XL | M | 2417.28 | ND | ND | 2445.20 | Intra | ||
| 117QKVEPLR123 | D | 2417.27 | ND | ND | 2445.19 | Intra | ||||
| Lys12–Lys118 | 11VKDLATVYVDVLK23 | XL | M | ND | ND | ND | ND | ND | ||
| 117QKVEPLR123 | D | 2468.46 | 2480.42 | 2483.42 | 2495.38 | Inter | ||||
| NT–Lys107 | −1GDEPPQSPWDR10 | XL | M | ND | ND | ND | ND | ND | ||
| 107KWQEEMELYR116 | D | 2831.32 | 2847.28 | 2847.28 | 2863.25 | Inter | ||||
| NT–Lys12 | −1GDEPPQSPWDR10 | XL | M | 2882.52 | ND | ND | 2913.43 | Intra | ||
| 11VKDLATVYVDVLK23 | D | 2882.50 | ND | ND | 2913.42 | Intra | ||||
| Lys96–Ser167 | 95AKVQPYLDDFQK106 | XL | M | 2889.50 | 2921.41 | Intra | ||||
| 161THLAPYSDELR171 | D | 2889.49 | 2905.45 | 2905.45 | 2921.41 | Inter | ||||
| Lys118–Lys140 | 117QKVEPLR123 | XL | M | ND | ND | ND | ND | ND | ||
| 134LHELQEKLSPLGEEMR149 | D | 2914.60 | 2926.55 | 2937.53 | 2949.50 | Inter | ||||
| Lys118–Ser142 | 117QKVEPLR123 | XL | M | ND | ND | ND | ND | ND | ||
| 134LHELQEKLSPLGEEMR149 | D | 2914.60 | 2926.55 | 2937.53 | 2949.50 | Inter | ||||
| Lys88–Lys96 | 84QEMSKDLEEVK94 | XL | M | 2923.50 | ND | ND | 2953.41 | Intra | ||
| 95AKVQPYLDDFQK106 | D | 2923.49 | ND | ND | 2953.41 | Intra | ||||
| Lys40–Lys118 | 28DYVSQFEGSALGKQLNLK45 | XL | M | ND | ND | ND | ND | ND | ||
| 117QKVEPLR123 | D | 3002.65 | 3014.62 | 3025.55 | 3037.54 | Inter | ||||
| Lys118–Lys140 | 117QKVEPLR123 | XL, H | M | 3326.85 | ND | ND | 3365.74 | Intra | ||
| 132QKLHELQEKLSPLGEEMR149 | D | ND | ND | ND | ND | ND | ||||
| NT–Lys23 | −1GDEPPQSPWDR10 | XL, H | M | 3453.79 | ND | ND | 3491.68 | Intra | ||
| 11VKDLATVYVDVLKDSGR27 | D | 3453.77 | ND | ND | 3491.67 | Intra | ||||
| Lys77–Lys182 | 62EQLGPVTQEFWDNLEKETEGLR83 | XL | M | 3570.84 | ND | ND | 3609.73 | Intra | ||
| 178-LEALKEN-184 | D | ND | ND | ND | ND | ND | ||||
| NT–Lys140 | −1GDEPPQSPWDR10 | XL, H | M | ND | ND | ND | ND | ND | ||
| 132QKLHELQEKLSPLGEEMR149 | D | 3740.87 | 3756.79 | 3767.81 | 3783.76 | Inter | ||||
| NT–Lys77 | −1GDEPPQSPWDR10 | XL | M | 4037.97 | ND | ND | 4083.85 | Intra | ||
| 62EQLGPVTQEFWDNLEKETEGLR83 | D | 4037.95 | ND | ND | 4083.82 | Intra | ||||
| Lys23–Lys59 | 11VKDLATVYVDVLKDSGR27 | XL, H | M | 4052.22 | ND | ND | 4096.09 | Intra | ||
| 46LLDNWDSVTSTFSKLR61 | D | 4052.19 | ND | ND | 4096.07 | Intra | ||||
| Lys40–Lys140 | 28DYVSQFEGSALGKQLNLK45 | XL, H | M | 4454.38 | ND | ND | 4504.24 | Intra | ||
| 132QKLHELQEKLSPLGEEMR149 | D | 4454.35 | ND | ND | 4504.22 | Intra | ||||
| Lys88–Lys106 | 95AKVQPYLDDFQKKWQEEMELYR116 | XL, H, H | M | 4628.35 | ND | ND | 4674.21 | Intra | ||
| 84QEMSKDLEEVK94 | D | NDd | ND | ND | ND | ND | ||||
a Lysines or serines involved in cross-links are in bold type.
b Mod., chemical modifications; XL, one complete cross-link (+138.068 Da); H, one hydrolyzed cross-linker (+156.079 Da).
c Experimentally derived monoisotopic mass for each peptide with each isotope and the combinations.
d ND, not detected. These ions were detectable in one sample (i.e. monomer or dimer) but not in the other.