HPLC of peptides and whole proteins. The bar indicates either cross-linked proteins or peptides depending on the run. Signal evaluated at 280 nm for A and 260 nm for B–E. Fractions were collected manually, and each fraction from B–E was analyzed by MALDI-TOF to determine which fractions were cross-linked. A, representative separation of cross-linked and non-cross-linked whole troponin subunits. The dark line represents whole troponin complex cross-linked for 30 min and separated by C4 (4.6 × 150 mm) reversed-phase HPLC, and the light line is non-cross-linked negative control. I, troponin I; T, troponin T; C, troponin C; I+I, intramolecular cross-link of troponin I; I+T, intermolecular cross-link of troponin I and T; I+C, intermolecular cross-link of troponin I and C. B, the dark line intramolecular cross-link of the troponin I mutant S5C digested with Arg-C and separated by C18 (0.3 × 150 mm) reversed-phase capillary HPLC, and the light line is non-cross-linked negative control. C, the dark line intermolecular cross-link of the troponin I mutant S5C to troponin C digested sequentially with trypsin and Glu-C and separated by C18 (0.3 × 150 mm) reversed-phase capillary HPLC, and the light line is the enzymes-only control. D, the dark line intramolecular cross-link of the troponin I mutant I19C digested with Arg-C and separated by C18 (0.3 × 150 mm) reversed-phase capillary HPLC, and the light line is non-cross-linked negative control. E, dark line intermolecular cross-links of the troponin I mutant I19C to troponin C digested sequentially with trypsin and Glu-C and separated by C18 (0.3 × 150 mm) reversed-phase capillary HPLC, and the light line is the enzymes-only control.