Purifications of TAP-tagged proteins from M. tuberculosis were performed under low-salt conditions as described (66). The following changes were made to the protocol: 100 μl of packed Ni-NTA beads and 100 μl of M2 anti-FLAG affinity gel were used; 100 μl of 100 μM 3 × FLAG peptide was used for the final elution. For capturing RucTAP interactions with other M. tuberculosis proteins, M. tuberculosis lysates were incubated at 45°C for 10 min either in the absence (Fig. 5C, lane 1) or presence (Fig. 5C, lane 2) of 2 mM H2O2 and 50 μM CuCl2; purifications were subsequently performed as described above. Samples were boiled in 4× reducing SDS sample buffer prior to running SDS-PAGE gels.
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