Temperature rise subjected to the copper losses and iron losses is an important issue for a magnetically suspended turbomolecular pump (MSTMP). In this study, the loss estimation, thermal analysis, and temperature rise measurement of a large‐scale MSTMP are investigated. The copper losses and the iron core losses of two radial magnetic bearings, a thrust magnetic bearing, and a brushless direct current motor (BLDCM) are predicted by the analytical models. Based on the predicted loss values, the heat generation rates in the different parts of the large‐scale MSTMP are calculated, then the thermal field of the prototype is analysed by the 3D finite‐element model. The maximum temperatures estimated for the rotor part and stator part are located at the rotor sleeve and the winding end of BLDCM, which are 68.5 and 55.2 °C, respectively. The loss calculation and thermal field prediction is validated by the temperature rise test in a prototype of large‐scale MSTMP with pumping speed of 4100 L/s, ultimate vacuum of 1.8 × 10−7 Pa, and rated speed of 21,000 r/min. The maximum error between the estimated and the measured temperature rise values is <5%.