The invention relates to the technical field of a mass spectrometer ionization device, and particularly relates to an ion source of a proton transfer mass spectrometer, which comprises an insulating medium cavity, a repulsion electrode, a gas inlet, a radio frequency coil, a leading-out electrode, an injection port and an ion funnel type drift tube, wherein the upper end of the insulating medium cavity is sealed, the lower end of the insulating medium cavity is opened, and the opened end is connected with the leading-out electrode; the radio frequency coil surrounds at the periphery of the middle of the insulating medium cavity; the repulsion electrode is arranged inside the sealed end of the insulating medium cavity; the insulating medium cavity is inserted into the upper end of the ion funnel type drift tube and sealed; and the central axis of the insulating medium cavity is coaxial with the central axis of the leading-out electrode. According to the ion source of the proton transfer mass spectrometer, the ionization efficiency, the ion transmission efficiency and leading-out efficiency of an ionization source are improved, so that the sensitivity of the mass spectrometer is improved.