We present ALMA deep observations of the [CII] 158 μm emission line and the continuum at 253 GHz and 99 GHz towards SDSS J0100+2802 at z ≃ 6.3, the most luminous quasi-stellar object (QSO) at z > 6. J0100+2802 belongs to the HYPERION sample of luminous QSOs at z ∼ 6 − 7.5. The observations have a 2.2 arcsec resolution in band 3 and a 0.9 arcsec resolution in band 6, and are optimized to detect extended emission around the QSO. We detect an interacting, tidally disrupted companion both in [CII], peaking at z ∼ 6.332, and in continuum, stretching on scales up to 20 kpc from the quasar, with a knotty morphology. The higher velocity dispersion in the direction of the companion emission and the complex morphology of the tidally stretched galaxy suggest a possible ongoing or future merger. For the newly detected companion, we derive the range of the dust mass, M_dust = (0.3 − 2.6)×10⁷ M_⊙, and of the star formation rate, SFR = [35 − 344] M_⊙, obtained from the modelling of its cold dust spectral energy distribution. This shows that both the QSO and its companion are gas-rich and that a major merger may be at the origin of the boosted star formation. This close interacting companion is undetected by deep JWST imaging observations, showing the effectiveness of ALMA in detecting dust-obscured sources, especially in the vicinity of optically bright quasars. We also detect a broad blueshifted component in the [CII] spectrum, which we interpret as a gaseous outflow for which we estimate a mass outflow rate in the range Ṁ_out = (118 − 269) M_⊙ yr⁻¹. J0100+2802 was recently found to reside in a strong overdensity, however this close companion remained undetected by both previous higher resolution ALMA observations and by JWST-NIRCAM imaging. Our results highlight the importance of deep medium-resolution ALMA observations for the study of QSOs and their environment in the Epoch of Reionisation.