Abstract The Khoy region (NW Iran) is important in the clarification of the structural framework of the alpine belt between the Taurides, the Lesser Caucasus and the NW Iran belt. The area is well-known for these ophiolitic units. We present here new stratigraphic and structural data that can be used to reconstruct the tectonic evolution of this region and then try to establish connections between these belts. According to new dates from nannoplankton assemblages, the obducted ophiolite of the Khoy complex was thrust over a sheared Campanian olistostrome and lenses of amphibolite are included within the contact. The obduction event is also marked by erosion of the ophiolitic unit and the deposition of conglomerates, shales, sandstones and siltstones. Poorly extended Paleocene detrital deposits cover the Campanian–Maastrichtian rocks. The Eocene formations characterize a basin filled with volcanogenic and sedimentary layers. The Middle and Upper Eocene series unconformably overlie the ophiolites and their cover of Campanian–Maastrichtian and Paleocene deposits. This corresponds to a syn-orogenic basin formed after the collision between Eurasia and the Taurides–Anatolides–South Armenian microplate. The Oligocene–Miocene Qom Formation with basal conglomerates unconformably covers all the earlier formations, including the Palaeozoic formations, indicating intense shortening before its deposition. Compressional deformation continued and is manifested by numerous folds, mainly west-dipping thrusts and reverse faults cutting the Qom Formation, and by recent NW–SE dextral strike-slip faults. This illustrates the continuous shortening and uplift (with intense erosion) resulting from the advanced stage of the collision between Arabia and Eurasia. The structural location of the tectonic units suggests that the Khoy Gondwana-related basement was part of the South Armenian Block and that the Khoy allochthonous ophiolites were obducted on it from the Amasia–Stepanavan–Sevan–Hakari suture zone.