The Nyainqentanglha Group of the western part of the Lhasa terrane, distributed along the Shiquanh-Shenzha-Jiali ophiolite m lange and its vicinity, has been traditionally grouped as the Precambrian metamorphic basement. Detailed petrology, geochemistry, structural geology and zircon U-Pb dating were conducted in this study. The results show that characteristic metamorphic minerals, such as schist, gneiss and leptynite suite follows the granularity differentiation rules, suggesting the protolith of the rocks is likely turbidite deposited in active continental margin of Neoproterozoic arc-basin system in the north margin of Gondwana nucleus. Amphibolites are characterized by low Si, high Fe and Mg and Ca, indicating its island-arc type mafic volcanic rock in origin. Granite pegmatite (P37RZ1) of the Nyainqentanglha Group has a LA-ICPMS U-Pb age of 1150±13 Ma, and is of peraluminous affinity to S-type granite, representing the basement rock of the Nyainqentanglha Group started to deposit due to partial melting before the mesoproterozoic (1150±13 Ma). The formation of the granite pegmatite is considered to be associated with the tectonothermal event during the Grenville orogeny. In contrast, the plagioclase gneiss (P38RZ2) has two types of zircons, namely the recrystallization one and the altered one by hydrothermal melt. The first group zircons yield a weighted mean age of 701±15 Ma, indicating a HP-MT amphibolite facies metamorphism during the disperse of the Rodinia supercontinent and/or the assemblage of the Gondwana landmass. The zircons in the second group yield a weighted mean age of 301±8.4 Ma, which is likely related to with the magmatic hydrothermal process derived from the Paleo-Tethys evolution along the northern margin of the Gondwana landmass.