The project is meant to modernise Pakistani infrastructure and bolster the country economy by building various transportation networks, energy projects and special economic zones.
This prompted New Delhi to voice protest to Beijing and Islamabad, as India qualifies the move as a violation of its territorial integrity since buses will run through the Jammu and Kashmir region, disputed between India and Pakistan.
China and Pakistan refer to themselves as "all-weather friends", united in their rivalry against mutual neighbour India and entwined in a web of military, political and economic links.
The CPEC involves a host of projects connects China's Xinjiang province with Pakistan's Gwadar port in Balochistan province.
"In 2017, Prime Minister Narendra Modi had said that it is only by respecting the autonomy of countries involved, there can be regional connectivity and avoid differences and disorientation".
Agreements pertaining to poverty alleviation in Pakistan, strengthening cooperation in agriculture and industrial sectors and technical training were signed by the two sides.
The Prime Minister said as the main point of PTI's manifesto was to bring people out of poverty it was one area where he looked forward to meeting with Chinese leadership and learn from all the steps taken to take people out of poverty.
China promised to support Pakistan's economy on Friday.
Pakistan is now hoping to secure help from the International Monetary Fund (IMF) to avert the crisis in what would be the nation's 13th rescue package from the lender in 30 years.
It is also seeking fresh loans from Saudi Arabia and China, discussion of which is expected to dominate Khan's visit.
The Pakistani side is willing to reinforce communication and coordination in multilateral affairs with China, Khan added.
His visit here was regarded as significant as it is taking place amid critical remarks made by some ministers in Khan's Cabinet on the CPEC which had caused consternation among Chinese leaders considering the "all-weather" relations.
"It is not targeted against any third party", he said, despite the project passing through PoK.
In an interview to the Chinese state-run media ahead of his visit, Khan said the CPEC has given Pakistan a great opportunity to bring in foreign investment and to get out of the hard economic situation it is facing.
Khan is accompanied by foreign minister Shah Mehmood Qureshi, finance minister Umar, Advisor on Commerce and Trade Abdul Razzak Dawood, railways minister Sheikh Rasheed among others.
Pakistani Prime Minister Imran Khan (R) and China´s Premier Li Keqiang attend a welcome ceremony at the Great Hall of the People in Beijing.
The statements evoked serious concerns in China as the CPEC is the flagship project of President Xi's pet multi-billion BRI.
India and Pakistan have been disputing the status of the Jammu and Kashmir region since the end of British rule in 1947. Pakistan's Ambassador to China Masood Khalid was also present.