Putin also instructed the Russian government to take steps aimed at lifting the ban of charter flights between the two countries. He canceled restrictions on the sale of tours to Turkey.
The decree comes into effect from the day of the official publication, the Kremlin said.
The Russian president instructed the goverment to hold talks with Turkish authorities on bilateral economic ties.
On Wednesday, Russian President Vladimir Putin and Turkish President Recep Tayyip Erdogan held a phone conversation for the first time in more than seven months. The leaders agreed to restore cooperattion, inluding in the spheres of trade, tourism and the fight against terrorism.
On Monday, Turkish President Recep Tayyip Erdogan sent a letter to Russian President Vladimir Putin to express regret and send condolences for the November 2015 downing of a Russian Su-24 bomber in Syria by Turkey.
Following the incident, Moscow imposed a number of restrictive measures on Turkey and has repeatedly said that Ankara should apologize for downing the plane and cover any material losses to the country and the pilot's family.