Monday's statement comes after years of tension between the two administrations, most recently with Russian warships and military airplanes engaging in "aggressive maneuvers" against American military forces and charges that the Kremlin has not been helpful in Syria in the battle against the Islamic State, reported CNN.
Aside from Syria, the Kremlin statement said Putin and Obama discussed the Nagorno-Karabakh and Ukraine conflicts.
U.S. President Barack Obama and his Russian counterpart Vladimir Putin agreed to step up joint efforts to resolve the Nagorno-Karabakh conflict when they spoke by phone late on Wednesday.
USA officials have said they are willing to discuss additional coordination in their so-far separate counterterrorism operations in Syria, but remain unsure if Russian Federation would pressure Assad and that no decisions have been made.
The White House didn't mention stronger military coordination in its readout of the conversation.
There was no immediate comment from Washington on the Putin-Obama phone call.
On Syria, Obama emphasised his concerns over the failure of the Syrian regime to comply with the cessation of hostilities in Syria.
The relationship between the United States and Russian Federation has been strained since Russian Federation annexed Ukraine's Crimean Peninsula in 2014.
According to the Kremlin, Putin told Obama that Kiev should strictly implement the Minsk Agreements.
The last truce in the country was declared on February 27 between regime and non-jihadist rebel groups after being brokered by Russian Federation and the United States. The White House said Obama expressed his readiness to intensify efforts together with Russian Federation and with France, as co-chairs of the Organization for Security and Cooperation in Europe Minsk Group, to achieve a comprehensive settlement to the conflict.