Karjakin overcame a special stage of 744 km in 5 hours 16 minutes 10 seconds.
Chilean Francisco Lopez Contardo won. The second finished Pole Aron Domžala. Zimbabwean representative Conrad Rautenbach closed the three.
In the general classification, Karjakin takes second place. His lag behind the leading American Casey Carrie is 45 minutes 33 seconds.
Earlier it was reported that the Karginov crew won the 11th stage of the Dakar rally-raid.