Playing white in a Tarrasch Variant, Anand, a former world champion, settled for a tie in 40 moves, to win the match 2.5-1.5.
The Indian master won the first game in the series before the next three came to a standstill.
Kramnik, also a former world champion, had forced a draw in game three on Saturday to keep his chances of leveling the scores alive in the four-game match.
The event was played as part of the “No Castling” Chess devised by the Russian GM.
Castling is not allowed in this format in an effort to make the game more interesting.
Castling is a special move to protect the king and activate the rook. It is the only time in chess that a player can move two pieces in one move.
Anand had returned to action on the board at the Croatian Grand Chess Circuit tournament in Zagreb last week and took second place overall (Rapid and Blitz sections combined).