The Dutchman, who has done well to link the midfield with attack since joining from Real Madrid in August, missed the last two games with a leg injury.
"He is very unlikely to be on the pitch in Kiev," Inter coach Jose Mourinho told reporters.
Striker Mario Balotelli and midfielders Sulley Muntari and Thiago Motta also travelled to the Ukrainian capital after illness and injuries.
Italian champions Inter almost never went at all after Ukrainian authorities on Friday banned all public events and imposed restrictions on people's movements for a three-week period following a first death from H1N1 flu.
However, European governing body UEFA said it had no immediate plans to postpone the match.
Media reports have said the game could be played behind closed doors.
The two sides drew 2-2 at the San Siro two weeks ago when former AC Milan striker Andriy Shevchenko missed a great chance to win the game for Dynamo late on.
Inter, who have not won the European Cup since 1965, are again stumbling through the group stages with three draws from their first three games.
Luckily for Mourinho, the Ukrainian leaders are just a point above his charges alongside holders Barcelona and Russia's Rubin Kazan.
Probable teams:
Dynamo Kiev: 31-Stanislav Bogush; 11-Roman Eremenko, 34-Yevgen Khacheridi, 44-Leandro Almeida, 21-Gerson Magrao; 17-Taras Mikhalik, 36-Milos Ninkovic, 5-Ognjen Vukojevic, 70-Andriy Yarmolenko; 7-Andriy Shevchenko, 10-Artem Milevskiy
Inter Milan: 12-Julio Cesar; 13-Maicon, 25-Walter Samuel, 6-Lucio, 26-Cristian Chivu; 14-Patrick Vieira, 19-Esteban Cambiasso, 5-Dejan Stankovic; 45-Mario Balotelli; 9-Samuel Eto'o, 22-Diego Milito
Referee: Bertrand Layec (France)
