Kyoto is not physically damaged by the March 11 earthquake and tsunami.
Kyoto is located in 690 km (430 miles) far from the epicenter of the earthquake.
Indeed, the intensity was II (Weak), according to the USGS archive as in the following URL.
http://earthquake.usgs.gov/earthquakes/eqinthenews/2011/usc0001xgp/
You may find the map of the damage from the earthquake at
http://www.nytimes.com/packages/flash/newsgraphics/2011/0311-japan-earthquake-map/.