I guess you must have this part in your web.xml :

<context-param>
<param-name>contextConfigLocation</param-name>
<param-value>Configuration.xml</param-value>
</context-param>

put the Configuration.xml file in WEB-INF and turn the mentioned xml  part into this:

<context-param>
<param-name>contextConfigLocation</param-name>
<param-value>/WEB-INF/Configuration.xml</param-value>
</context-param>