Please re-point the topology manager database to another database [Setup#2]. 

 
 1. Navigate to server 2 %Tridion_Home%\TopologyManager\web
 2. Decrypt server 2 database section in web.config
 3. Change database settings in node in web.config
 4. Encrypt the config file
 5. Restart IIS [Server #2]

For more information click here and see below - [How to Decrypt a web.config File][1]


  [1]: https://msdn.microsoft.com/en-in/library/bb986792.aspx

Copy the config file in temporary directory.
 
To decrypt the configuration file, start with making a temporary directory somewhere to put the Tridion.ContentManager.config file. For this example we'll use c:\temporary .  

For decrypt the webconfig parts :

    c:\Windows\Microsoft.NET\Framework64\v4.0.30319\aspnet_regiis.exe -pdf "database" c:\temporary 

After entering this command, the database section in the config is decrypted and unprotected. So you need to encrypt again by running below command:

    c:\Windows\Microsoft.NET\Framework64\v4.0.30319\aspnet_regiis.exe -pef "database" c:\temporary -prov "TridionRsaProtectedConfigurationProvider"

Once done all place the file in below location:

    %Tridion_Home%\TopologyManager\web