One way that comes to my mind is to disconnect and connect again. If you are using mongoose, do something like:
var mongoose = require('mongoose')
...
try {
mongoose.disconnect();
mongoose.connect(mongoURL);
catch (e) {
console.log(e);
}
every time and take the mongoURL from the user input.
Another way is to use multiple connections:
var mongoose = require('mongoose')
var conn = mongoose.createConnection('mongodb://localhost/db1');
var conn2 = mongoose.createConnection('mongodb://localhost/db2');
and then choose the connection that you want to use depending on the user choice. I prefer this last one.
Take a look at this answer for more info:
https://stackoverflow.com/a/32909008/7041393