Well first of all, I hope this is just for educational purposes, and you do not plan to manage user accounts this way, storing plaintext passwords in a json file.
Second, you seem to misuse the structure of JSON. Why to have user1, user2, user3 keys when you can have an array? It would be much better if you'd arrange this data like this:
{
    "users": [
        {
            "username": "Alice",
            "anything-but-not-plaintext-password": "Puppies and kittens"
        },
        {
            "username": "Bob",
            "anything-but-not-plaintext-password": "Cheese nuggets"
        }
    ]
}
Finally, you can write a json to a file in nodejs using fs.writeFileSync:
var fs = require('fs');
var jsonContent = {}; // Here is your loader and modifier code
var jsonString = JSON.stringify(jsonContent, null, 4); // Pretty printed
fs.writeFileSync("./actions/writeTo.json", jsonString);
But still, this is how you must not handle user credentials. Here is a pretty good tutorial on the topic: Node.js authentication series: Passport local strategy using email and password.