I had similar problem, when I spun a new EC2 instance, but didn't change setting in RDS security group of inbound IP address allowed to connect to port 3306 of my RDS instance.
The confusing bit was an option in RDS dashboard, called Security Groups. You don't need it to solve the problem.
What you really need is:
- Go to list of RDS instances
- Click on the instance you are trying to connect
- Click Security group rules section
This should open a new browser tab or window with details of security group.
Locate several tabs in bottom part, select Inbound rules tab and click Edit button.
Change value to the IP address of your EC2 instance or IPv4 CIDR blocks, e.g.
174.33.0.0/16
To get this value, you can either ssh into your instance and run ip addr or run EC2 Manager in browser and locate value of Private IPs in your instance details.
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