I had an irritating problem when I tried to connect Pronterface on my Ubuntu 18.04 LTS system via USB to my Ender 3 3D printer. Whenever I tried to establish a connection I got permission denied displayed in the right hand side of the Proterface GUI.
It came down to a simple permissions problem.
First of all power up your Ender 3, connect it to your Ubuntu PC with a USB cable. First of all make sure that your Ubuntu PC can see the Ender 3. Open a terminal (Ctrl T) and type into it lsusb. You’ll get something like this:
chalkie@chalkie-box:~$ lsusb Bus 002 Device 018: ID 0bdb:1911 Ericsson Business Mobile Networks BV Bus 002 Device 003: ID 03f0:0c17 Hewlett-Packard LaserJet 1010 . . . . Bus 001 Device 070: ID 1a86:7523 QinHeng Electronics HL-340 USB-Serial adapter chalkie@chalkie-box:~$
There will be about (maybe) 10-15 entries and the one you are interested in (QinHeng Electronics) will probably be buried in the middle. But if it is anywhere in the list, then your PC can see the Ender 3 through the USB connection OK
Now open Pronterface. If when you hit the connect button you still get access denied then you probably need to adjust the permissions on the USB/serial interface between your Ubuntu PC and the Ender 3. Notice in the top left of the pronterface screen shot below that pronterface has selected USB interface /dev/ttyUSB0

In your terminal you need to check who can use the ttyUSB0 connection. So type:
ls -lah /dev/ttyUSB0
chalkie@chalkie-box:~$ ls -lah /dev/ttyUSB0
crw-rw---- 1 root dialout 188, 0 Dec 5 17:33 /dev/ttyUSB0
chalkie@chalkie-box:~$
From this we can see that “root” is the owner and “dialout” is the group that can access ttyUSB0. The bet is that you are not a member of that group and so cannot access the serial port. Fix this by joining the group. (Note I believe the name of the group may change depending on your set-up) The format for the command is:
sudo gpasswd -a user group
In my case this was
sudo gpasswd -a chalkie dialout
After that you can give it a try by hitting the connect button in Pronterface. If it doesn’t work then do the ritual disconnect everything and start from scratch. But the fact that you are now a member of the vital group should solve your problem. When you hit connect in Pronterface you should get this in the right hand side of the full Pronterface screen:

And that’s it. You are connected. Hope that helped.