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With El Capitan (MacOS X 10.11), Apple introduced a so called "rootless" mode, which basically limits the capabilities of the root user, for example when using "sudo" or "su". For example, you can't touch directories like "/System", "/sbin", and "/usr" anymore.
Note that disabling this feature is probably not something you'd want, and I can only recommend this for developers and only at times that they need it. I would leave your Mac in "rootless" mode as much and as often as you can.
So most of us have seen this method to disable "rootless":
sudo nvram boot-args="rootless=0";sudo reboot
and this to enable it again:
sudo nvram boot-args="rootless=1";sudo reboot
Now there seems to be a second method to do this:
Restart the computer, and while booting hold down ⌘ Command-R to boot into recovery mode.
Once booted, navigate to the "Utilities" -> "Terminal" in the top menu bar.
Enter "csrutil disable" in the terminal window and hit the return key.
Restart the machine and System Integrity Protection will now be disabled.
To reenable System Integrity Protection follow the steps above, except use the "csrutil enable".
In normal use, you do not need to be in recovery mode, you can use "csrutil status" to see if System Integrity is enabled or not.
