I don't think you understand their point. They're saying that what if we exist at the scale of storms to us as some incomprehensibly larger beings' universe.
While others have correctly pointed out that the model of atom which is reminiscent of a solar system is not accurate. I would like to point out that systems of massive bodies in space could possibly be used in some ways similar to atoms.
The closer you get the stronger the pull is, but if you’re going fast enough, you can find stable configurations. This means it is possible (though incredibly unlikely) that if two solar systems interacted the right way, you could get a stable combined system. Two systems could orbit each other with or without sharing planets which is reminiscent of certain kinds of atomic bonds. You can even have system interactions where one system steals a planetary body from another. Sure there’s no ionic bonding because gravity isn’t polar but it’s still possible to create “bonds” of some kind.
Also, the specific configuration, total mass, and number of massive bodies in each system would affect how it interacts with any other system, kind of like chemical properties of elements.
If you throw a massive enough thing fast enough you can rip a solar system apart kind of like how throwing a neutron or nucleus fast enough at an atom can break it apart.
Complex gravitational systems can have specific and often complex physical structures/shape too, which could be argued as similar to the way proteins have complex and specific shapes. These shapes would change the way the systems interact with other systems because gravity and distance are related. Again creating these stable configurations would be unlikely but still not impossible.
Hell, there are even weirder similarities too. Stars and black holes “decay” and the collision of planets can yield different numbers of “particles” which interact in new ways because their mass is different.
Sure, gravitational systems are not nearly as stable as atoms, they probably couldn’t be ordered into a table like elements, and do not operate on exactly similar forces like atoms. System-chemistry would also be very directional which would be tedious, but I think it’s cool that it could be possible to do similar things with gravitational systems as you can with atoms, even if they don’t have similar structure or internal properties.
Oh yeah eventually they will. But eventually protons will decay. Could you do something with these bonded “atoms” before they collapse? Probably not as much as you can before an atom decays but yeah you’ve definitely got at least a few million years for most systems right?
An excretion(accretion) disc points to a different phenomenon causing the orbits. As opposed to a shell representing probability and energy level. But they are similar.
All this to really point out that I too have stayed awake thinking about this for a long time