why most of space inside the atom is empty
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This is actually a good question. Sent my head into a tizzy.
It largely depends on how you define empty space. For example, there is a story of a professor doing a demonstration in class, where he fills a cup with marbles, asks "Is there empty space in this cup?" (and the students answer "no"), then pours sand into the cup, asks "Is there empty space in this cup?" ("no"), then pours water in and so on. The term empty space is not a technical term like vacuum or absolute zero, its definition is variable. For example, for the students, the cup full of marbles was not empty, however, on putting in sand, we see that it fills up.
You are still in 9th grade, so you possibly have this view of a structure of an atom:

The above structure is of a carbon atom.
It largely depends on how you define empty space. For example, there is a story of a professor doing a demonstration in class, where he fills a cup with marbles, asks "Is there empty space in this cup?" (and the students answer "no"), then pours sand into the cup, asks "Is there empty space in this cup?" ("no"), then pours water in and so on. The term empty space is not a technical term like vacuum or absolute zero, its definition is variable. For example, for the students, the cup full of marbles was not empty, however, on putting in sand, we see that it fills up.
You are still in 9th grade, so you possibly have this view of a structure of an atom:

The above structure is of a carbon atom.
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