The structures of matter forms from the interaction of different fileds and not directly from the structures of elementary particles
From the standard model of particle physics, all massive particles get their masses from the Higgs field and these masses are just energies bounded-intrinsically to the particles. Therefore all the masses we see around as is actually just the sum of elementary particles masses and potential energies of their interactions.
The rest mass together with other quantum numbers like spin, elctric charge is what gives a particle a unique identity and structure. Even the atoms do not have structure because of the structures of its constituents particles. For example, we know that a atom is 99.99% empty, for comparison, if we assume a neucleus to be a coin sized sphere then a atom would be a big-football-ground sized sphere!. The 3d structure of an atom is not because of structures of nucleus or/and electron but because of the electromagnetic interaction between p and e-.
If the string theory is the correct description for our universe then all the particles present in the universe are nothing but just different modes of the same fundamental vibrating strings. Different modes of vibration of different strings gives different particles(one string mode ~ one particle). These particles structures, again, does't depend directly on 1d-strings, it depends on energy or field surrounding string. For comparison, if we assume a string to be of the size of a tree then the minimum size of an elementary particle is around the size of the whole solar system! i.e., an elementary particle is much more emtier then an atom.