I don't understand what you are trying to say.
I create a product MAIN and three subproducts, sub1, sub2, sub3 and assign sub1,sub2,sub3 to MAIN as subproducts and I add MAIN to a store page.
I publish the store and view the page and MAIN displays with the 3 subproducts. (using the MATTE theme, others may vary what displays). I then delete Sub2, publish and look at the page and MAIN is still there with just sub1 and sub3 listed.
So how does what you are asking for differ from that?