( ( While ( ( ( protons and ) neutrons ) ( ( are each ) ( made ( of ( three quarks ) ) ) ) ) ) ( , ( ( their ( component quarks ) ) ( ( are different ) . ) ) ) )
(ROOT (S (SBAR (IN While) (S (NP (NNS protons) (CC and) (NNS neutrons)) (VP (VBP are) (ADVP (DT each)) (VP (VBN made) (PP (IN of) (NP (CD three) (NNS quarks))))))) (, ,) (NP (PRP$ their) (NN component) (NNS quarks)) (VP (VBP are) (ADJP (JJ different))) (. .)))
While protons and neutrons are each made of three quarks, their component quarks are different.
(ROOT (S (NP (EX There)) (VP (VBP are) (NP (NP (CD three) (NNS quarks)) (PP (IN in) (NP (DT each) (NN proton) (CC and) (NN neutron))))) (. .)))