The major differences arise from the closed-chain aspects of the pullup, which are neuromuscular recruitment patterns, a greater agonist/antagnist co-contraction from pullups vs. pulldowns (Antagonist co-contraction will work towards joint stabilization under load. Regarding functional movement and torque distribution about the joint, it will help to prevent potentially damaging unbalanced torques about the joint...additionally, you are simply innervating a greater amount of muscle and neural patterns, which promotes different motor unit recruitment and CNS 'training.'), and a larger number of total muscles used in body alignment and stabilization (Think core...although a pullup is not a technically weight bearing exercise in the sense that a pushup vs. lighter than body weight bench is, or a terminal knee extension vs. leg extension is, which reduces some of the applicability of the open vs. closed chain kinematic argument, for thise keeping score...)
Small but appreciable differences, making the pullup a more functional exercise.
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