The antler is a very high nutritional value of supplements, but also a very important medicine, antler occupies a very important position in Chinese medicine. Antler is rich in amino acids, which contains more than seven kinds of essential amino acids. In the organic component of antler, amino acids are the topped content of nutrients, and in them, the highest is glycine; amino acids are the basic components of living organism tissue cells, and play a pivotal role for life events. If the body lacks any kind of essential amino acids, it can cause physiological dysfunction, affecting the normal antibody metabolism, leading to disease. In the paper, it accord to the data of amino acids which contain different specifications antler herbs, analyze and compare the relationship of amino acids between sika deer antler and red deer antler using the principal component cluster analysis. The results showed that sika deer antler with red deer antler have the similar medicine effect and different essential amino acids nutrients.