It is the yin (of yin/yang) nature of urine that is the basis for its use in most cultures where the medicinal value is touted, not the surface molecules. The fact that acupuncture is only recently being deeply studied and often accepted as a means of treatment by modern medicines standards tell you that modern scientists know very little about the value and affects of yin/yang nature.
Not saying it is some cure-all, but I think there is enough evidence of from the study of meridians, chi/qi, energy channels etc. to say that scientists don't conclusively know anything as much as they think they do.
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