The synthesis of highly complex protein molecules from the amino acids is a process that leads to a decrease in entropy. According to the 2nd law of thermodynamics, the entropy of an irreversible process in an isolated system must always increase. On the other hand, it is well known that the entropy of living systems remains small. Living cells are not isolated systems, they need outer energy sources and maintain a low-entropy state by increasing the entropy of cells surroundings. The energy input and output of the cell is not relevant to the second law of thermodynamics directly.
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