In order to obtain more data on proteins in goat milk, cow milk and human milk, their basic components were determined, and bioinformatic analysis of their proteins was performed by proteomics. The results showed that the protein contents of goat milk and cow milk were higher than that of human milk, while the contents of fat and lactose were higher in human milk. A total of 3 370 proteins were identified in the three kinds of milk, and gene ontology (GO) analysis of these proteins indicated that they were mainly involved in biological processes such as cell process and metabolism process, and distributed in the cell, organelles and extracellular region. Their molecular functions included binding and catalytic activity. The KEGG pathway varied in the three kinds of milk and was enriched in protein processing in the endoplasmic reticulum. In the protein-protein interactions network, the 307 shared proteins participated in several pathways such as carbon metabolism, glycolysis/gluconeogenesis, and amino acid biosynthesis.