Total proteins extracted from Pinellia ternata with different types of leaves have been assayed by UV absorbance, blue native polyacrylamide gel electrophoresis (BN-PAGE) and sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS- PAGE). We found that the total protein contents of P. ternata with the herbaceous peony and claw types of leaves were much higher than that with other types of leaves. P. ternata collected from Nanchuan County, except the ones with herbaceous peony leaves, displayed a high similarity with each other. Both UV absorbance and cluster analysis indicated that the protein content in P. ternata with the herbaceous peony leaves was less affected by habitats than that with other types of leaves. The results showed that it was necessary to increase the homogeneity of seeds for improving the protein content ofP. ternata.