Prunella vulgaris L. is an important medicinal herb widely used in China and western countries. Its natural distribution occurs in various habitats throughout northern hemisphere. In present study, we assembled and characterized its whole chloroplast (cp) genome based on Illumina pair-end sequencing data. The complete chloroplast genome size is 156,132 bp. It contained 134 genes, including 89 protein-coding genes, 37 tRNA genes, and 8 rRNA genes. 8 gene species had two copies. The overall GC content of this genome was 37.9%. A further phylogenomic analysis of Lamiaceae, including 29 taxa, was conducted for the placement of P. vulgaris.