Choosing fusion tags to enhance the recombinant protein levels in the cytoplasm of Bacillus subtilis has been limited. Our previous study demonstrated that His‐tag at the N‐terminus could increase the expression levels of the low‐expression gene egfp, while significantly reducing the high‐expression genes gfp+ and bgaB in the cytoplasm of B. subtilis. In this study, we aimed to prove the potential of a fusion tag, the combination of the N‐terminal domain of B. subtilis lysyl tRNA synthetase (LysSN) and His‐tag with varying numbers of histidine (6xHis, 8xHis, 10xHis) by investigating their effects on the expression levels of egfp, gfp+ and bgaB in B. subtilis. For the low‐expression gene, LysSN‐xHis‐tag could enhance the fluorescent intensity of EGFP 23.5 times higher than EGFP without a fusion tag, and 1.5 times higher than that fused with only His‐tag. For high‐expression genes, the expression level of BgaB and GFP+ was 2.9 and 12.5 times higher than that of His‐tag, respectively. The number of histidines in LysSN‐xHis‐tag did not influence the expression levels of the high‐expression genes but affected the expression levels of the low‐expression gene.