Copyright: ©Author(s) 2026.
World J Gastroenterol. Nov 21, 2026; 32(43): 121477
Published online Nov 21, 2026. doi: 10.3748/wjg.121477
Published online Nov 21, 2026. doi: 10.3748/wjg.121477
Table 1 Molecular docking binding energy data
| UniProt accession | Target protein | PDB ID | Ligand | Binding energy (kcal/mol) | Grid center (x, y, z) | Grid size (x, y, z) |
| P69996 | UreB | 1E9Y | Deoxyshikonin | -6.1 | 127.68, 126.29, 87.37 | 20, 20, 20 |
| P14916 | UreA | 1E9Z | Deoxyshikonin | -4.9 | 146.94, 115.36, 52.21 | 20, 20, 20 |
Table 2 Diameters of inhibition zones (mm) in wild-type Helicobacter pylori 26695 and 26695Δcfa strains after deoxyshikonin treatment
| Strains (amount of bacteria) | 50 μg/disk deoxyshikonin | 100 μg/disk deoxyshikonin |
| H. pylori 26695 (109 CFU/mL) | 7.225 | 9.25 |
| H. pylori 26695Δcfa (109 CFU/mL) | 7.175 | 8.4 |
| H. pylori 26695 (108 CFU/mL) | 8.275 | 10.3 |
| H. pylori 26695Δcfa (108 CFU/mL) | 8.05 | 9.3 |
Table 3 Primer sequences used in this study
| Number | Primer name | Sequence (5’-3’) |
| 1 | UreA-F | GCCAATGGTAAATTAGTT |
| 2 | UreA-R | CTCCTTAATTGTTTTTAC |
| 3 | UreB-F | TCTATCCCTACCCCACAACC |
| 4 | UreB-R | CCATCCACGAACACATGGTA |
| 5 | SabA-F | AAAGCATTCAAAACGCCAAC |
| 6 | SabA-R | CCCGCATAAAGACTCCAAAA |
| 7 | BabA-F | ATCGATCCACTTCCATCACT |
| 8 | BabA-R | GTTACGCTTTTGCCGTCTAT |
- Citation: Pang GF, Xu JY, Guan AX, Yang SX, Duangsonk K, Huang YQ, Zhou QH, Zhou WT. Study on the adhesive effect of deoxyshikonin on Helicobacter pylori. World J Gastroenterol 2026; 32(43): 121477
- URL: https://www.wjgnet.com/1007-9327/full/v32/i43/121477.htm
- DOI: https://dx.doi.org/10.3748/wjg.121477