Abstract
Purpose: Zhizi-Bopi decoction (ZZBPD) is a classic herbal formula with wide clinical applications in treating liver diseases including hepatitis B. However, the mechanism needs to be elucidated.
Methods: Chemical components of ZZBPD were identified by ultra-high-performance liquid chromatography coupled with time-of-flight mass spectrometry (UHPLC-TOF-MS). Then we used network pharmacology to identify their potential targets. Network construction, coupled with protein–protein interaction and enrichment analysis was used to identify representative components and core targets. Finally, molecular docking simulation was conducted to further refine the drug-target interaction.
Results: One hundred and forty-eight active compounds were identified in ZZBPD, targeting 779 genes/proteins, among which 174 were related to hepatitis B. ZZBPD mainly influences the progression of hepatitis B through the hepatitis B pathway (hsa05161) via core anti-HBV targets (AKT1, PIK3CA, PIK3R1, SRC, TNF, MAPK1, and MAPK3). Enrichment analysis indicated that ZZBPD can also potentially regulate lipid metabolism and enhance cell survival. Molecular docking suggested that the representative active compounds can bind to the core anti-HBV targets with high affinity.
Conclusion: The potential molecular mechanisms of ZZBPD in hepatitis B treatment were identified using network pharmacology and molecular docking approaches. The results serve as an important basis for the modernization of ZZBPD.
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Data availability
The intermediate data supporting this paper’s findings are available from the authors upon reasonable request.
Abbreviations
- AKT1:
-
AKT Serine/Threonine Kinase 1
- BP:
-
Biological process
- CC:
-
Cell component;
- cccDNA:
-
Covalently closed circular DNA
- ERK:
-
Extracellular signal-regulated kinase
- FDR:
-
False discovery rate
- Gancao:
-
Dry rhizome of Glycyrrhiza uralensis Fisch., Glycyrrhiza inflata Bat. or Glycyrrhiza glabra L.
- GO:
-
Gene ontology
- Huangbo:
-
Dry bark of Phellodendron chinense Schneid
- HBV:
-
Hepatitis B virus
- HCC:
-
Hepatocellular carcinoma
- HPLC:
-
High performance liquid chromatography
- IDA:
-
Information-dependent acquisition
- KEGG:
-
Kyoto encyclopedia of genes and genomes
- MAPK:
-
Mitogen-activated protein kinase
- MCODE:
-
Molecular complex detection
- MF:
-
Molecular function
- OMIM:
-
Online Mendelian Inheritance in Man database
- PIK3CA:
-
Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit alpha isoform
- PIK3R1:
-
Phosphatidylinositol 3-kinase regulatory subunit alpha
- SRC:
-
Proto-oncogene tyrosine-protein kinase Src
- PPI:
-
Protein–protein interaction
- RCSB:
-
Biological Macromolecular Structures Enabling Breakthroughs in Research and Education
- STAT3:
-
Signal Transducer and Activator of Transcription 3
- STRING:
-
Search Tool for the Retrieval of Interacting Genes/Proteins
- TCM:
-
Traditional Chinese medicine
- TCMSP:
-
Traditional Chinese Medicine System Pharmacology Database
- TNF:
-
Tumor necrosis factor
- TTD:
-
Terapeutic Target Database
- UHPLC-TOF-MS:
-
Ultra-high performance liquid chromatography coupled with time-of-flight mass spectrometry
- Zhizi:
-
Dry fruit of Gardenia jasminoides Ellis
- ZZBPD:
-
Zhizi-Bopi decoction
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Acknowledgements
We appreciate Dr. Sujun Chen for her generous help with draft modification advice. We also acknowledge OriginLab Corporation and Axure Software Solutions Inc. for their offer of software for educational use.
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This research was supported by the P.R.C State Administration of Traditional Chinese Medicine Project [No. LPGZS2012-34].
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HZ: conceptualization, methodology, investigation, visualization, and original draft writing. ZX: investigation. HG: writing—reviewing and editing. QZ: supervision and project administration. All authors have read and approved the final version manuscript. The authors declare that all data were generated in-house and that no paper mill was used.
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Zhang, H., Xu, Z., Gao, H. et al. Systematic analysis on the mechanism of Zhizi-Bopi decoction against hepatitis B via network pharmacology and molecular docking. Biotechnol Lett 45, 463–478 (2023). https://doi.org/10.1007/s10529-023-03359-x
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DOI: https://doi.org/10.1007/s10529-023-03359-x