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Screening Ingredients from Herbs against Pregnane X Receptor in the Study of Inductive Herb-Drug Interactions: Combining Pharmacophore and Docking-Based Rank Aggregation.

Cui Z, Kang H, Tang K, Liu Q, Cao Z, Zhu R - Biomed Res Int (2015)

Bottom Line: Secondly, DRA was used to rerank the result of pharmacophore filtering.The accuracy of our method is higher than other traditional methods.The strategy could be extended to studies on other inductive herb-drug interactions.

View Article: PubMed Central - PubMed

Affiliation: Department of Bioinformatics, Tongji University, Shanghai 200092, China.

ABSTRACT
The issue of herb-drug interactions has been widely reported. Herbal ingredients can activate nuclear receptors and further induce the gene expression alteration of drug-metabolizing enzyme and/or transporter. Therefore, the herb-drug interaction will happen when the herbs and drugs are coadministered. This kind of interaction is called inductive herb-drug interactions. Pregnane X Receptor (PXR) and drug-metabolizing target genes are involved in most of inductive herb-drug interactions. To predict this kind of herb-drug interaction, the protocol could be simplified to only screen agonists of PXR from herbs because the relations of drugs with their metabolizing enzymes are well studied. Here, a combinational in silico strategy of pharmacophore modelling and docking-based rank aggregation (DRA) was employed to identify PXR's agonists. Firstly, 305 ingredients were screened out from 820 ingredients as candidate agonists of PXR with our pharmacophore model. Secondly, DRA was used to rerank the result of pharmacophore filtering. To validate our prediction, a curated herb-drug interaction database was built, which recorded 380 herb-drug interactions. Finally, among the top 10 herb ingredients from the ranking list, 6 ingredients were reported to involve in herb-drug interactions. The accuracy of our method is higher than other traditional methods. The strategy could be extended to studies on other inductive herb-drug interactions.

No MeSH data available.


Related in: MedlinePlus

The mode of inductive drug interactions.
© Copyright Policy - open-access
Related In: Results  -  Collection


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fig1: The mode of inductive drug interactions.

Mentions: Herb-drug interactions, as well as drug-drug interactions (DDIs), are generally divided into two categories: pharmacodynamics (PD) interactions and pharmacokinetic (PK) interactions [4]. Many previous studies contributed to the explanation of molecular basis for drug interactions [5, 6]. In the late 1990s, it was found that ligand-activated nuclear receptors can regulate drug metabolism and transporter genes expression [7–9]. Nuclear receptors play an important role in the mechanism of PK interactions [10]. Based on that molecular mechanism (shown in Figure 1), herbal ingredients (agent A) can activate nuclear receptors and regulate metabolizing drugs (agent B) gene expression. Thus, the herbs could alter efficacy and toxicity of coadministered drugs. This process is called inductive herb-drug interaction [7, 11].


Screening Ingredients from Herbs against Pregnane X Receptor in the Study of Inductive Herb-Drug Interactions: Combining Pharmacophore and Docking-Based Rank Aggregation.

Cui Z, Kang H, Tang K, Liu Q, Cao Z, Zhu R - Biomed Res Int (2015)

The mode of inductive drug interactions.
© Copyright Policy - open-access
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC4538340&req=5

fig1: The mode of inductive drug interactions.
Mentions: Herb-drug interactions, as well as drug-drug interactions (DDIs), are generally divided into two categories: pharmacodynamics (PD) interactions and pharmacokinetic (PK) interactions [4]. Many previous studies contributed to the explanation of molecular basis for drug interactions [5, 6]. In the late 1990s, it was found that ligand-activated nuclear receptors can regulate drug metabolism and transporter genes expression [7–9]. Nuclear receptors play an important role in the mechanism of PK interactions [10]. Based on that molecular mechanism (shown in Figure 1), herbal ingredients (agent A) can activate nuclear receptors and regulate metabolizing drugs (agent B) gene expression. Thus, the herbs could alter efficacy and toxicity of coadministered drugs. This process is called inductive herb-drug interaction [7, 11].

Bottom Line: Secondly, DRA was used to rerank the result of pharmacophore filtering.The accuracy of our method is higher than other traditional methods.The strategy could be extended to studies on other inductive herb-drug interactions.

View Article: PubMed Central - PubMed

Affiliation: Department of Bioinformatics, Tongji University, Shanghai 200092, China.

ABSTRACT
The issue of herb-drug interactions has been widely reported. Herbal ingredients can activate nuclear receptors and further induce the gene expression alteration of drug-metabolizing enzyme and/or transporter. Therefore, the herb-drug interaction will happen when the herbs and drugs are coadministered. This kind of interaction is called inductive herb-drug interactions. Pregnane X Receptor (PXR) and drug-metabolizing target genes are involved in most of inductive herb-drug interactions. To predict this kind of herb-drug interaction, the protocol could be simplified to only screen agonists of PXR from herbs because the relations of drugs with their metabolizing enzymes are well studied. Here, a combinational in silico strategy of pharmacophore modelling and docking-based rank aggregation (DRA) was employed to identify PXR's agonists. Firstly, 305 ingredients were screened out from 820 ingredients as candidate agonists of PXR with our pharmacophore model. Secondly, DRA was used to rerank the result of pharmacophore filtering. To validate our prediction, a curated herb-drug interaction database was built, which recorded 380 herb-drug interactions. Finally, among the top 10 herb ingredients from the ranking list, 6 ingredients were reported to involve in herb-drug interactions. The accuracy of our method is higher than other traditional methods. The strategy could be extended to studies on other inductive herb-drug interactions.

No MeSH data available.


Related in: MedlinePlus