CMAUP Plant Collective Molecular Activities

Plant Name: Psydrax livida

Taxonomic Information:

Plant ID: NPO20543
Plant Latin Name: Psydrax livida
Taxonomy Genus: Psydrax
Taxonomy Family: Rubiaceae

Plant External Links:

NCBI TaxonomyDB: 258755
Plant-of-the-World-Online: 915410-1

Used in Medicines:

Unknown.

Geographical Distribution:

Namibia; Angola; Tanzania; Zimbabwe; Malawi; Congo; Germany; Mozambique; Burundi; Kenya; Botswana; Zambia

Geographical Distribution

See the Plant Occurrence Worldwide with Latitude and Longitude Available

Collective Molecular Activities of the Plant

List of Human Proteins Collectively Targeted by the Plant

Target Activity Range: ≤ 10μM
Click Gene ID to Access Activity Profile of Individual Target

Target Class	Target Proteins
Small molecule receptor (family A GPCR)	GPBAR1;
Protein Phosphatase	PTPN1; PTPN2; CDC25B;
Enzyme_unclassified	PLA2G1B; ALDH1A1; AKR1B10; POLB;
Protein Kinase	CDK8; PRKCA; CDK9;
Nuclear hormone receptor subfamily 1 group H	NR1H4;
Transcription Factor	HIF1A;
Unclassified	NPC1; RAB9A;

List of Human Cytochrome P450 Enzymes Affected by the Plant

Activity Range: ≤ 10μM
Click Gene ID to Access Activity Profile of Individual Enzyme

Cytochrome P450 Enzymes:	CYP1B1; CYP1A1; CYP3A4; CYP1A2; CYP2C19; CYP2C9;

Detailed Information of Target Proteins

Protein Class	Gene ID	Protein Name	Uniprot ID	Target ChEMBL ID
Cytochrome P450 family 1	CYP1B1	Cytochrome P450 1B1	Q16678	CHEMBL4878
Cytochrome P450 family 1	CYP1A1	Cytochrome P450 1A1	P04798	CHEMBL2231
Cytochrome P450 family 1	CYP1A2	Cytochrome P450 1A2	P05177	CHEMBL3356
Cytochrome P450 family 2	CYP2C19	Cytochrome P450 2C19	P33261	CHEMBL3622
Cytochrome P450 family 2	CYP2C9	Cytochrome P450 2C9	P11712	CHEMBL3397
Cytochrome P450 family 3	CYP3A4	Cytochrome P450 3A4	P08684	CHEMBL340
Enzyme_unclassified	PLA2G1B	Phospholipase A2 group 1B	P04054	CHEMBL4426
Enzyme_unclassified	ALDH1A1	Aldehyde dehydrogenase 1A1	P00352	CHEMBL3577
Enzyme_unclassified	AKR1B10	Aldo-keto reductase family 1 member B10	O60218	CHEMBL5983
Enzyme_unclassified	POLB	DNA polymerase beta	P06746	CHEMBL2392
Nuclear hormone receptor subfamily 1 group H	NR1H4	Bile acid receptor FXR	Q96RI1	CHEMBL2047
Protein Kinase	CDK8	Cell division protein kinase 8	P49336	CHEMBL5719
Protein Kinase	PRKCA	Protein kinase C alpha	P17252	CHEMBL299
Protein Kinase	CDK9	Cyclin-dependent kinase 9	P50750	CHEMBL3116
Protein Phosphatase	PTPN1	Protein-tyrosine phosphatase 1B	P18031	CHEMBL335
Protein Phosphatase	PTPN2	T-cell protein-tyrosine phosphatase	P17706	CHEMBL3807
Protein Phosphatase	CDC25B	Dual specificity phosphatase Cdc25B	P30305	CHEMBL4804
Small molecule receptor (family A GPCR)	GPBAR1	G-protein coupled bile acid receptor 1	Q8TDU6	CHEMBL5409
Transcription Factor	HIF1A	Hypoxia-inducible factor 1 alpha	Q16665	CHEMBL4261
Unclassified	NPC1	Niemann-Pick C1 protein	O15118	CHEMBL1293277
Unclassified	RAB9A	Ras-related protein Rab-9A	P51151	CHEMBL1293294

Enrichment of Gene Ontology of Target Proteins (Activity≤10μM)

Detailed Information of Enriched Gene Ontolgy

GO Type	GO Category	Enriched GO Terms	p-Value	Adjusted p-Value	Enriched Genes
BP	GO:0008152; metabolic process	GO:0097267; omega-hydroxylase P450 pathway	2.282E-13	2.484E-09	CYP1A1, CYP1A2, CYP1B1, CYP2C19, CYP2C9
MF	GO:0005488; binding	GO:0019825; oxygen binding	5.974E-12	2.602E-08	CYP1A1, CYP1A2, CYP1B1, CYP2C19, CYP2C9, CYP3A4
BP	GO:0008152; metabolic process	GO:0016098; monoterpenoid metabolic process	1.546E-11	5.611E-08	CYP1A2, CYP2C19, CYP2C9, CYP3A4
BP	GO:0008152; metabolic process	GO:0019373; epoxygenase P450 pathway	1.829E-11	5.688E-08	CYP1A1, CYP1A2, CYP1B1, CYP2C19, CYP2C9
BP	GO:0050896; response to stimulus	GO:0042738; exogenous drug catabolic process	5.080E-10	1.383E-06	CYP1A2, CYP2C19, CYP2C9, CYP3A4
MF	GO:0005488; binding	GO:0020037; heme binding	3.764E-09	5.854E-06	CYP1A1, CYP1A2, CYP1B1, CYP2C19, CYP2C9, CYP3A4
MF	GO:0003824; catalytic activity	GO:0034875; caffeine oxidase activity	4.427E-09	6.024E-06	CYP1A2, CYP2C9, CYP3A4
MF	GO:0003824; catalytic activity	GO:0070330; aromatase activity	9.018E-09	1.034E-05	CYP1A1, CYP1A2, CYP1B1, CYP3A4
MF	GO:0005488; binding	GO:0005506; iron ion binding	1.440E-08	1.363E-05	CYP1A1, CYP1A2, CYP1B1, CYP2C19, CYP2C9, CYP3A4
BP	GO:0008152; metabolic process	GO:0070989; oxidative demethylation	2.421E-07	1.647E-04	CYP1A2, CYP2C9, CYP3A4
BP	GO:0008152; metabolic process	GO:0009404; toxin metabolic process	1.934E-06	9.794E-04	CYP1A1, CYP1A2, CYP1B1
BP	GO:0008152; metabolic process	GO:0001523; retinoid metabolic process	2.482E-06	1.186E-03	AKR1B10, ALDH1A1, CYP1A1, CYP1B1
BP	GO:0009987; cellular process	GO:0038183; bile acid signaling pathway	3.375E-06	1.441E-03	GPBAR1, NR1H4
MF	GO:0003824; catalytic activity	GO:0070576; vitamin D 24-hydroxylase activity	3.375E-06	1.441E-03	CYP1A1, CYP3A4
MF	GO:0060089; molecular transducer activity	GO:0038181; bile acid receptor activity	3.375E-06	1.441E-03	GPBAR1, NR1H4
MF	GO:0005488; binding	GO:0019899; enzyme binding	4.562E-06	1.910E-03	CDC25B, CDK9, CYP1A1, CYP1A2, CYP2C19, CYP3A4, HIF1A, POLB, PRKCA, PTPN1, PTPN2
BP	GO:0009987; cellular process	GO:1902202; regulation of hepatocyte growth factor receptor signaling pathway	6.746E-06	2.623E-03	PTPN1, PTPN2
BP	GO:0008152; metabolic process	GO:0018894; dibenzo-p-dioxin metabolic process	6.746E-06	2.623E-03	CYP1A1, CYP1A2
BP	GO:0008152; metabolic process	GO:0016042; lipid catabolic process	8.711E-06	3.270E-03	AKR1B10, CYP1A2, CYP1B1, CYP3A4, PLA2G1B
MF	GO:0003824; catalytic activity	GO:0101020; estrogen 16-alpha-hydroxylase activity	1.124E-05	4.077E-03	CYP1A1, CYP3A4
BP	GO:0008152; metabolic process	GO:0002933; lipid hydroxylation	1.684E-05	5.915E-03	CYP1A1, CYP3A4
BP	GO:0050896; response to stimulus	GO:0046626; regulation of insulin receptor signaling pathway	1.976E-05	6.829E-03	NR1H4, PTPN1, PTPN2
BP	GO:0008152; metabolic process	GO:0009820; alkaloid metabolic process	2.356E-05	7.894E-03	CYP1A2, CYP3A4
MF	GO:0003824; catalytic activity	GO:0001758; retinal dehydrogenase activity	2.356E-05	7.894E-03	AKR1B10, ALDH1A1
BP	GO:0009987; cellular process	GO:0001959; regulation of cytokine-mediated signaling pathway	2.876E-05	9.346E-03	HIF1A, NR1H4, PTPN1, PTPN2
BP	GO:0008152; metabolic process	GO:0050665; hydrogen peroxide biosynthetic process	3.140E-05	9.767E-03	CYP1A1, CYP1A2
CC	GO:0016020; membrane	GO:0005789; endoplasmic reticulum membrane	3.535E-05	1.054E-02	CYP1A1, CYP1A2, CYP1B1, CYP2C19, CYP2C9, CYP3A4, RAB9A

Enriched KEGG Pathways of Target Proteins (Activity≤10μM)

Top 10 KEGG Pathways (ordered by adjusted p-value)

Detailed Information of Enriched KEGG Pathways

Pathway Category Top Level	Pathway Category Second Level	Pathway ID	Pathway Name	p-Value	Adjusted p-Value	Enriched Genes
09100 Metabolism	09103 Lipid metabolism	hsa00591	Linoleic acid metabolism	8.923E-11	8.387E-09	CYP2C9, PLA2G1B, CYP1A2, CYP3A4, CYP2C19
09160 Human Diseases	09161 Cancers	hsa05204	Chemical carcinogenesis	2.037E-10	9.574E-09	CYP2C9, CYP1A2, CYP1A1, CYP1B1, CYP3A4, CYP2C19
09100 Metabolism	09108 Metabolism of cofactors and vitamins	hsa00830	Retinol metabolism	6.059E-09	1.898E-07	CYP2C9, CYP1A2, ALDH1A1, CYP1A1, CYP3A4
09100 Metabolism	09111 Xenobiotics biodegradation and metabolism	hsa00980	Metabolism of xenobiotics by cytochrome P450	1.096E-08	2.575E-07	CYP2C9, CYP1A2, CYP1A1, CYP1B1, CYP3A4
09100 Metabolism	09111 Xenobiotics biodegradation and metabolism	hsa00982	Drug metabolism - cytochrome P450	7.427E-07	1.164E-05	CYP2C9, CYP1A2, CYP3A4, CYP2C19
09100 Metabolism	09103 Lipid metabolism	hsa00140	Steroid hormone biosynthesis	3.673E-07	6.904E-06	CYP1A2, CYP1A1, CYP1B1, CYP3A4
Unclassified	Unclassified	hsa01100	Metabolic pathways	2.086E-05	2.451E-04	CYP2C9, AKR1B10, PLA2G1B, CYP1A2, ALDH1A1, CYP1A1, CYP2C19, CYP3A4
09100 Metabolism	09105 Amino acid metabolism	hsa00380	Tryptophan metabolism	9.614E-06	1.291E-04	CYP1A2, CYP1A1, CYP1B1
09100 Metabolism	09103 Lipid metabolism	hsa00590	Arachidonic acid metabolism	3.626E-05	3.787E-04	CYP2C9, PLA2G1B, CYP2C19
09150 Organismal Systems	09156 Nervous system	hsa04726	Serotonergic synapse	2.113E-04	1.986E-03	CYP2C9, PRKCA, CYP2C19

Human Diseases Associated with the Target Proteins of the Plant

Detailed Information of Human Diseases

ICD10 Disease Category	Disease Name	ICD10 Code	Associated Disease Targets (Association Ref: TTD database)
C00-D49: Neoplasms	Cancer	C00-C96	HIF1A; CDC25B;
I00-I99: Diseases of the circulatory system	Pulmonary arterial hypertension	I27.0, I27.2	HIF1A;
C00-D49: Neoplasms	Solid tumours	C00-D48	HIF1A;
C00-D49: Neoplasms	Lymphoma	C81-C86	HIF1A;

Data Section	Select to Download
1. General Info & Plant Usage & Geographical Distribution
2. Human Target Proteins
3. Target Gene Ontology
4. Target KEGG Pathway
5. Related Human Diseases