NPASS Compound

Natural Product: NPC10807

Natural Product ID	NPC10807
Common Name ? The InCHIKey will be temporarily assigned as the "Common Name" if no IUPAC name or alternative short name is available.	5-Hydroxy-2-(4-Hydroxyphenyl)-7-Methoxy-6-[3,4,5-Trihydroxy-6-(Hydroxymethyl)Oxan-2-Yl]Chromen-4-One
IUPAC Name	5-hydroxy-2-(4-hydroxyphenyl)-7-methoxy-6-[3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]chromen-4-one
Synonyms	NSC-641547
Synthetic Gene Cluster	n.a.
ChEMBL Identifier	CHEMBL174243
PubChem CID	369636
Chemical Classification	CHEMONTID:0000000 [Organic compounds] [CHEMONTID:0000261] Phenylpropanoids and polyketides [CHEMONTID:0000334] Flavonoids [CHEMONTID:0001111] Flavonoid glycosides [CHEMONTID:0001737] Flavonoid C-glycosides

The Chemical Classification was calculated by Classyfire, a software for chemical taxonomy calculation. Reference: DOI:10.1186/s13321-016-0174-y.

Chemical Representations

RDKit 3D 54 57 0 0 0 0 0 0 0 0999 V2000 -0.9805 1.7784 -2.7705 C 0 0 0 0 0 0 0 0 0 0 0 0 -1.4925 1.0982 -1.6425 O 0 0 0 0 0 0 0 0 0 0 0 0 -0.5895 0.5119 -0.7750 C 0 0 0 0 0 0 0 0 0 0 0 0 0.7617 0.5849 -0.9971 C 0 0 0 0 0 0 0 0 0 0 0 0 1.6237 -0.0295 -0.0813 C 0 0 0 0 0 0 0 0 0 0 0 0 1.1437 -0.6941 1.0191 C 0 0 0 0 0 0 0 0 0 0 0 0 2.0282 -1.2819 1.8904 C 0 0 0 0 0 0 0 0 0 0 0 0 1.5891 -1.8978 2.9100 O 0 0 0 0 0 0 0 0 0 0 0 0 3.3804 -1.1877 1.6345 C 0 0 0 0 0 0 0 0 0 0 0 0 3.8130 -0.5123 0.5204 C 0 0 0 0 0 0 0 0 0 0 0 0 5.2211 -0.3641 0.1735 C 0 0 0 0 0 0 0 0 0 0 0 0 5.5966 0.3362 -0.9760 C 0 0 0 0 0 0 0 0 0 0 0 0 6.9095 0.5064 -1.3506 C 0 0 0 0 0 0 0 0 0 0 0 0 7.9324 -0.0190 -0.5899 C 0 0 0 0 0 0 0 0 0 0 0 0 7.5848 -0.7135 0.5482 C 0 0 0 0 0 0 0 0 0 0 0 0 6.2488 -0.8866 0.9292 C 0 0 0 0 0 0 0 0 0 0 0 0 9.2641 0.1493 -0.9629 O 0 0 0 0 0 0 0 0 0 0 0 0 2.9189 0.0218 -0.2644 O 0 0 0 0 0 0 0 0 0 0 0 0 -0.2140 -0.7696 1.2456 C 0 0 0 0 0 0 0 0 0 0 0 0 -1.0658 -0.1617 0.3396 C 0 0 0 0 0 0 0 0 0 0 0 0 -2.5116 -0.2242 0.5522 C 0 0 0 0 0 0 0 0 0 0 0 0 -3.1356 -1.4385 -0.1084 C 0 0 0 0 0 0 0 0 0 0 0 0 -4.4376 -1.0932 -0.7991 C 0 0 0 0 0 0 0 0 0 0 0 0 -5.2722 -0.1185 -0.0362 C 0 0 0 0 0 0 0 0 0 0 0 0 -4.4507 0.8731 0.7481 C 0 0 0 0 0 0 0 0 0 0 0 0 -5.1366 2.2308 0.7149 C 0 0 0 0 0 0 0 0 0 0 0 0 -6.3858 2.0804 1.3077 O 0 0 0 0 0 0 0 0 0 0 0 0 -3.1794 0.9419 0.1659 O 0 0 0 0 0 0 0 0 0 0 0 0 -6.1721 -0.8160 0.7450 O 0 0 0 0 0 0 0 0 0 0 0 0 -4.2115 -0.5986 -2.0936 O 0 0 0 0 0 0 0 0 0 0 0 0 -3.4217 -2.4386 0.8323 O 0 0 0 0 0 0 0 0 0 0 0 0 -0.7288 -1.4346 2.3496 O 0 0 0 0 0 0 0 0 0 0 0 0 -1.7972 2.1287 -3.4340 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.2677 1.1219 -3.3492 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.3865 2.6796 -2.4911 H 0 0 0 0 0 0 0 0 0 0 0 0 1.1712 1.0947 -1.8444 H 0 0 0 0 0 0 0 0 0 0 0 0 4.0752 -1.6556 2.3287 H 0 0 0 0 0 0 0 0 0 0 0 0 4.7932 0.7430 -1.5642 H 0 0 0 0 0 0 0 0 0 0 0 0 7.1855 1.0529 -2.2465 H 0 0 0 0 0 0 0 0 0 0 0 0 8.3293 -1.1422 1.1759 H 0 0 0 0 0 0 0 0 0 0 0 0 6.0100 -1.4425 1.8372 H 0 0 0 0 0 0 0 0 0 0 0 0 9.7036 1.0558 -0.7627 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.7270 -0.3325 1.6545 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.4710 -1.8776 -0.8767 H 0 0 0 0 0 0 0 0 0 0 0 0 -5.0069 -2.0434 -0.9410 H 0 0 0 0 0 0 0 0 0 0 0 0 -5.8790 0.4735 -0.7764 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.3618 0.5206 1.7997 H 0 0 0 0 0 0 0 0 0 0 0 0 -5.2688 2.4809 -0.3694 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.5487 3.0031 1.2120 H 0 0 0 0 0 0 0 0 0 0 0 0 -7.0882 1.7910 0.7018 H 0 0 0 0 0 0 0 0 0 0 0 0 -6.2998 -0.3694 1.6301 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.1728 0.3852 -2.0056 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.8040 -3.2082 0.7371 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.8185 -0.8933 3.2019 H 0 0 0 0 0 0 0 0 0 0 0 0 1 2 1 0 2 3 1 0 3 4 2 0 4 5 1 0 5 6 2 0 6 7 1 0 7 8 2 0 7 9 1 0 9 10 2 0 10 11 1 0 11 12 2 0 12 13 1 0 13 14 2 0 14 15 1 0 15 16 2 0 14 17 1 0 10 18 1 0 6 19 1 0 19 20 2 0 20 21 1 0 21 22 1 0 22 23 1 0 23 24 1 0 24 25 1 0 25 26 1 0 26 27 1 0 25 28 1 0 24 29 1 0 23 30 1 0 22 31 1 0 19 32 1 0 20 3 1 0 28 21 1 0 18 5 1 0 16 11 1 0 1 33 1 0 1 34 1 0 1 35 1 0 4 36 1 0 9 37 1 0 12 38 1 0 13 39 1 0 15 40 1 0 16 41 1 0 17 42 1 0 21 43 1 0 22 44 1 0 23 45 1 0 24 46 1 0 25 47 1 0 26 48 1 0 26 49 1 0 27 50 1 0 29 51 1 0 30 52 1 0 31 53 1 0 32 54 1 0 M END

Standard InCHIKey	ABRULANJVVJLFI-UHFFFAOYSA-N
Standard InCHI	InChI=1S/C22H22O10/c1-30-13-7-14-16(11(25)6-12(31-14)9-2-4-10(24)5-3-9)19(27)17(13)22-21(29)20(28)18(26)15(8-23)32-22/h2-7,15,18,20-24,26-29H,8H2,1H3
SMILES	COc1cc2c(c(=O)cc(c3ccc(cc3)O)o2)c(c1C1C(C(C(C(CO)O1)O)O)O)O

Calculated Properties

Physi-Chem Properties

Molecular Weight:	446.12	Volume:	421.653 ? Van der Waals volume.
Dense:	1.058	LogP:	0.41 ? The logarithm of the n-octanol/water distribution coefficients.
logD7.4:	1.184 ? The logarithm of the n-octanol/water distribution coefficient at pH=7.4.	LogS:	-3.435 ? The logarithm of aqueous solubility value.
Rotatable Bonds:	4.0	Rigid Bonds:	24.0
TPSA:	170.05 ? Topological Polar Surface Area.	H-Bond Acceptor:	10.0
H-Bond Donor:	6.0	Rings:	4.0
Heavy Atoms:	10.0

MedChem Properties

QED Drug-Likeness Score:	0.33	GASA:	1.0 ? GASA represents the probability of being difficult to synthesize, ranging from 0 to 1.
Synthetic Accessibility Score:	3.908	Fsp³:	0.318
MCE-18:	86.966 ? MCE-18 stands for medicinal chemistry evolution.MCE-18≥45 is considered a suitable value.	Lipinski Rule-of-5:	Rejected
Pfizer Rule:	Rejected	GSK Rule:	Accepted
Golden Triangle Rule:	Rejected	BMS Rule:	0
Chelating Alert:	0	PAINS Alert:	0
Colloidal aggregators:	0.403	Fluc inhibitor:	0.011 ? The fluc inhibitor value is the probability of being fLuc inhibitors, within the range of 0 to 1.
Blue fluorescence:	0.92 ? The blue fluorescence value is the probability of being blue fluorescence, within the range of 0 to 1	Green fluorescence:	0.887 ? The green fluorescence value is the probability of being green fluorescence, within the range of 0 to 1
Reactive compounds:	0.091	Promiscuous compounds:	0.307

ADMET Properties (ADMETlab3.0)

ADMET: Absorption

Caco-2 Permeability:	-6.186	MDCK Permeability:	-5.26
Pgp-inhibitor:	0.0	Pgp-substrate:	0.503
PAMPA:	0.998 ? The experimental data for Peff was logarithmically transformed (logPeff). Molecules with log Peff values below 2.0 were classified as low-permeability (Category 0), while those with log Peff values exceeding 2.5 were classified as high-permeability (Category 1).	Human Intestinal Absorption (HIA):	0.836
20% Bioavailability (F20%):	0.784	30% Bioavailability (F30%):	0.984
50% Bioavailability (F50%):	0.996

ADMET: Distribution

Blood-Brain-Barrier Penetration (BBB):	0.002	MRP1:	0.916
Plasma Protein Binding (PPB):	84.492%	Volume Distribution (VD):	0.012
Fu:	15.62% ? The fraction unbound in plasms.	OATP1B1 inhibitor:	0.03
OATP1B3 inhibitor:	0.976	BCRP inhibitor:	0.296
BSEP inhibitor:	0.127

ADMET: Metabolism

CYP1A2-inhibitor:	0.0	CYP1A2-substrate:	0.0
CYP2C19-inhibitor:	0.0	CYP2C19-substrate:	0.0
CYP2C9-inhibitor:	0.99	CYP2C9-substrate:	0.0
CYP2D6-inhibitor:	0.663	CYP2D6-substrate:	0.225
CYP3A4-inhibitor:	0.0	CYP3A4-substrate:	0.0
CYP2B6-substrate:	0.0	CYP2C8-inhibitor:	0.6
HLM stability:	0.002 ? Human liver microsomal (HLM) stability. Category 0: stable+ (HLM > 30 min); Category 1: unstable- (HLM ≤ 30 min). The output value is the probability of human liver microsomal instability, where a value closer to 1 indicates a higher likelihood of instability.

ADMET: Excretion

Clearance (CL):

5.427

Half-life (T1/2):

2.124

ADMET: Toxicity

hERG Blockers:	0.048	hERG Blockers (10um):	0.337
Human Hepatotoxicity (H-HT):	0.536	Drug-induced Liver Injury (DILI):	0.796
AMES Toxicity:	0.632	Rat Oral Acute Toxicity:	0.483
Maximum Recommended Daily Dose:	0.662	Skin Sensitization:	0.372
Carcinogencity:	0.541	Eye Corrosion:	0.0
Eye Irritation:	0.589	Respiratory Toxicity:	0.205
Drug-induced Neurotoxicity:	0.082	Ototoxicity:	0.701
Hematotoxicity:	0.07	Drug-induced Nephrotoxicity:	0.04
Genotoxicity:	0.925	RPMI-8226 Immunitoxicity:	0.078
A549 Cytotoxicity:	0.176	Hek293 Cytotoxicity:	0.774
BCF:	0.387 ? Bioconcentration factors are used for considering secondary poisoning potential and assessing risks to human health via the food chain. The unit is -log10[(mg/L)/(1000*MW)].	IGC50:	2.864 ? 48 hour Tetrahymena pyriformis IGC50. The unit of IGC50 is -log10[(mg/L)/(1000*MW)].
LC50DM:	4.569 ? 48 hour Daphnia magna LC50. The unit of LC50DM is -log10[(mg/L)/(1000*MW)].	LC50FM:	3.712 ? 96 hour fathead minnow LC50. The unit of LC50FM is -log10[(mg/L)/(1000*MW)].

Species Source

Organism ID	Organism Name	Taxonomy Level	Family	SuperKingdom	Isolation Part	Collection Location	Collection Time	Reference
NPO28011	Swertia japonica	Species	Gentianaceae	Eukaryota	n.a.	n.a.	n.a.	DOI[10.1007/BF02675902]
NPO28011	Swertia japonica	Species	Gentianaceae	Eukaryota	n.a.	n.a.	n.a.	DOI[10.1055/s-2008-1074888]
NPO28011	Swertia japonica	Species	Gentianaceae	Eukaryota	n.a.	n.a.	n.a.	DOI[10.1248/cpb.30.4088]
NPO28011	Swertia japonica	Species	Gentianaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[10353265]
NPO13056	Lophatherum gracile	Species	Poaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[25527702]
NPO28011	Swertia japonica	Species	Gentianaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[26996316]
NPO5986	Ziziphus jujuba	Species	Rhamnaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[27617953]
NPO5986	Ziziphus jujuba	Species	Rhamnaceae	Eukaryota	Roots	n.a.	n.a.	PMID[28257196]
NPO28011	Swertia japonica	Species	Gentianaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[5583807]
NPO14381	Swertia pseudochinensis	Species	Gentianaceae	Eukaryota	n.a.	n.a.	n.a.	Database[COCONUT]
NPO5986	Ziziphus jujuba	Species	Rhamnaceae	Eukaryota	n.a.	n.a.	n.a.	Database[COCONUT]
NPO28011	Swertia japonica	Species	Gentianaceae	Eukaryota	n.a.	n.a.	n.a.	Database[COCONUT]
NPO14381	Swertia pseudochinensis	Species	Gentianaceae	Eukaryota	n.a.	n.a.	n.a.	Database[HerDing]
NPO5986	Ziziphus jujuba	Species	Rhamnaceae	Eukaryota	n.a.	n.a.	n.a.	Database[HerDing]
NPO28011	Swertia japonica	Species	Gentianaceae	Eukaryota	n.a.	n.a.	n.a.	Database[HerDing]
NPO13056	Lophatherum gracile	Species	Poaceae	Eukaryota	n.a.	n.a.	n.a.	Database[HerDing]
NPO14381	Swertia pseudochinensis	Species	Gentianaceae	Eukaryota	n.a.	n.a.	n.a.	Database[TCMID]
NPO28011	Swertia japonica	Species	Gentianaceae	Eukaryota	n.a.	n.a.	n.a.	Database[TCMID]
NPO5986	Ziziphus jujuba	Species	Rhamnaceae	Eukaryota	n.a.	n.a.	n.a.	Database[TCMID]
NPO13056	Lophatherum gracile	Species	Poaceae	Eukaryota	n.a.	n.a.	n.a.	Database[TCMID]
NPO28011	Swertia japonica	Species	Gentianaceae	Eukaryota	n.a.	n.a.	n.a.	Database[TCM_Taiwan]
NPO14381	Swertia pseudochinensis	Species	Gentianaceae	Eukaryota	n.a.	n.a.	n.a.	Database[TCM_Taiwan]
NPO13056	Lophatherum gracile	Species	Poaceae	Eukaryota	n.a.	n.a.	n.a.	Database[TCM_Taiwan]
NPO5986	Ziziphus jujuba	Species	Rhamnaceae	Eukaryota	n.a.	n.a.	n.a.	Database[TCM_Taiwan]
NPO14381	Swertia pseudochinensis	Species	Gentianaceae	Eukaryota	n.a.	n.a.	n.a.	Database[TM-MC]
NPO5986	Ziziphus jujuba	Species	Rhamnaceae	Eukaryota	n.a.	n.a.	n.a.	Database[TM-MC]
NPO28011	Swertia japonica	Species	Gentianaceae	Eukaryota	n.a.	n.a.	n.a.	Database[TM-MC]
NPO13056	Lophatherum gracile	Species	Poaceae	Eukaryota	n.a.	n.a.	n.a.	Database[TM-MC]
NPO28011	Swertia japonica	Species	Gentianaceae	Eukaryota	n.a.	n.a.	n.a.	Database[UNPD]
NPO14381	Swertia pseudochinensis	Species	Gentianaceae	Eukaryota	n.a.	n.a.	n.a.	Database[UNPD]

Note for Reference:
In addition to directly collecting NP source organism data from primary literature (where reference will provided as NCBI PMID or DOI links), NPASS also integrated them from below databases:
☉ UNPD: Universal Natural Products Database [PMID: 23638153].
☉ StreptomeDB: a database of streptomycetes natural products [PMID: 33051671].
☉ TM-MC: a database of medicinal materials and chemical compounds in Northeast Asian traditional medicine [PMID: 26156871].
☉ TCM@Taiwan: a Traditional Chinese Medicine database [PMID: 21253603].
☉ TCMID: a Traditional Chinese Medicine database [PMID: 29106634].
☉ TCMSP: The traditional Chinese medicine systems pharmacology database and analysis platform [PMID: 24735618].
☉ HerDing: a herb recommendation system to treat diseases using genes and chemicals [PMID: 26980517].
☉ MetaboLights: a metabolomics database [PMID: 27010336].
☉ FooDB: a database of constituents, chemistry and biology of food species [www.foodb.ca].

NP Quantity Composition/Concentration

Organism ID	Organism Name	Organism Material Preparation	Organism Part	NP Quantity (Standard)	NP Quantity (Minimum)	NP Quantity (Maximum)	Quantity Unit	Reference

Note for Reference:
In addition to directly collecting NP quantitative data from primary literature (where reference will provided as NCBI PMID or DOI links), NPASS also integrated NP quantitative records for specific NP domains (e.g., NPS from foods or herbs) from domain-specific databases. These databases include:
☉ DUKE: Dr. Duke's Phytochemical and Ethnobotanical Databases.
☉ PHENOL EXPLORER: is the first comprehensive database on polyphenol content in foods [PMID: 24103452], its homepage can be accessed at here.
☉ FooDB: a database of constituents, chemistry and biology of food species [www.foodb.ca].

Biological Activity

Activity Type	# Activity
Inhibition	4
IC50	8
GI50	58

Activity Type	# Activity
Individual protein	12
Cell line	58

Molecular-level activity

Target ID	Target Type	Target Name	Target Organism	Activity Type	Activity Relation	Value	Unit	Reference
NPT12	Individual protein	Human immunodeficiency virus type 1 integrase	Human immunodeficiency virus 1	Inhibition	=	62.7	%	PMID[9083481]
NPT12	Individual protein	Human immunodeficiency virus type 1 integrase	Human immunodeficiency virus 1	Inhibition	=	43.4	%	PMID[9083481]
NPT12	Individual protein	Human immunodeficiency virus type 1 integrase	Human immunodeficiency virus 1	Inhibition	=	92.2	%	PMID[9083481]
NPT12	Individual protein	Human immunodeficiency virus type 1 integrase	Human immunodeficiency virus 1	Inhibition	=	66.8	%	PMID[9083481]
NPT12	Individual protein	Human immunodeficiency virus type 1 integrase	Human immunodeficiency virus 1	IC50	=	224000.0	nM	PMID[9083481]
NPT12	Individual protein	Human immunodeficiency virus type 1 integrase	Human immunodeficiency virus 1	IC50	=	291000.0	nM	PMID[9083481]
NPT12	Individual protein	Human immunodeficiency virus type 1 integrase	Human immunodeficiency virus 1	IC50	=	134000.0	nM	PMID[9083481]
NPT12	Individual protein	Human immunodeficiency virus type 1 integrase	Human immunodeficiency virus 1	IC50	=	143000.0	nM	PMID[9083481]
NPT12	Individual protein	Human immunodeficiency virus type 1 integrase	Human immunodeficiency virus 1	IC50	=	100.0	ug.mL-1	PMID[9083481]
NPT12	Individual protein	Human immunodeficiency virus type 1 integrase	Human immunodeficiency virus 1	IC50	=	130.0	ug.mL-1	PMID[9083481]
NPT12	Individual protein	Human immunodeficiency virus type 1 integrase	Human immunodeficiency virus 1	IC50	=	60.0	ug.mL-1	PMID[9083481]
NPT12	Individual protein	Human immunodeficiency virus type 1 integrase	Human immunodeficiency virus 1	IC50	=	64.0	ug.mL-1	PMID[9083481]

In vitro activity

Target ID	Target Type	Target Name	Target Organism	Activity Type	Activity Relation	Value	Unit	Reference
NPT368	Cell line	SN12C	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT370	Cell line	NCI-H23	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT369	Cell line	ACHN	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT371	Cell line	UO-31	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT116	Cell line	HL-60	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT374	Cell line	SF-539	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT375	Cell line	Malme-3M	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT373	Cell line	SK-MEL-5	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT111	Cell line	K562	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT376	Cell line	A498	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT377	Cell line	OVCAR-3	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT379	Cell line	HOP-62	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT112	Cell line	MOLT-4	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT380	Cell line	U-251	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT381	Cell line	OVCAR-8	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT382	Cell line	OVCAR-5	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT572	Cell line	DMS-273	Homo sapiens	GI50	n.a.	62373.48	nM	PubChem BioAssay data set
NPT383	Cell line	SNB-19	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT384	Cell line	TK-10	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT385	Cell line	SR	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT573	Cell line	M19-MEL	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT323	Cell line	SW-620	Homo sapiens	GI50	n.a.	11508.0	nM	PubChem BioAssay data set
NPT386	Cell line	KM12	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT455	Cell line	NCI-H522	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT387	Cell line	M14	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT574	Cell line	XF498	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT389	Cell line	RPMI-8226	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT388	Cell line	NCI-H322M	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT456	Cell line	OVCAR-4	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT390	Cell line	LOX IMVI	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT147	Cell line	SK-MEL-2	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT575	Cell line	KM-20L2	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT81	Cell line	A549	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT392	Cell line	SNB-75	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT391	Cell line	HCC 2998	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT393	Cell line	HCT-116	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT148	Cell line	HCT-15	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT395	Cell line	SF-268	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT394	Cell line	EKVX	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT731	Cell line	LXFL 529	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT576	Cell line	DMS-114	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT146	Cell line	SK-OV-3	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT398	Cell line	UACC-62	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT397	Cell line	NCI-H460	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT308	Cell line	CAKI-1	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT399	Cell line	SF-295	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT458	Cell line	IGROV-1	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT577	Cell line	RXF 631	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT578	Cell line	SNB-78	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT403	Cell line	UACC-257	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT401	Cell line	786-0	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT579	Cell line	DLD-1	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT404	Cell line	CCRF-CEM	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT405	Cell line	NCI-H226	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT139	Cell line	HT-29	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT170	Cell line	SK-MEL-28	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT407	Cell line	COLO 205	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT732	Cell line	HOP-18	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set

In vivo activity

Target ID	Target Type	Target Name	Target Organism	Activity Type	Activity Relation	Value	Unit	Reference

Experimental ADME

Experiment Model	Experiment Tissue	ADME Type	ADME Relation	ADME Value	ADME Unit	Reference

Experimental Toxicity

Quantitative toxicity

Experiment Model	Experiment Organism	Toxicity Type	Toxicity Relation	Toxicity Value	Toxicity Unit	Reference

Common Abbreviations:
LC: Lethal Concentration; LD: Lethal Dose; LT:Lethal Time; NOAEL: No-observed-adverse-effect Level; BMDL: Benchmark Dose Lower Confidence Limit; BMD: Benchmark Dose; BMC:Benchmark Concentration; LOAEL: Lowest Observed Adverse Effect Level; RfD:Reference Dose; RfC:Reference Concentration; MRL: Minimal Risk Level; MEG: Maximum Exposure Guideline; PAC: Protective Action Criteria

Categorical toxicity labels

Hepatotoxicity	Carcinogenicity	Mutagenicity	Cardiotoxicity	Respiratory Toxicity	Eye Irritation	Endocrine Disruption

Note for Reference:
In addition to directly collecting NP quantitative data from primary literature (where reference will provided as NCBI PMID or DOI links), NPASS also integrated NP toxicity records from domain-specific databases. These databases include:
☉ ToxValDB: a curated database that compiles quantitative toxicity values for chemicals from diverse public sources to support toxicological research and risk assessment.
☉ TOXRIC: a comprehensive, free-to-access, online database providing toxicological/feature data. The toxicity labels are retrieved from this database. [PMID: 36400569]

Chemically structural similarity

Similar Active Natural Products in NPASS

Top-200 similar NPs were calculated against the active-NP-set (includes approximately 50,000 NPs with experimentally-derived bioactivity available in NPASS)

Similarity is measured using the Tanimoto coefficient (Tc) , which compares the binary fingerprints of two molecules. Tc is calculated as the intersection divided by the union of '1' bits in the fingerprints, ranging from 0 to 1, with 1 indicating highest similarity.

● The left chart: Distribution of similarity level between NPC10807 and all remaining natural products in the NPASS database.
● The right table: Most similar natural products (Tc>=0.5 or Top200).

range	Tanimoto Coefficient
0-0.1	22669
0.1-0.2	23258
0.2-0.3	2984
0.3-0.4	725
0.4-0.5	181
0.5-0.6	25
0.6-0.7	6
0.7-0.8	0
0.8-0.85	0
0.85-0.9	1
0.9-0.95	0
0.95-1	1

Similarity Score	Similarity Level	Natural Product ID
1.0	High Similarity	NPC161881
0.8592	High Similarity	NPC602537
0.7838	Intermediate Similarity	NPC304745
0.7108	Intermediate Similarity	NPC607513
0.7067	Intermediate Similarity	NPC328740
0.7067	Intermediate Similarity	NPC289774
0.7024	Intermediate Similarity	NPC606373
0.6585	Remote Similarity	NPC111249
0.6329	Remote Similarity	NPC112701
0.6282	Remote Similarity	NPC209846
0.6143	Remote Similarity	NPC78913
0.6125	Remote Similarity	NPC53545
0.6067	Remote Similarity	NPC257566
0.5814	Remote Similarity	NPC326592
0.5814	Remote Similarity	NPC109594
0.5783	Remote Similarity	NPC93337
0.5732	Remote Similarity	NPC220912
0.5714	Remote Similarity	NPC105025
0.5667	Remote Similarity	NPC47923
0.5556	Remote Similarity	NPC603300
0.5488	Remote Similarity	NPC268193
0.5476	Remote Similarity	NPC39360
0.5476	Remote Similarity	NPC29763
0.5476	Remote Similarity	NPC210003
0.5444	Remote Similarity	NPC472607
0.5422	Remote Similarity	NPC117418
0.5412	Remote Similarity	NPC146792
0.5385	Remote Similarity	NPC476185
0.5368	Remote Similarity	NPC150767
0.5342	Remote Similarity	NPC120163
0.5172	Remote Similarity	NPC610763
0.5165	Remote Similarity	NPC190393
0.5158	Remote Similarity	NPC606547
0.5135	Remote Similarity	NPC18260
0.5135	Remote Similarity	NPC198826
0.5135	Remote Similarity	NPC234133
0.5125	Remote Similarity	NPC265932
0.5057	Remote Similarity	NPC478511

Similar Clinical/Approved Drugs

Similarity level is defined by Tanimoto coefficient (Tc) between two molecules.

● The left chart: Distribution of similarity level between NPC10807 and all drugs/candidates.
● The right table: Most similar clinical/approved drugs (Tc>=0.5 or Top200).

range	Tanimoto Coefficient
0-0.1	5027
0.1-0.2	4030
0.2-0.3	81
0.3-0.4	11
0.4-0.5	1
0.5-0.6	0
0.6-0.7	0
0.7-0.8	0
0.8-0.85	0
0.85-0.9	0
0.9-0.95	0
0.95-1	0

Similarity Score	Similarity Level	Drug ID	Developmental Stage
		NPD

Bioactivity similarity

Similar Natural Products in NPASS

Similarity level is defined by Bioactivity similarity was calculated based on bioactivity descriptors of compounds. The bioactivity descriptors were calculated by a recently developed AI algorithm Chemical Checker (CC) [Nature Biotechnology, 38:1087–1096, 2020; Nature Communications, 12:3932, 2021], which evaluated bioactivity similarities at five levels:
☉ A: chemistry similarity;
☉ B: biological targets similarity;
☉ C: networks similarity;
☉ D: cell-based bioactivity similarity;
☉ E: similarity based on clinical data.
Those 5 categories of CC bioactivity descriptors were calculated and then subjected to manifold projection using UMAP algorithm, to project all NPs on a 2-Dimensional space. The current NP was highlighted with a small circle in the 2-D map. Below figures: left-to-right, A-to-E.

A: chemistry similarity

B: biological targets similarity

C: networks similarity

D: cell-based bioactivity similarity

E: similarity based on clinical data