NPASS Compound

Natural Product: NPC19376

Natural Product ID	NPC19376
Common Name ? The InCHIKey will be temporarily assigned as the "Common Name" if no IUPAC name or alternative short name is available.	8,10,11-Trihydroxy-9-(Hydroxymethyl)-1,2,6A,6B,9,12A-Hexamethyl-2,3,4,5,6,6A,7,8,8A,10,11,12,13,14B-Tetradecahydro-1H-Picene-4A-Carboxylic Acid
IUPAC Name	8,10,11-trihydroxy-9-(hydroxymethyl)-1,2,6a,6b,9,12a-hexamethyl-2,3,4,5,6,6a,7,8,8a,10,11,12,13,14b-tetradecahydro-1H-picene-4a-carboxylic acid
Synonyms
Synthetic Gene Cluster	n.a.
ChEMBL Identifier	CHEMBL1993179
PubChem CID	258809
Chemical Classification	CHEMONTID:0000000 [Organic compounds] [CHEMONTID:0000012] Lipids and lipid-like molecules [CHEMONTID:0000259] Prenol lipids [CHEMONTID:0001553] Triterpenoids

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 84 88 0 0 0 0 0 0 0 0999 V2000 6.1192 -1.4016 1.0824 C 0 0 0 0 0 0 0 0 0 0 0 0 4.5979 -1.2195 1.0739 C 0 0 0 0 0 0 0 0 0 0 0 0 4.0053 -2.2226 0.1879 C 0 0 0 0 0 0 0 0 0 0 0 0 3.6344 -1.8321 -1.1795 C 0 0 0 0 0 0 0 0 0 0 0 0 3.3692 -0.3943 -1.4641 C 0 0 0 0 0 0 0 0 0 0 0 0 2.2536 -0.2835 -2.4331 C 0 0 0 0 0 0 0 0 0 0 0 0 0.8644 0.0101 -1.9837 C 0 0 0 0 0 0 0 0 0 0 0 0 0.8570 0.9735 -0.8167 C 0 0 0 0 0 0 0 0 0 0 0 0 1.5399 2.2261 -1.4282 C 0 0 0 0 0 0 0 0 0 0 0 0 1.7788 0.3235 0.1384 C 0 0 0 0 0 0 0 0 0 0 0 0 1.3072 -0.3652 1.1225 C 0 0 0 0 0 0 0 0 0 0 0 0 -0.1470 -0.5606 1.3664 C 0 0 0 0 0 0 0 0 0 0 0 0 -0.9210 0.6846 0.9983 C 0 0 0 0 0 0 0 0 0 0 0 0 -2.4106 0.4307 1.0462 C 0 0 0 0 0 0 0 0 0 0 0 0 -3.1453 1.6402 1.5523 C 0 0 0 0 0 0 0 0 0 0 0 0 -2.6396 -0.6259 2.1398 C 0 0 0 0 0 0 0 0 0 0 0 0 -4.1035 -1.0007 2.2594 C 0 0 0 0 0 0 0 0 0 0 0 0 -4.6840 -1.4160 0.9548 C 0 0 0 0 0 0 0 0 0 0 0 0 -4.3529 -0.5325 -0.2120 C 0 0 0 0 0 0 0 0 0 0 0 0 -5.3356 0.5631 -0.2995 C 0 0 0 0 0 0 0 0 0 0 0 0 -4.5469 -1.4199 -1.4558 C 0 0 0 0 0 0 0 0 0 0 0 0 -3.7014 -2.5048 -1.3932 O 0 0 0 0 0 0 0 0 0 0 0 0 -2.8999 -0.1440 -0.2250 C 0 0 0 0 0 0 0 0 0 0 0 0 -2.5332 0.6440 -1.4388 C 0 0 0 0 0 0 0 0 0 0 0 0 -1.4927 1.6739 -1.2458 C 0 0 0 0 0 0 0 0 0 0 0 0 -0.4211 1.3811 -0.2283 C 0 0 0 0 0 0 0 0 0 0 0 0 -0.0830 2.8044 0.3318 C 0 0 0 0 0 0 0 0 0 0 0 0 -2.2539 -0.2311 -2.5167 O 0 0 0 0 0 0 0 0 0 0 0 0 -6.0906 -1.4083 1.0897 O 0 0 0 0 0 0 0 0 0 0 0 0 -4.1053 -2.1662 3.0729 O 0 0 0 0 0 0 0 0 0 0 0 0 3.2113 0.4546 -0.2060 C 0 0 0 0 0 0 0 0 0 0 0 0 4.1824 0.2035 0.8616 C 0 0 0 0 0 0 0 0 0 0 0 0 3.7549 0.8864 2.1552 C 0 0 0 0 0 0 0 0 0 0 0 0 4.5831 0.1477 -2.1413 C 0 0 0 0 0 0 0 0 0 0 0 0 5.2522 1.1031 -1.6937 O 0 0 0 0 0 0 0 0 0 0 0 0 5.0382 -0.4125 -3.3494 O 0 0 0 0 0 0 0 0 0 0 0 0 6.4342 -2.1325 1.8560 H 0 0 0 0 0 0 0 0 0 0 0 0 6.6271 -0.4465 1.3371 H 0 0 0 0 0 0 0 0 0 0 0 0 6.4666 -1.8209 0.1105 H 0 0 0 0 0 0 0 0 0 0 0 0 4.2983 -1.4667 2.1380 H 0 0 0 0 0 0 0 0 0 0 0 0 3.0743 -2.6515 0.6729 H 0 0 0 0 0 0 0 0 0 0 0 0 4.6938 -3.1220 0.1666 H 0 0 0 0 0 0 0 0 0 0 0 0 2.7482 -2.4242 -1.5781 H 0 0 0 0 0 0 0 0 0 0 0 0 4.4582 -2.1702 -1.8768 H 0 0 0 0 0 0 0 0 0 0 0 0 2.1673 -1.2973 -2.9575 H 0 0 0 0 0 0 0 0 0 0 0 0 2.5558 0.3496 -3.3239 H 0 0 0 0 0 0 0 0 0 0 0 0 0.3703 0.5183 -2.8339 H 0 0 0 0 0 0 0 0 0 0 0 0 0.2962 -0.9033 -1.7885 H 0 0 0 0 0 0 0 0 0 0 0 0 1.9066 2.9166 -0.6797 H 0 0 0 0 0 0 0 0 0 0 0 0 0.7841 2.7815 -2.0478 H 0 0 0 0 0 0 0 0 0 0 0 0 2.3069 1.9413 -2.1747 H 0 0 0 0 0 0 0 0 0 0 0 0 2.0001 -0.8520 1.8384 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.4936 -1.4532 0.7991 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.2923 -0.8075 2.4349 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.7900 1.3157 1.9432 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.1496 1.4400 1.9352 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.5549 1.9931 2.4509 H 0 0 0 0 0 0 0 0 0 0 0 0 -3.2123 2.4903 0.8910 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.3356 -0.1388 3.0874 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.1202 -1.5683 1.9437 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.7049 -0.2821 2.8371 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.4295 -2.4916 0.7443 H 0 0 0 0 0 0 0 0 0 0 0 0 -5.9771 0.6010 0.6315 H 0 0 0 0 0 0 0 0 0 0 0 0 -6.1008 0.3966 -1.1165 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.9655 1.5704 -0.4496 H 0 0 0 0 0 0 0 0 0 0 0 0 -5.6159 -1.7695 -1.3579 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.4893 -0.8572 -2.3865 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.0660 -3.3343 -1.7549 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.3595 -1.1378 -0.3367 H 0 0 0 0 0 0 0 0 0 0 0 0 -3.4785 1.1655 -1.7790 H 0 0 0 0 0 0 0 0 0 0 0 0 -1.9706 2.6925 -1.1056 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.9881 1.8207 -2.2252 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.0685 3.5595 -0.4307 H 0 0 0 0 0 0 0 0 0 0 0 0 0.8039 2.7173 0.9891 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.9021 3.0945 1.0440 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.0360 0.3400 -3.3107 H 0 0 0 0 0 0 0 0 0 0 0 0 -6.3706 -1.1619 1.9931 H 0 0 0 0 0 0 0 0 0 0 0 0 -3.6222 -1.9242 3.9001 H 0 0 0 0 0 0 0 0 0 0 0 0 3.3714 1.5083 -0.5673 H 0 0 0 0 0 0 0 0 0 0 0 0 5.1476 0.7302 0.5807 H 0 0 0 0 0 0 0 0 0 0 0 0 4.4618 1.7162 2.4560 H 0 0 0 0 0 0 0 0 0 0 0 0 3.8075 0.1793 3.0145 H 0 0 0 0 0 0 0 0 0 0 0 0 2.7766 1.3971 2.0599 H 0 0 0 0 0 0 0 0 0 0 0 0 6.0554 -0.4394 -3.4968 H 0 0 0 0 0 0 0 0 0 0 0 0 1 2 1 0 2 3 1 0 3 4 1 0 4 5 1 0 5 6 1 0 6 7 1 0 7 8 1 0 8 9 1 0 8 10 1 0 10 11 2 0 11 12 1 0 12 13 1 0 13 14 1 0 14 15 1 0 14 16 1 0 16 17 1 0 17 18 1 0 18 19 1 0 19 20 1 0 19 21 1 0 21 22 1 0 19 23 1 0 23 24 1 0 24 25 1 0 25 26 1 0 26 27 1 0 24 28 1 0 18 29 1 0 17 30 1 0 10 31 1 0 31 32 1 0 32 33 1 0 5 34 1 0 34 35 2 0 34 36 1 0 32 2 1 0 31 5 1 0 26 8 1 0 26 13 1 0 23 14 1 0 1 37 1 0 1 38 1 0 1 39 1 0 2 40 1 0 3 41 1 0 3 42 1 0 4 43 1 0 4 44 1 0 6 45 1 0 6 46 1 0 7 47 1 0 7 48 1 0 9 49 1 0 9 50 1 0 9 51 1 0 11 52 1 0 12 53 1 0 12 54 1 0 13 55 1 0 15 56 1 0 15 57 1 0 15 58 1 0 16 59 1 0 16 60 1 0 17 61 1 0 18 62 1 0 20 63 1 0 20 64 1 0 20 65 1 0 21 66 1 0 21 67 1 0 22 68 1 0 23 69 1 0 24 70 1 0 25 71 1 0 25 72 1 0 27 73 1 0 27 74 1 0 27 75 1 0 28 76 1 0 29 77 1 0 30 78 1 0 31 79 1 0 32 80 1 0 33 81 1 0 33 82 1 0 33 83 1 0 36 84 1 0 M END

Standard InCHIKey	PRAUVHZJPXOEIF-UHFFFAOYSA-N
Standard InCHI	InChI=1S/C30H48O6/c1-16-9-10-30(25(35)36)12-11-28(5)18(22(30)17(16)2)7-8-21-26(3)13-20(33)24(34)27(4,15-31)23(26)19(32)14-29(21,28)6/h7,16-17,19-24,31-34H,8-15H2,1-6H3,(H,35,36)
SMILES	CC1CCC2(CCC3(C)C(=CCC4C5(C)CC(C(C(C)(CO)C5C(CC34C)O)O)O)C2C1C)C(=O)O

Calculated Properties

Physi-Chem Properties

Molecular Weight:	504.35	Volume:	532.122 ? Van der Waals volume.
Dense:	0.948	LogP:	2.601 ? The logarithm of the n-octanol/water distribution coefficients.
logD7.4:	2.688 ? The logarithm of the n-octanol/water distribution coefficient at pH=7.4.	LogS:	-4.217 ? The logarithm of aqueous solubility value.
Rotatable Bonds:	2.0	Rigid Bonds:	27.0
TPSA:	118.22 ? Topological Polar Surface Area.	H-Bond Acceptor:	6.0
H-Bond Donor:	5.0	Rings:	5.0
Heavy Atoms:	6.0

MedChem Properties

QED Drug-Likeness Score:	0.363	GASA:	1.0 ? GASA represents the probability of being difficult to synthesize, ranging from 0 to 1.
Synthetic Accessibility Score:	5.238	Fsp³:	0.9
MCE-18:	108.07 ? 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:	Accepted	BMS Rule:	0
Chelating Alert:	0	PAINS Alert:	0
Colloidal aggregators:	0.17	Fluc inhibitor:	0.0 ? The fluc inhibitor value is the probability of being fLuc inhibitors, within the range of 0 to 1.
Blue fluorescence:	0.015 ? The blue fluorescence value is the probability of being blue fluorescence, within the range of 0 to 1	Green fluorescence:	0.022 ? The green fluorescence value is the probability of being green fluorescence, within the range of 0 to 1
Reactive compounds:	0.2	Promiscuous compounds:	0.005

ADMET Properties (ADMETlab3.0)

ADMET: Absorption

Caco-2 Permeability:	-5.812	MDCK Permeability:	-4.97
Pgp-inhibitor:	0.0	Pgp-substrate:	0.439
PAMPA:	1.0 ? 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):	0.124
20% Bioavailability (F20%):	0.046	30% Bioavailability (F30%):	0.141
50% Bioavailability (F50%):	0.99

ADMET: Distribution

Blood-Brain-Barrier Penetration (BBB):	0.547	MRP1:	1.0
Plasma Protein Binding (PPB):	71.798%	Volume Distribution (VD):	-0.441
Fu:	21.9% ? The fraction unbound in plasms.	OATP1B1 inhibitor:	0.012
OATP1B3 inhibitor:	0.758	BCRP inhibitor:	0.0
BSEP inhibitor:	0.018

ADMET: Metabolism

CYP1A2-inhibitor:	0.0	CYP1A2-substrate:	0.0
CYP2C19-inhibitor:	0.0	CYP2C19-substrate:	0.0
CYP2C9-inhibitor:	0.996	CYP2C9-substrate:	0.0
CYP2D6-inhibitor:	0.0	CYP2D6-substrate:	0.0
CYP3A4-inhibitor:	0.0	CYP3A4-substrate:	0.0
CYP2B6-substrate:	0.0	CYP2C8-inhibitor:	0.0
HLM stability:	0.0 ? 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):

3.183

Half-life (T1/2):

2.753

ADMET: Toxicity

hERG Blockers:	0.027	hERG Blockers (10um):	0.158
Human Hepatotoxicity (H-HT):	0.446	Drug-induced Liver Injury (DILI):	0.107
AMES Toxicity:	0.053	Rat Oral Acute Toxicity:	0.08
Maximum Recommended Daily Dose:	0.62	Skin Sensitization:	0.004
Carcinogencity:	0.264	Eye Corrosion:	0.0
Eye Irritation:	0.004	Respiratory Toxicity:	0.23
Drug-induced Neurotoxicity:	0.09	Ototoxicity:	0.989
Hematotoxicity:	0.073	Drug-induced Nephrotoxicity:	0.196
Genotoxicity:	0.003	RPMI-8226 Immunitoxicity:	0.024
A549 Cytotoxicity:	0.024	Hek293 Cytotoxicity:	0.149
BCF:	0.64 ? 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:	3.641 ? 48 hour Tetrahymena pyriformis IGC50. The unit of IGC50 is -log10[(mg/L)/(1000*MW)].
LC50DM:	5.479 ? 48 hour Daphnia magna LC50. The unit of LC50DM is -log10[(mg/L)/(1000*MW)].	LC50FM:	4.234 ? 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
NPO11144	Centella asiatica	Species	Apiaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[ 17560738]
NPO11144	Centella asiatica	Species	Apiaceae	Eukaryota	n.a.	n.a.	n.a.	DOI[10.1007/s11816-015-0350-y]
NPO11144	Centella asiatica	Species	Apiaceae	Eukaryota	n.a.	aerial part	n.a.	PMID[17520525]
NPO11144	Centella asiatica	Species	Apiaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[22966846]
NPO11144	Centella asiatica	Species	Apiaceae	Eukaryota	n.a.	n.a.	n.a.	Database[COCONUT]
NPO11144	Centella asiatica	Species	Apiaceae	Eukaryota	n.a.	n.a.	n.a.	Database[HerDing]
NPO11144	Centella asiatica	Species	Apiaceae	Eukaryota	n.a.	n.a.	n.a.	Database[MetaboLights]
NPO11144	Centella asiatica	Species	Apiaceae	Eukaryota	n.a.	n.a.	n.a.	Database[TCMID]
NPO11144	Centella asiatica	Species	Apiaceae	Eukaryota	n.a.	n.a.	n.a.	Database[TCM_Taiwan]
NPO11144	Centella asiatica	Species	Apiaceae	Eukaryota	n.a.	n.a.	n.a.	Database[TM-MC]
NPO11144	Centella asiatica	Species	Apiaceae	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
GI50	60

Activity Type	# Activity
Cell line	60

Molecular-level activity

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

In vitro activity

Target ID	Target Type	Target Name	Target Organism	Activity Type	Activity Relation	Value	Unit	Reference
NPT367	Cell line	MDA-N	Homo sapiens	GI50	n.a.	11066.24	nM	PubChem BioAssay data set
NPT368	Cell line	SN12C	Homo sapiens	GI50	n.a.	2123.24	nM	PubChem BioAssay data set
NPT369	Cell line	ACHN	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT370	Cell line	NCI-H23	Homo sapiens	GI50	n.a.	65765.78	nM	PubChem BioAssay data set
NPT371	Cell line	UO-31	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT372	Cell line	HOP-92	Homo sapiens	GI50	n.a.	20796.97	nM	PubChem BioAssay data set
NPT116	Cell line	HL-60	Homo sapiens	GI50	n.a.	20183.66	nM	PubChem BioAssay data set
NPT374	Cell line	SF-539	Homo sapiens	GI50	n.a.	38994.2	nM	PubChem BioAssay data set
NPT90	Cell line	DU-145	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT375	Cell line	Malme-3M	Homo sapiens	GI50	n.a.	47533.52	nM	PubChem BioAssay data set
NPT373	Cell line	SK-MEL-5	Homo sapiens	GI50	n.a.	41783.04	nM	PubChem BioAssay data set
NPT111	Cell line	K562	Homo sapiens	GI50	n.a.	41114.97	nM	PubChem BioAssay data set
NPT376	Cell line	A498	Homo sapiens	GI50	n.a.	24266.1	nM	PubChem BioAssay data set
NPT377	Cell line	OVCAR-3	Homo sapiens	GI50	n.a.	24099.05	nM	PubChem BioAssay data set
NPT112	Cell line	MOLT-4	Homo sapiens	GI50	n.a.	58210.32	nM	PubChem BioAssay data set
NPT379	Cell line	HOP-62	Homo sapiens	GI50	n.a.	45394.16	nM	PubChem BioAssay data set
NPT378	Cell line	NCI/ADR-RES	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT380	Cell line	U-251	Homo sapiens	GI50	n.a.	21627.19	nM	PubChem BioAssay data set
NPT381	Cell line	OVCAR-8	Homo sapiens	GI50	n.a.	21086.28	nM	PubChem BioAssay data set
NPT382	Cell line	OVCAR-5	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT82	Cell line	MDA-MB-231	Homo sapiens	GI50	n.a.	39902.49	nM	PubChem BioAssay data set
NPT383	Cell line	SNB-19	Homo sapiens	GI50	n.a.	22698.65	nM	PubChem BioAssay data set
NPT385	Cell line	SR	Homo sapiens	GI50	n.a.	22803.42	nM	PubChem BioAssay data set
NPT384	Cell line	TK-10	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT323	Cell line	SW-620	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT455	Cell line	NCI-H522	Homo sapiens	GI50	n.a.	17498.47	nM	PubChem BioAssay data set
NPT386	Cell line	KM12	Homo sapiens	GI50	n.a.	43251.38	nM	PubChem BioAssay data set
NPT387	Cell line	M14	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT388	Cell line	NCI-H322M	Homo sapiens	GI50	n.a.	90364.95	nM	PubChem BioAssay data set
NPT389	Cell line	RPMI-8226	Homo sapiens	GI50	n.a.	33419.5	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.	20511.62	nM	PubChem BioAssay data set
NPT457	Cell line	BT-549	Homo sapiens	GI50	n.a.	31695.67	nM	PubChem BioAssay data set
NPT147	Cell line	SK-MEL-2	Homo sapiens	GI50	n.a.	19408.86	nM	PubChem BioAssay data set
NPT81	Cell line	A549	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT391	Cell line	HCC 2998	Homo sapiens	GI50	n.a.	35892.19	nM	PubChem BioAssay data set
NPT392	Cell line	SNB-75	Homo sapiens	GI50	n.a.	28119.01	nM	PubChem BioAssay data set
NPT148	Cell line	HCT-15	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT393	Cell line	HCT-116	Homo sapiens	GI50	n.a.	5649.37	nM	PubChem BioAssay data set
NPT395	Cell line	SF-268	Homo sapiens	GI50	n.a.	28510.18	nM	PubChem BioAssay data set
NPT394	Cell line	EKVX	Homo sapiens	GI50	n.a.	89330.55	nM	PubChem BioAssay data set
NPT306	Cell line	PC-3	Homo sapiens	GI50	n.a.	83560.3	nM	PubChem BioAssay data set
NPT83	Cell line	MCF7	Homo sapiens	GI50	n.a.	41495.4	nM	PubChem BioAssay data set
NPT146	Cell line	SK-OV-3	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT396	Cell line	T47D	Homo sapiens	GI50	n.a.	37411.06	nM	PubChem BioAssay data set
NPT397	Cell line	NCI-H460	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT398	Cell line	UACC-62	Homo sapiens	GI50	n.a.	21330.45	nM	PubChem BioAssay data set
NPT308	Cell line	CAKI-1	Homo sapiens	GI50	n.a.	100000.0	nM	PubChem BioAssay data set
NPT400	Cell line	MDA-MB-435	Homo sapiens	GI50	n.a.	45603.69	nM	PubChem BioAssay data set
NPT399	Cell line	SF-295	Homo sapiens	GI50	n.a.	74473.2	nM	PubChem BioAssay data set
NPT458	Cell line	IGROV-1	Homo sapiens	GI50	n.a.	19230.92	nM	PubChem BioAssay data set
NPT402	Cell line	Hs-578T	Homo sapiens	GI50	n.a.	19408.86	nM	PubChem BioAssay data set
NPT401	Cell line	786-0	Homo sapiens	GI50	n.a.	3288.52	nM	PubChem BioAssay data set
NPT403	Cell line	UACC-257	Homo sapiens	GI50	n.a.	98401.11	nM	PubChem BioAssay data set
NPT404	Cell line	CCRF-CEM	Homo sapiens	GI50	n.a.	19010.78	nM	PubChem BioAssay data set
NPT139	Cell line	HT-29	Homo sapiens	GI50	n.a.	88511.56	nM	PubChem BioAssay data set
NPT405	Cell line	NCI-H226	Homo sapiens	GI50	n.a.	79615.94	nM	PubChem BioAssay data set
NPT170	Cell line	SK-MEL-28	Homo sapiens	GI50	n.a.	30760.97	nM	PubChem BioAssay data set
NPT406	Cell line	RXF 393	Homo sapiens	GI50	n.a.	31260.79	nM	PubChem BioAssay data set
NPT407	Cell line	COLO 205	Homo sapiens	GI50	n.a.	50003.45	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 NPC19376 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	24370
0.1-0.2	22166
0.2-0.3	2797
0.3-0.4	344
0.4-0.5	103
0.5-0.6	45
0.6-0.7	16
0.7-0.8	0
0.8-0.85	3
0.85-0.9	0
0.9-0.95	0
0.95-1	2

Similarity Score	Similarity Level	Natural Product ID
1.0	High Similarity	NPC305464
1.0	High Similarity	NPC25848
0.8125	Intermediate Similarity	NPC32407
0.8125	Intermediate Similarity	NPC263548
0.8125	Intermediate Similarity	NPC606320
0.7424	Intermediate Similarity	NPC71074
0.7424	Intermediate Similarity	NPC605937
0.7273	Intermediate Similarity	NPC307282
0.6812	Remote Similarity	NPC40092
0.6812	Remote Similarity	NPC87095
0.6667	Remote Similarity	NPC61543
0.6667	Remote Similarity	NPC293048
0.6667	Remote Similarity	NPC225585
0.6429	Remote Similarity	NPC37221
0.6301	Remote Similarity	NPC20235
0.6301	Remote Similarity	NPC299996
0.6301	Remote Similarity	NPC117663
0.6286	Remote Similarity	NPC51700
0.6286	Remote Similarity	NPC88716
0.6286	Remote Similarity	NPC68160
0.6232	Remote Similarity	NPC43686
0.6197	Remote Similarity	NPC88116
0.6111	Remote Similarity	NPC173089
0.6027	Remote Similarity	NPC247139
0.5972	Remote Similarity	NPC231063
0.5972	Remote Similarity	NPC282395
0.5972	Remote Similarity	NPC173744
0.5972	Remote Similarity	NPC204961
0.5972	Remote Similarity	NPC73004
0.5972	Remote Similarity	NPC609452
0.5946	Remote Similarity	NPC137072
0.5915	Remote Similarity	NPC477289
0.589	Remote Similarity	NPC477288
0.5844	Remote Similarity	NPC230151
0.5789	Remote Similarity	NPC479743
0.5775	Remote Similarity	NPC274050
0.5775	Remote Similarity	NPC162632
0.5753	Remote Similarity	NPC73489
0.5753	Remote Similarity	NPC130278
0.5753	Remote Similarity	NPC110308
0.5733	Remote Similarity	NPC25299
0.5733	Remote Similarity	NPC481322
0.5694	Remote Similarity	NPC274330
0.5541	Remote Similarity	NPC472149
0.5541	Remote Similarity	NPC300351
0.5526	Remote Similarity	NPC477290
0.5467	Remote Similarity	NPC259733
0.5467	Remote Similarity	NPC158371
0.5467	Remote Similarity	NPC207922
0.5405	Remote Similarity	NPC84319
0.5405	Remote Similarity	NPC52021
0.5405	Remote Similarity	NPC599947
0.5395	Remote Similarity	NPC118519
0.5395	Remote Similarity	NPC485589
0.5357	Remote Similarity	NPC57362
0.5342	Remote Similarity	NPC277399
0.5326	Remote Similarity	NPC479747
0.5326	Remote Similarity	NPC479746
0.5294	Remote Similarity	NPC177246
0.5256	Remote Similarity	NPC481318
0.52	Remote Similarity	NPC64872
0.52	Remote Similarity	NPC25906
0.5195	Remote Similarity	NPC201657
0.5132	Remote Similarity	NPC481314
0.5128	Remote Similarity	NPC127689
0.5125	Remote Similarity	NPC485586
0.5125	Remote Similarity	NPC485588
0.5065	Remote Similarity	NPC291028
0.5065	Remote Similarity	NPC145667

Similar Clinical/Approved Drugs

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

● The left chart: Distribution of similarity level between NPC19376 and all drugs/candidates.
● The right table: Most similar clinical/approved drugs (Tc>=0.5 or Top200).

range	Tanimoto Coefficient
0-0.1	6566
0.1-0.2	2542
0.2-0.3	40
0.3-0.4	2
0.4-0.5	0
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