NPASS Compound

Natural Product: NPC551050

Natural Product ID	NPC551050
Common Name ? The InCHIKey will be temporarily assigned as the "Common Name" if no IUPAC name or alternative short name is available.	(2~{S},3~{R},4~{R},5~{S})-2-[(3~{R},5~{S},8~{R},9~{R},10~{R},13~{R},14~{R},17~{R})-3-hydroxy-10,13-dimethyl-2,3,4,5,6,7,8,9,11,12,14,15,16,17-tetradecahydro-1~{H}-cyclopenta[a]phenanthren-17-yl]-5,6-dimethyl-heptane-3,4-diol
IUPAC Name	(2~{S},3~{R},4~{R},5~{S})-2-[(3~{R},5~{S},8~{R},9~{R},10~{R},13~{R},14~{R},17~{R})-3-hydroxy-10,13-dimethyl-2,3,4,5,6,7,8,9,11,12,14,15,16,17-tetradecahydro-1~{H}-cyclopenta[a]phenanthren-17-yl]-5,6-dimethyl-heptane-3,4-diol
Synonyms
Synthetic Gene Cluster	n.a.
ChEMBL Identifier	n.a.
PubChem CID	n.a.
Chemical Classification	CHEMONTID:0000000 [Organic compounds]

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 81 84 0 0 0 0 0 0 0 0999 V2000 6.1302 -2.2724 -2.0877 C 0 0 0 0 0 0 0 0 0 0 0 0 6.7278 -1.0322 -1.5180 C 0 0 0 0 0 0 0 0 0 0 0 0 7.5446 -1.3934 -0.3002 C 0 0 0 0 0 0 0 0 0 0 0 0 5.7194 0.0358 -1.2077 C 0 0 2 0 0 0 0 0 0 0 0 0 6.3245 1.2778 -0.6342 C 0 0 0 0 0 0 0 0 0 0 0 0 4.5815 -0.5221 -0.3463 C 0 0 1 0 0 0 0 0 0 0 0 0 5.1366 -0.9960 0.8183 O 0 0 0 0 0 0 0 0 0 0 0 0 3.4851 0.4784 -0.1868 C 0 0 2 0 0 0 0 0 0 0 0 0 3.8543 1.5883 0.5471 O 0 0 0 0 0 0 0 0 0 0 0 0 2.1533 -0.0558 0.2801 C 0 0 1 0 0 0 0 0 0 0 0 0 2.3246 -0.6544 1.6554 C 0 0 0 0 0 0 0 0 0 0 0 0 1.1769 1.0960 0.3912 C 0 0 1 0 0 0 0 0 0 0 0 0 1.0944 1.8163 -0.9764 C 0 0 0 0 0 0 0 0 0 0 0 0 -0.3776 2.1635 -1.1229 C 0 0 0 0 0 0 0 0 0 0 0 0 -0.9472 0.8902 -0.5730 C 0 0 2 0 0 0 0 0 0 0 0 0 -2.4063 0.7626 -0.5998 C 0 0 2 0 0 0 0 0 0 0 0 0 -3.2170 1.9189 -0.1405 C 0 0 0 0 0 0 0 0 0 0 0 0 -4.3257 1.5971 0.8104 C 0 0 0 0 0 0 0 0 0 0 0 0 -5.0575 0.3279 0.4972 C 0 0 1 0 0 0 0 0 0 0 0 0 -6.0493 0.6537 -0.6199 C 0 0 0 0 0 0 0 0 0 0 0 0 -6.9997 -0.5095 -0.7149 C 0 0 2 0 0 0 0 0 0 0 0 0 -7.6340 -0.6176 0.5402 O 0 0 0 0 0 0 0 0 0 0 0 0 -6.1942 -1.7418 -1.0280 C 0 0 0 0 0 0 0 0 0 0 0 0 -4.7058 -1.4607 -1.1074 C 0 0 0 0 0 0 0 0 0 0 0 0 -4.1945 -0.8339 0.1931 C 0 0 2 0 0 0 0 0 0 0 0 0 -4.3852 -1.9117 1.2607 C 0 0 0 0 0 0 0 0 0 0 0 0 -2.7484 -0.5622 0.0470 C 0 0 2 0 0 0 0 0 0 0 0 0 -2.0511 -0.7837 1.3394 C 0 0 0 0 0 0 0 0 0 0 0 0 -0.5207 -0.6089 1.2547 C 0 0 0 0 0 0 0 0 0 0 0 0 -0.2252 0.7343 0.7265 C 0 0 1 0 0 0 0 0 0 0 0 0 -0.6624 1.7530 1.7678 C 0 0 0 0 0 0 0 0 0 0 0 0 5.2815 -2.0744 -2.7892 H 0 0 0 0 0 0 0 0 0 0 0 0 6.9128 -2.7650 -2.7166 H 0 0 0 0 0 0 0 0 0 0 0 0 5.8601 -3.0187 -1.3128 H 0 0 0 0 0 0 0 0 0 0 0 0 7.4210 -0.6103 -2.2805 H 0 0 0 0 0 0 0 0 0 0 0 0 8.5040 -1.8238 -0.6947 H 0 0 0 0 0 0 0 0 0 0 0 0 7.8060 -0.4983 0.3006 H 0 0 0 0 0 0 0 0 0 0 0 0 7.0589 -2.1951 0.2616 H 0 0 0 0 0 0 0 0 0 0 0 0 5.1935 0.3618 -2.1577 H 0 0 0 0 0 0 0 0 0 0 0 0 7.2921 1.4672 -1.1811 H 0 0 0 0 0 0 0 0 0 0 0 0 6.5905 1.2362 0.4197 H 0 0 0 0 0 0 0 0 0 0 0 0 5.6198 2.1319 -0.8614 H 0 0 0 0 0 0 0 0 0 0 0 0 4.2150 -1.4006 -0.9893 H 0 0 0 0 0 0 0 0 0 0 0 0 5.6252 -0.2958 1.2716 H 0 0 0 0 0 0 0 0 0 0 0 0 3.2903 0.8343 -1.2753 H 0 0 0 0 0 0 0 0 0 0 0 0 4.1977 1.2789 1.4136 H 0 0 0 0 0 0 0 0 0 0 0 0 1.8350 -0.8084 -0.4732 H 0 0 0 0 0 0 0 0 0 0 0 0 1.8637 0.0308 2.4427 H 0 0 0 0 0 0 0 0 0 0 0 0 1.8915 -1.6406 1.7763 H 0 0 0 0 0 0 0 0 0 0 0 0 3.3955 -0.6616 2.0113 H 0 0 0 0 0 0 0 0 0 0 0 0 1.6378 1.8313 1.0752 H 0 0 0 0 0 0 0 0 0 0 0 0 1.6805 2.7333 -0.9881 H 0 0 0 0 0 0 0 0 0 0 0 0 1.3450 1.1434 -1.7977 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.6563 2.2248 -2.2061 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.6197 3.0682 -0.5731 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.5315 0.0708 -1.2375 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.6790 0.6092 -1.6943 H 0 0 0 0 0 0 0 0 0 0 0 0 -3.6957 2.4797 -1.0022 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.6050 2.7341 0.3487 H 0 0 0 0 0 0 0 0 0 0 0 0 -5.0966 2.4238 0.7501 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.0078 1.6400 1.8941 H 0 0 0 0 0 0 0 0 0 0 0 0 -5.7079 0.1094 1.3945 H 0 0 0 0 0 0 0 0 0 0 0 0 -5.5352 0.8977 -1.5482 H 0 0 0 0 0 0 0 0 0 0 0 0 -6.5681 1.5902 -0.2789 H 0 0 0 0 0 0 0 0 0 0 0 0 -7.8058 -0.3110 -1.4436 H 0 0 0 0 0 0 0 0 0 0 0 0 -8.1156 0.2468 0.6623 H 0 0 0 0 0 0 0 0 0 0 0 0 -6.4228 -2.6016 -0.3847 H 0 0 0 0 0 0 0 0 0 0 0 0 -6.4880 -2.0458 -2.0737 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.4972 -0.8060 -1.9742 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.1979 -2.4198 -1.2856 H 0 0 0 0 0 0 0 0 0 0 0 0 -3.8638 -2.8296 0.9340 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.0702 -1.5447 2.2493 H 0 0 0 0 0 0 0 0 0 0 0 0 -5.4678 -2.1821 1.3677 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.3374 -1.3499 -0.6586 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.4794 -0.2696 2.2072 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.1715 -1.8835 1.5856 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.1836 -1.4500 0.6489 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.2250 -0.7804 2.3349 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.4737 2.7994 1.4388 H 0 0 0 0 0 0 0 0 0 0 0 0 0.0713 1.6128 2.6206 H 0 0 0 0 0 0 0 0 0 0 0 0 -1.6380 1.5730 2.2028 H 0 0 0 0 0 0 0 0 0 0 0 0 1 2 1 0 2 3 1 0 2 4 1 0 4 5 1 0 4 6 1 0 6 7 1 0 6 8 1 0 8 9 1 0 8 10 1 0 10 11 1 0 10 12 1 0 12 13 1 0 13 14 1 0 14 15 1 0 15 16 1 0 16 17 1 0 17 18 1 0 18 19 1 0 19 20 1 0 20 21 1 0 21 22 1 0 21 23 1 0 23 24 1 0 24 25 1 0 25 26 1 1 25 27 1 0 27 28 1 0 28 29 1 0 29 30 1 0 30 31 1 1 30 12 1 0 30 15 1 0 27 16 1 0 25 19 1 0 1 32 1 0 1 33 1 0 1 34 1 0 2 35 1 0 3 36 1 0 3 37 1 0 3 38 1 0 4 39 1 6 5 40 1 0 5 41 1 0 5 42 1 0 6 43 1 6 7 44 1 0 8 45 1 6 9 46 1 0 10 47 1 6 11 48 1 0 11 49 1 0 11 50 1 0 12 51 1 1 13 52 1 0 13 53 1 0 14 54 1 0 14 55 1 0 15 56 1 6 16 57 1 6 17 58 1 0 17 59 1 0 18 60 1 0 18 61 1 0 19 62 1 1 20 63 1 0 20 64 1 0 21 65 1 6 22 66 1 0 23 67 1 0 23 68 1 0 24 69 1 0 24 70 1 0 26 71 1 0 26 72 1 0 26 73 1 0 27 74 1 6 28 75 1 0 28 76 1 0 29 77 1 0 29 78 1 0 31 79 1 0 31 80 1 0 31 81 1 0 M END

Standard InCHIKey	WPHVOXMMNSLJSF-PDQCMOIVSA-N
Standard InCHI	InChI=1S/C28H50O3/c1-16(2)17(3)25(30)26(31)18(4)22-9-10-23-21-8-7-19-15-20(29)11-13-27(19,5)24(21)12-14-28(22,23)6/h16-26,29-31H,7-15H2,1-6H3/t17-,18-,19-,20+,21-,22+,23+,24+,25+,26+,27+,28-/m0/s1
SMILES	CC(C)[C@H](C)[C@@H](O)[C@H](O)[C@@H](C)[C@H]1CC[C@@H]2[C@@H]3CC[C@H]4C[C@H](O)CC[C@@]4(C)[C@@H]3CC[C@@]12C

Calculated Properties

Physi-Chem Properties

Molecular Weight:	434.38	Volume:	484.989 ? Van der Waals volume.
Dense:	0.896	LogP:	4.896 ? The logarithm of the n-octanol/water distribution coefficients.
logD7.4:	3.967 ? The logarithm of the n-octanol/water distribution coefficient at pH=7.4.	LogS:	-4.376 ? The logarithm of aqueous solubility value.
Rotatable Bonds:	5.0	Rigid Bonds:	20.0
TPSA:	60.69 ? Topological Polar Surface Area.	H-Bond Acceptor:	3.0
H-Bond Donor:	3.0	Rings:	4.0
Heavy Atoms:	3.0

MedChem Properties

QED Drug-Likeness Score:	0.523	GASA:	1.0 ? GASA represents the probability of being difficult to synthesize, ranging from 0 to 1.
Synthetic Accessibility Score:	4.659	Fsp³:	1.0
MCE-18:	75.607 ? MCE-18 stands for medicinal chemistry evolution.MCE-18≥45 is considered a suitable value.	Lipinski Rule-of-5:	Rejected
Pfizer Rule:	Accepted	GSK Rule:	Accepted
Golden Triangle Rule:	Rejected	BMS Rule:	0
Chelating Alert:	0	PAINS Alert:	0
Colloidal aggregators:	0.757	Fluc inhibitor:	0.0 ? The fluc inhibitor value is the probability of being fLuc inhibitors, within the range of 0 to 1.
Blue fluorescence:	0.025 ? The blue fluorescence value is the probability of being blue fluorescence, within the range of 0 to 1	Green fluorescence:	0.0 ? The green fluorescence value is the probability of being green fluorescence, within the range of 0 to 1
Reactive compounds:	0.469	Promiscuous compounds:	0.003

ADMET Properties (ADMETlab3.0)

ADMET: Absorption

Caco-2 Permeability:	-5.327	MDCK Permeability:	-5.148
Pgp-inhibitor:	0.008	Pgp-substrate:	0.629
PAMPA:	0.66 ? 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):	0.0
20% Bioavailability (F20%):	0.107	30% Bioavailability (F30%):	0.173
50% Bioavailability (F50%):	0.974

ADMET: Distribution

Blood-Brain-Barrier Penetration (BBB):	0.021	MRP1:	0.638
Plasma Protein Binding (PPB):	96.216%	Volume Distribution (VD):	0.117
Fu:	5.079% ? The fraction unbound in plasms.	OATP1B1 inhibitor:	0.553
OATP1B3 inhibitor:	0.397	BCRP inhibitor:	0.029
BSEP inhibitor:	0.068

ADMET: Metabolism

CYP1A2-inhibitor:	0.0	CYP1A2-substrate:	0.0
CYP2C19-inhibitor:	0.003	CYP2C19-substrate:	0.132
CYP2C9-inhibitor:	0.0	CYP2C9-substrate:	0.001
CYP2D6-inhibitor:	0.0	CYP2D6-substrate:	0.0
CYP3A4-inhibitor:	0.967	CYP3A4-substrate:	1.0
CYP2B6-substrate:	0.0	CYP2C8-inhibitor:	0.998
HLM stability:	0.015 ? 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):

11.882

Half-life (T1/2):

1.051

ADMET: Toxicity

hERG Blockers:	0.03	hERG Blockers (10um):	0.108
Human Hepatotoxicity (H-HT):	0.415	Drug-induced Liver Injury (DILI):	0.075
AMES Toxicity:	0.405	Rat Oral Acute Toxicity:	0.062
Maximum Recommended Daily Dose:	0.084	Skin Sensitization:	0.892
Carcinogencity:	0.768	Eye Corrosion:	0.166
Eye Irritation:	0.858	Respiratory Toxicity:	0.339
Drug-induced Neurotoxicity:	0.005	Ototoxicity:	0.872
Hematotoxicity:	0.45	Drug-induced Nephrotoxicity:	0.933
Genotoxicity:	0.003	RPMI-8226 Immunitoxicity:	0.067
A549 Cytotoxicity:	0.718	Hek293 Cytotoxicity:	0.425
BCF:	2.347 ? 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:	3.907 ? 48 hour Tetrahymena pyriformis IGC50. The unit of IGC50 is -log10[(mg/L)/(1000*MW)].
LC50DM:	4.878 ? 48 hour Daphnia magna LC50. The unit of LC50DM is -log10[(mg/L)/(1000*MW)].	LC50FM:	4.568 ? 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
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	DOI[10.1016/S0014-5793(03)00033-4]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	DOI[10.1021/ac991142i]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	DOI[10.1034/j.1399-3054.2003.00030.x]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	DOI[10.1046/j.1365-3040.2001.00686.x]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	DOI[10.1074/jbc.274.1.397]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	DOI[10.1074/jbc.M302362200]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	DOI[10.1074/jbc.M314195200]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	DOI[10.1074/jbc.M411109200]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	DOI[10.1104/pp.103.022368]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	leaf	n.a.	PMID[10952545]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[10952545]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[11005203]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[12637544]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[12805618]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[14745019]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[15280363]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[15820655]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[15834012]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	aerial parts	n.a.	n.a.	PMID[15844959]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[1684022]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[17611796]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[18057039]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[18235971]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[18318836]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	leaf	n.a.	PMID[19521717]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[21193570]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[21194489]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[21395888]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[21800258]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[23370715]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[23950498]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	root	n.a.	PMID[24163311]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[24285094]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	root	n.a.	PMID[25457500]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	root	n.a.	PMID[27363486]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[27432888]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[8278506]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	Database[Article]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	Database[COCONUT]
NPO42787	Cupressus arizonica Greene	Genus	Cupressaceae	Eukaryota	n.a.	n.a.	n.a.	Database[COCONUT]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	root	n.a.	Database[MetaboLights]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	Eukaryota	n.a.	n.a.	n.a.	Database[MetaboLights]
NPO19866	Arabidopsis thaliana	Species	Brassicaceae	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

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

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 NPC551050 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	28910
0.1-0.2	18931
0.2-0.3	1722
0.3-0.4	231
0.4-0.5	42
0.5-0.6	10
0.6-0.7	13
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	Natural Product ID
0.6977	Remote Similarity	NPC114891
0.6957	Remote Similarity	NPC148174
0.6739	Remote Similarity	NPC71460
0.6739	Remote Similarity	NPC218585
0.6522	Remote Similarity	NPC320549
0.6522	Remote Similarity	NPC156277
0.6522	Remote Similarity	NPC58057
0.6522	Remote Similarity	NPC151018
0.6122	Remote Similarity	NPC254340
0.6087	Remote Similarity	NPC281540
0.6087	Remote Similarity	NPC159654
0.6087	Remote Similarity	NPC167995
0.6087	Remote Similarity	NPC118937
0.5962	Remote Similarity	NPC167702
0.5962	Remote Similarity	NPC192456
0.5962	Remote Similarity	NPC280026
0.56	Remote Similarity	NPC327728
0.56	Remote Similarity	NPC6120
0.56	Remote Similarity	NPC131892
0.56	Remote Similarity	NPC213178
0.56	Remote Similarity	NPC103822
0.5345	Remote Similarity	NPC323180
0.5082	Remote Similarity	NPC320478

Similar Clinical/Approved Drugs

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

● The left chart: Distribution of similarity level between NPC551050 and all drugs/candidates.
● The right table: Most similar clinical/approved drugs (Tc>=0.5 or Top200).

range	Tanimoto Coefficient
0-0.1	8010
0.1-0.2	1026
0.2-0.3	82
0.3-0.4	19
0.4-0.5	6
0.5-0.6	5
0.6-0.7	2
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
0.6522	Remote Similarity	NPD4808	Phase 2
0.6522	Remote Similarity	NPD4809	Phase 4
0.5962	Remote Similarity	NPD6113	Clinical (unspecified phase)
0.56	Remote Similarity	NPD3699	Clinical (unspecified phase)
0.56	Remote Similarity	NPD3700	Clinical (unspecified phase)
0.549	Remote Similarity	NPD4787	Phase 1
0.5185	Remote Similarity	NPD3671	Phase 1

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