NPASS Compound

Natural Product: NPC485591

Natural Product ID	NPC485591
Common Name ? The InCHIKey will be temporarily assigned as the "Common Name" if no IUPAC name or alternative short name is available.	OBHNABKTUFVIDD-HMSUJUMWSA-N
IUPAC Name	n.a.
Synonyms
Synthetic Gene Cluster	n.a.
ChEMBL Identifier	n.a.
PubChem CID	101913840
Chemical Classification	CHEMONTID:0000000 [Organic compounds] [CHEMONTID:0000012] Lipids and lipid-like molecules [CHEMONTID:0000258] Steroids and steroid derivatives [CHEMONTID:0001013] Steroidal glycosides [CHEMONTID:0002364] Steroidal saponins

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 109116 0 0 0 0 0 0 0 0999 V2000 -8.5050 3.0822 0.9999 C 0 0 0 0 0 0 0 0 0 0 0 0 -8.5092 2.7337 -0.4746 C 0 0 2 0 0 0 0 0 0 0 0 0 -9.1280 1.3856 -0.6626 C 0 0 0 0 0 0 0 0 0 0 0 0 -8.1266 0.3340 -0.2365 C 0 0 0 0 0 0 0 0 0 0 0 0 -6.7485 0.6630 -0.6907 C 0 0 2 0 0 0 0 0 0 0 0 0 -6.0593 -0.5767 -1.2782 C 0 0 1 0 0 0 0 0 0 0 0 0 -6.4590 -0.7960 -2.7167 C 0 0 0 0 0 0 0 0 0 0 0 0 -4.6200 -0.1137 -1.2605 C 0 0 1 0 0 0 0 0 0 0 0 0 -4.6401 1.0137 -0.2493 C 0 0 2 0 0 0 0 0 0 0 0 0 -3.4839 0.7385 0.7230 C 0 0 0 0 0 0 0 0 0 0 0 0 -2.6268 -0.1511 -0.1056 C 0 0 1 0 0 0 0 0 0 0 0 0 -1.5128 -0.8430 0.6018 C 0 0 2 0 0 0 0 0 0 0 0 0 -0.4755 0.1580 0.9438 C 0 0 0 0 0 0 0 0 0 0 0 0 0.9427 -0.2428 0.9142 C 0 0 1 0 0 0 0 0 0 0 0 0 1.2854 -1.6532 0.6711 C 0 0 1 0 0 0 0 0 0 0 0 0 2.1483 -2.2089 1.7851 C 0 0 0 0 0 0 0 0 0 0 0 0 2.7385 -3.5085 1.2743 C 0 0 2 0 0 0 0 0 0 0 0 0 2.1432 -4.0041 0.0098 C 0 0 0 0 0 0 0 0 0 0 0 0 0.6607 -3.8596 -0.1146 C 0 0 0 0 0 0 0 0 0 0 0 0 0.1260 -2.5974 0.5019 C 0 0 1 0 0 0 0 0 0 0 0 0 -0.4547 -2.9631 1.8495 C 0 0 0 0 0 0 0 0 0 0 0 0 -0.9258 -1.9035 -0.2997 C 0 0 1 0 0 0 0 0 0 0 0 0 -1.9910 -2.8353 -0.8222 C 0 0 0 0 0 0 0 0 0 0 0 0 -3.0126 -2.0262 -1.5965 C 0 0 0 0 0 0 0 0 0 0 0 0 -3.6898 -1.1131 -0.6392 C 0 0 2 0 0 0 0 0 0 0 0 0 -4.3403 -1.9068 0.4597 C 0 0 0 0 0 0 0 0 0 0 0 0 2.7568 -4.4811 2.2873 O 0 0 0 0 0 0 0 0 0 0 0 0 1.5635 0.5138 -0.1119 O 0 0 0 0 0 0 0 0 0 0 0 0 2.5493 1.3546 0.3458 C 0 0 1 0 0 0 0 0 0 0 0 0 3.8261 0.9777 -0.3898 C 0 0 1 0 0 0 0 0 0 0 0 0 4.9091 2.0096 -0.1888 C 0 0 2 0 0 0 0 0 0 0 0 0 4.2986 3.3618 -0.5701 C 0 0 1 0 0 0 0 0 0 0 0 0 3.1395 3.5842 0.3800 C 0 0 0 0 0 0 0 0 0 0 0 0 2.1499 2.6538 0.0214 O 0 0 0 0 0 0 0 0 0 0 0 0 5.2476 4.3754 -0.4733 O 0 0 0 0 0 0 0 0 0 0 0 0 5.9445 1.7094 -1.0720 O 0 0 0 0 0 0 0 0 0 0 0 0 7.1188 1.6279 -0.3211 C 0 0 1 0 0 0 0 0 0 0 0 0 7.7612 0.2666 -0.4362 C 0 0 1 0 0 0 0 0 0 0 0 0 8.9810 0.3467 -1.3423 C 0 0 2 0 0 0 0 0 0 0 0 0 9.9664 1.3165 -0.7495 C 0 0 1 0 0 0 0 0 0 0 0 0 9.2099 2.3922 -0.0287 C 0 0 0 0 0 0 0 0 0 0 0 0 8.0173 2.6216 -0.7215 O 0 0 0 0 0 0 0 0 0 0 0 0 10.8580 0.6716 0.1281 O 0 0 0 0 0 0 0 0 0 0 0 0 8.6257 0.7429 -2.6221 O 0 0 0 0 0 0 0 0 0 0 0 0 8.2048 -0.1970 0.8009 O 0 0 0 0 0 0 0 0 0 0 0 0 4.1971 -0.2925 -0.0288 O 0 0 0 0 0 0 0 0 0 0 0 0 -5.8678 0.9342 0.3732 O 0 0 0 0 0 0 0 0 0 0 0 0 -6.6700 1.6819 -1.6142 O 0 0 0 0 0 0 0 0 0 0 0 0 -7.1338 2.8580 -1.0765 C 0 0 0 0 0 0 0 0 0 0 0 0 -7.5341 3.6136 1.1892 H 0 0 0 0 0 0 0 0 0 0 0 0 -9.2930 3.8126 1.2695 H 0 0 0 0 0 0 0 0 0 0 0 0 -8.4957 2.1797 1.6231 H 0 0 0 0 0 0 0 0 0 0 0 0 -9.2021 3.4782 -0.9581 H 0 0 0 0 0 0 0 0 0 0 0 0 -9.4572 1.2577 -1.7182 H 0 0 0 0 0 0 0 0 0 0 0 0 -10.0382 1.3447 -0.0243 H 0 0 0 0 0 0 0 0 0 0 0 0 -8.2199 0.1118 0.8417 H 0 0 0 0 0 0 0 0 0 0 0 0 -8.4431 -0.6149 -0.7596 H 0 0 0 0 0 0 0 0 0 0 0 0 -6.2432 -1.4712 -0.6783 H 0 0 0 0 0 0 0 0 0 0 0 0 -6.7235 0.1453 -3.2403 H 0 0 0 0 0 0 0 0 0 0 0 0 -5.6609 -1.2948 -3.3023 H 0 0 0 0 0 0 0 0 0 0 0 0 -7.3522 -1.4602 -2.7962 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.2506 0.1978 -2.2391 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.4705 1.9792 -0.7728 H 0 0 0 0 0 0 0 0 0 0 0 0 -3.9447 0.2238 1.5930 H 0 0 0 0 0 0 0 0 0 0 0 0 -3.0030 1.6956 0.9998 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.2529 0.4288 -0.9671 H 0 0 0 0 0 0 0 0 0 0 0 0 -1.9096 -1.2791 1.5463 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.6879 0.5592 1.9868 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.6510 1.0751 0.3037 H 0 0 0 0 0 0 0 0 0 0 0 0 1.4844 0.0982 1.8500 H 0 0 0 0 0 0 0 0 0 0 0 0 1.9096 -1.7968 -0.2641 H 0 0 0 0 0 0 0 0 0 0 0 0 2.9433 -1.4889 2.0993 H 0 0 0 0 0 0 0 0 0 0 0 0 1.5760 -2.4756 2.6962 H 0 0 0 0 0 0 0 0 0 0 0 0 3.8266 -3.2890 1.0714 H 0 0 0 0 0 0 0 0 0 0 0 0 2.3733 -5.1087 -0.0525 H 0 0 0 0 0 0 0 0 0 0 0 0 2.6455 -3.5838 -0.9072 H 0 0 0 0 0 0 0 0 0 0 0 0 0.4384 -3.9187 -1.2160 H 0 0 0 0 0 0 0 0 0 0 0 0 0.1814 -4.7584 0.3258 H 0 0 0 0 0 0 0 0 0 0 0 0 -1.5238 -3.2964 1.7592 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.4248 -2.1708 2.5949 H 0 0 0 0 0 0 0 0 0 0 0 0 0.0753 -3.8777 2.2469 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.4575 -1.4007 -1.1577 H 0 0 0 0 0 0 0 0 0 0 0 0 -1.5324 -3.5227 -1.5548 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.4865 -3.4207 -0.0500 H 0 0 0 0 0 0 0 0 0 0 0 0 -3.7849 -2.7712 -1.9470 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.5777 -1.5230 -2.4680 H 0 0 0 0 0 0 0 0 0 0 0 0 -5.1144 -1.3446 1.0161 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.8413 -2.7864 0.0067 H 0 0 0 0 0 0 0 0 0 0 0 0 -3.6352 -2.3019 1.2098 H 0 0 0 0 0 0 0 0 0 0 0 0 3.5854 -4.9851 2.3113 H 0 0 0 0 0 0 0 0 0 0 0 0 2.6345 1.2315 1.4441 H 0 0 0 0 0 0 0 0 0 0 0 0 3.5795 0.9750 -1.4675 H 0 0 0 0 0 0 0 0 0 0 0 0 5.2399 2.1091 0.8497 H 0 0 0 0 0 0 0 0 0 0 0 0 3.8798 3.2501 -1.5850 H 0 0 0 0 0 0 0 0 0 0 0 0 2.6999 4.5850 0.2666 H 0 0 0 0 0 0 0 0 0 0 0 0 3.5041 3.3846 1.4203 H 0 0 0 0 0 0 0 0 0 0 0 0 4.7987 5.1619 -0.0676 H 0 0 0 0 0 0 0 0 0 0 0 0 6.9306 1.8197 0.7701 H 0 0 0 0 0 0 0 0 0 0 0 0 7.0337 -0.4615 -0.8693 H 0 0 0 0 0 0 0 0 0 0 0 0 9.4708 -0.6597 -1.3330 H 0 0 0 0 0 0 0 0 0 0 0 0 10.5400 1.7943 -1.5705 H 0 0 0 0 0 0 0 0 0 0 0 0 9.8071 3.3273 0.0874 H 0 0 0 0 0 0 0 0 0 0 0 0 8.9344 2.0483 1.0080 H 0 0 0 0 0 0 0 0 0 0 0 0 11.5559 0.2732 -0.4661 H 0 0 0 0 0 0 0 0 0 0 0 0 8.8942 1.6800 -2.7352 H 0 0 0 0 0 0 0 0 0 0 0 0 7.9823 -1.1740 0.8883 H 0 0 0 0 0 0 0 0 0 0 0 0 4.8927 -0.3430 0.6504 H 0 0 0 0 0 0 0 0 0 0 0 0 -6.4636 3.2845 -0.2872 H 0 0 0 0 0 0 0 0 0 0 0 0 -7.1316 3.6178 -1.9020 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 6 8 1 0 8 9 1 0 9 10 1 0 10 11 1 0 11 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 1 20 22 1 0 22 23 1 0 23 24 1 0 24 25 1 0 25 26 1 1 17 27 1 0 14 28 1 0 28 29 1 0 29 30 1 0 30 31 1 0 31 32 1 0 32 33 1 0 33 34 1 0 32 35 1 0 31 36 1 0 36 37 1 0 37 38 1 0 38 39 1 0 39 40 1 0 40 41 1 0 41 42 1 0 40 43 1 0 39 44 1 0 38 45 1 0 30 46 1 0 9 47 1 0 5 48 1 6 48 49 1 0 49 2 1 0 47 5 1 0 25 8 1 0 34 29 1 0 42 37 1 0 25 11 1 0 22 12 1 0 20 15 1 0 1 50 1 0 1 51 1 0 1 52 1 0 2 53 1 6 3 54 1 0 3 55 1 0 4 56 1 0 4 57 1 0 6 58 1 1 7 59 1 0 7 60 1 0 7 61 1 0 8 62 1 6 9 63 1 6 10 64 1 0 10 65 1 0 11 66 1 6 12 67 1 1 13 68 1 0 13 69 1 0 14 70 1 1 15 71 1 6 16 72 1 0 16 73 1 0 17 74 1 6 18 75 1 0 18 76 1 0 19 77 1 0 19 78 1 0 21 79 1 0 21 80 1 0 21 81 1 0 22 82 1 6 23 83 1 0 23 84 1 0 24 85 1 0 24 86 1 0 26 87 1 0 26 88 1 0 26 89 1 0 27 90 1 0 29 91 1 1 30 92 1 6 31 93 1 1 32 94 1 6 33 95 1 0 33 96 1 0 35 97 1 0 37 98 1 1 38 99 1 6 39100 1 6 40101 1 6 41102 1 0 41103 1 0 43104 1 0 44105 1 0 45106 1 0 46107 1 0 49108 1 0 49109 1 0 M END

Standard InCHIKey	OBHNABKTUFVIDD-HMSUJUMWSA-N
Standard InCHI	InChI=1S/C37H60O12/c1-17-5-10-37(46-14-17)18(2)28-27(49-37)13-22-20-12-26(23-11-19(38)6-8-35(23,3)21(20)7-9-36(22,28)4)47-34-31(43)32(25(40)16-45-34)48-33-30(42)29(41)24(39)15-44-33/h17-34,38-43H,5-16H2,1-4H3/t17-,18+,19+,20-,21+,22+,23-,24-,25-,26+,27+,28+,29+,30-,31-,32+,33+,34+,35-,36+,37-/m1/s1
SMILES	C[C@@H]1CC[C@@]2([C@@H](C)[C@H]3[C@H](C[C@H]4[C@@H]5C[C@@H]([C@H]6C[C@H](CC[C@]6(C)[C@H]5CC[C@]34C)O)O[C@H]3[C@@H]([C@H]([C@@H](CO3)O)O[C@H]3[C@@H]([C@H]([C@@H](CO3)O)O)O)O)O2)OC1

Calculated Properties

Physi-Chem Properties

Molecular Weight:	696.41	Volume:	685.539 ? Van der Waals volume.
Dense:	1.016	LogP:	3.003 ? The logarithm of the n-octanol/water distribution coefficients.
logD7.4:	3.317 ? The logarithm of the n-octanol/water distribution coefficient at pH=7.4.	LogS:	-4.542 ? The logarithm of aqueous solubility value.
Rotatable Bonds:	4.0	Rigid Bonds:	42.0
TPSA:	176.76 ? Topological Polar Surface Area.	H-Bond Acceptor:	12.0
H-Bond Donor:	6.0	Rings:	8.0
Heavy Atoms:	12.0

MedChem Properties

QED Drug-Likeness Score:	0.235	GASA:	1.0 ? GASA represents the probability of being difficult to synthesize, ranging from 0 to 1.
Synthetic Accessibility Score:	6.3	Fsp³:	1.0
MCE-18:	198.486 ? MCE-18 stands for medicinal chemistry evolution.MCE-18≥45 is considered a suitable value.	Lipinski Rule-of-5:	Accepted
Pfizer Rule:	Rejected	GSK Rule:	Accepted
Golden Triangle Rule:	Accepted	BMS Rule:	0
Chelating Alert:	0	PAINS Alert:	0
Colloidal aggregators:	0.749	Fluc inhibitor:	0.0 ? The fluc inhibitor value is the probability of being fLuc inhibitors, within the range of 0 to 1.
Blue fluorescence:	0.059 ? 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:	0.189	Promiscuous compounds:	0.045

ADMET Properties (ADMETlab3.0)

ADMET: Absorption

Caco-2 Permeability:	-5.657	MDCK Permeability:	-5.192
Pgp-inhibitor:	0.001	Pgp-substrate:	0.934
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):	0.0
20% Bioavailability (F20%):	0.026	30% Bioavailability (F30%):	0.097
50% Bioavailability (F50%):	0.978

ADMET: Distribution

Blood-Brain-Barrier Penetration (BBB):	0.003	MRP1:	0.021
Plasma Protein Binding (PPB):	54.85%	Volume Distribution (VD):	-0.481
Fu:	39.948% ? The fraction unbound in plasms.	OATP1B1 inhibitor:	1.0
OATP1B3 inhibitor:	1.0	BCRP inhibitor:	0.556
BSEP inhibitor:	0.805

ADMET: Metabolism

CYP1A2-inhibitor:	0.0	CYP1A2-substrate:	0.0
CYP2C19-inhibitor:	0.0	CYP2C19-substrate:	0.0
CYP2C9-inhibitor:	0.0	CYP2C9-substrate:	0.0
CYP2D6-inhibitor:	0.0	CYP2D6-substrate:	0.632
CYP3A4-inhibitor:	1.0	CYP3A4-substrate:	1.0
CYP2B6-substrate:	0.0	CYP2C8-inhibitor:	0.752
HLM stability:	0.258 ? 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):

1.249

Half-life (T1/2):

2.816

ADMET: Toxicity

hERG Blockers:	0.052	hERG Blockers (10um):	0.072
Human Hepatotoxicity (H-HT):	0.532	Drug-induced Liver Injury (DILI):	0.754
AMES Toxicity:	0.571	Rat Oral Acute Toxicity:	0.012
Maximum Recommended Daily Dose:	0.206	Skin Sensitization:	1.0
Carcinogencity:	0.171	Eye Corrosion:	0.0
Eye Irritation:	0.059	Respiratory Toxicity:	0.011
Drug-induced Neurotoxicity:	0.002	Ototoxicity:	0.982
Hematotoxicity:	0.062	Drug-induced Nephrotoxicity:	0.87
Genotoxicity:	0.001	RPMI-8226 Immunitoxicity:	0.174
A549 Cytotoxicity:	0.451	Hek293 Cytotoxicity:	0.767
BCF:	1.27 ? 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:	3.276 ? 48 hour Tetrahymena pyriformis IGC50. The unit of IGC50 is -log10[(mg/L)/(1000*MW)].
LC50DM:	4.432 ? 48 hour Daphnia magna LC50. The unit of LC50DM is -log10[(mg/L)/(1000*MW)].	LC50FM:	3.831 ? 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
NPO40931	Solanum macaonense	Species	Solanaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[25036668]

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
IC50	2

Activity Type	# Activity
Others	2

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
NPT2	Others	Unspecified	n.a.	IC50	>	10000.0	nM	PMID[25036668]
NPT2	Others	Unspecified	n.a.	IC50	=	4200.0	nM	PMID[25036668]

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 NPC485591 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	27184
0.1-0.2	21008
0.2-0.3	1403
0.3-0.4	117
0.4-0.5	106
0.5-0.6	21
0.6-0.7	5
0.7-0.8	0
0.8-0.85	1
0.85-0.9	3
0.9-0.95	0
0.95-1	0

Similarity Score	Similarity Level	Natural Product ID
0.88	High Similarity	NPC88962
0.8537	High Similarity	NPC312678
0.8537	High Similarity	NPC253268
0.8182	Intermediate Similarity	NPC485605
0.7241	Intermediate Similarity	NPC131693
0.7241	Intermediate Similarity	NPC475436
0.7195	Intermediate Similarity	NPC144790
0.7195	Intermediate Similarity	NPC149400
0.7108	Intermediate Similarity	NPC277715
0.7053	Intermediate Similarity	NPC485603
0.6848	Remote Similarity	NPC485590
0.6813	Remote Similarity	NPC291547
0.6813	Remote Similarity	NPC485593
0.6813	Remote Similarity	NPC174024
0.618	Remote Similarity	NPC481418
0.5802	Remote Similarity	NPC296734
0.5789	Remote Similarity	NPC179859
0.5789	Remote Similarity	NPC473851
0.5714	Remote Similarity	NPC485604
0.5679	Remote Similarity	NPC248944
0.5679	Remote Similarity	NPC7479
0.5679	Remote Similarity	NPC257296
0.5588	Remote Similarity	NPC485599
0.5474	Remote Similarity	NPC485594
0.5361	Remote Similarity	NPC177834
0.5354	Remote Similarity	NPC250393
0.5333	Remote Similarity	NPC485596
0.5258	Remote Similarity	NPC481423
0.5238	Remote Similarity	NPC485597
0.5221	Remote Similarity	NPC476112
0.5221	Remote Similarity	NPC307534
0.5196	Remote Similarity	NPC264101
0.514	Remote Similarity	NPC485598
0.5091	Remote Similarity	NPC294129
0.5089	Remote Similarity	NPC475625
0.5044	Remote Similarity	NPC232037

Similar Clinical/Approved Drugs

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

● The left chart: Distribution of similarity level between NPC485591 and all drugs/candidates.
● The right table: Most similar clinical/approved drugs (Tc>=0.5 or Top200).

range	Tanimoto Coefficient
0-0.1	7727
0.1-0.2	1384
0.2-0.3	35
0.3-0.4	2
0.4-0.5	1
0.5-0.6	1
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
0.5679	Remote Similarity	NPD6928	Phase 2

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