NPASS Compound

Natural Product: NPC486143

Natural Product ID	NPC486143
Common Name ? The InCHIKey will be temporarily assigned as the "Common Name" if no IUPAC name or alternative short name is available.	LBCSKUSUYQVKDB-LDVFCLCPSA-N
IUPAC Name	n.a.
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 105111 0 0 0 0 0 0 0 0999 V2000 4.2491 2.5690 -0.5607 C 0 0 0 0 0 0 0 0 0 0 0 0 3.7677 1.1578 -0.3304 C 0 0 1 0 0 0 0 0 0 0 0 0 4.8470 0.1598 -0.0715 C 0 0 1 0 0 0 0 0 0 0 0 0 4.1591 -1.2038 0.0145 C 0 0 2 0 0 0 0 0 0 0 0 0 2.6687 -1.0802 0.1360 C 0 0 1 0 0 0 0 0 0 0 0 0 2.2003 0.0711 0.9668 C 0 0 1 0 0 0 0 0 0 0 0 0 2.9594 1.2103 0.8078 O 0 0 0 0 0 0 0 0 0 0 0 0 0.8747 0.3345 0.6090 O 0 0 0 0 0 0 0 0 0 0 0 0 0.0071 0.1986 1.6838 C 0 0 1 0 0 0 0 0 0 0 0 0 -0.7240 1.4738 1.9990 C 0 0 0 0 0 0 0 0 0 0 0 0 -2.1927 1.3428 1.7366 C 0 0 0 0 0 0 0 0 0 0 0 0 -2.4961 0.7403 0.3872 C 0 0 1 0 0 0 0 0 0 0 0 0 -1.9855 1.6810 -0.6592 C 0 0 0 0 0 0 0 0 0 0 0 0 -1.8728 -0.6446 0.2607 C 0 0 2 0 0 0 0 0 0 0 0 0 -2.9113 -1.7218 0.2095 C 0 0 0 0 0 0 0 0 0 0 0 0 -3.8758 -1.5669 -0.9399 C 0 0 0 0 0 0 0 0 0 0 0 0 -4.2589 -0.1194 -1.0904 C 0 0 2 0 0 0 0 0 0 0 0 0 -3.9731 0.5669 0.2212 C 0 0 2 0 0 0 0 0 0 0 0 0 -4.7359 1.8676 0.2065 C 0 0 0 0 0 0 0 0 0 0 0 0 -6.1842 1.4731 0.4161 C 0 0 0 0 0 0 0 0 0 0 0 0 -6.6630 0.6042 -0.6844 C 0 0 2 0 0 0 0 0 0 0 0 0 -7.7388 1.3416 -1.4507 C 0 0 0 0 0 0 0 0 0 0 0 0 -7.2431 -0.6737 -0.1627 C 0 0 2 0 0 0 0 0 0 0 0 0 -7.4204 -1.4568 -1.4320 C 0 0 0 0 0 0 0 0 0 0 0 0 -6.2667 -1.0363 -2.3177 C 0 0 0 0 0 0 0 0 0 0 0 0 -5.5968 0.1527 -1.6469 C 0 0 2 0 0 0 0 0 0 0 0 0 -5.4799 1.1356 -2.6314 O 0 0 0 0 0 0 0 0 0 0 0 0 -8.4516 -0.5490 0.6650 C 0 0 0 0 0 0 0 0 0 0 0 0 -8.5097 -1.0106 1.9290 C 0 0 0 0 0 0 0 0 0 0 0 0 -9.8108 -0.7624 2.5127 C 0 0 0 0 0 0 0 0 0 0 0 0 -10.2057 -1.0596 3.6699 O 0 0 0 0 0 0 0 0 0 0 0 0 -10.5419 -0.1285 1.5401 O 0 0 0 0 0 0 0 0 0 0 0 0 -9.7641 0.0431 0.3878 C 0 0 0 0 0 0 0 0 0 0 0 0 -1.0033 -0.9046 1.4588 C 0 0 0 0 0 0 0 0 0 0 0 0 2.0016 -1.1346 -1.0890 O 0 0 0 0 0 0 0 0 0 0 0 0 4.6955 -2.0006 1.0221 O 0 0 0 0 0 0 0 0 0 0 0 0 5.2582 -3.1596 0.4932 C 0 0 0 0 0 0 0 0 0 0 0 0 5.8753 0.1321 -0.9824 O 0 0 0 0 0 0 0 0 0 0 0 0 7.0826 0.2933 -0.3439 C 0 0 2 0 0 0 0 0 0 0 0 0 7.9943 1.3327 -0.9320 C 0 0 2 0 0 0 0 0 0 0 0 0 9.1886 1.4878 -0.0032 C 0 0 1 0 0 0 0 0 0 0 0 0 9.7789 0.1909 0.4390 C 0 0 2 0 0 0 0 0 0 0 0 0 8.7398 -0.8978 0.6019 C 0 0 2 0 0 0 0 0 0 0 0 0 9.4277 -2.2279 0.7221 C 0 0 0 0 0 0 0 0 0 0 0 0 8.5181 -3.2469 0.9691 O 0 0 0 0 0 0 0 0 0 0 0 0 7.8364 -0.9257 -0.4327 O 0 0 0 0 0 0 0 0 0 0 0 0 10.3905 0.3738 1.6775 O 0 0 0 0 0 0 0 0 0 0 0 0 10.1445 2.2328 -0.7260 O 0 0 0 0 0 0 0 0 0 0 0 0 7.3943 2.5799 -1.0149 O 0 0 0 0 0 0 0 0 0 0 0 0 3.3854 3.2620 -0.4705 H 0 0 0 0 0 0 0 0 0 0 0 0 4.7012 2.7300 -1.5383 H 0 0 0 0 0 0 0 0 0 0 0 0 4.9724 2.8744 0.2451 H 0 0 0 0 0 0 0 0 0 0 0 0 3.1440 0.8866 -1.2115 H 0 0 0 0 0 0 0 0 0 0 0 0 5.2721 0.3409 0.9479 H 0 0 0 0 0 0 0 0 0 0 0 0 4.3536 -1.7174 -0.9620 H 0 0 0 0 0 0 0 0 0 0 0 0 2.3246 -2.0103 0.6835 H 0 0 0 0 0 0 0 0 0 0 0 0 2.2157 -0.1865 2.0663 H 0 0 0 0 0 0 0 0 0 0 0 0 0.5991 -0.0919 2.5754 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.6171 1.7315 3.0928 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.3090 2.3388 1.4571 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.7400 0.8319 2.5482 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.5948 2.3923 1.7168 H 0 0 0 0 0 0 0 0 0 0 0 0 -1.2737 1.1938 -1.3672 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.7695 2.1372 -1.2925 H 0 0 0 0 0 0 0 0 0 0 0 0 -1.4414 2.5569 -0.2143 H 0 0 0 0 0 0 0 0 0 0 0 0 -1.2416 -0.6299 -0.6466 H 0 0 0 0 0 0 0 0 0 0 0 0 -3.4063 -1.8200 1.1878 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.3756 -2.6804 0.0456 H 0 0 0 0 0 0 0 0 0 0 0 0 -3.3107 -1.9199 -1.8552 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.7025 -2.2555 -0.7399 H 0 0 0 0 0 0 0 0 0 0 0 0 -3.4720 0.3006 -1.7948 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.3874 -0.0474 1.0326 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.7225 2.3709 -0.8015 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.4764 2.5699 0.9964 H 0 0 0 0 0 0 0 0 0 0 0 0 -6.8189 2.3635 0.6020 H 0 0 0 0 0 0 0 0 0 0 0 0 -6.1953 0.8741 1.3671 H 0 0 0 0 0 0 0 0 0 0 0 0 -8.5690 0.7157 -1.7726 H 0 0 0 0 0 0 0 0 0 0 0 0 -7.2585 1.6993 -2.4112 H 0 0 0 0 0 0 0 0 0 0 0 0 -8.0137 2.2870 -0.9372 H 0 0 0 0 0 0 0 0 0 0 0 0 -6.4367 -1.1693 0.4243 H 0 0 0 0 0 0 0 0 0 0 0 0 -8.4041 -1.3166 -1.9029 H 0 0 0 0 0 0 0 0 0 0 0 0 -7.3594 -2.5464 -1.1625 H 0 0 0 0 0 0 0 0 0 0 0 0 -5.6138 -1.8820 -2.5034 H 0 0 0 0 0 0 0 0 0 0 0 0 -6.7229 -0.7583 -3.2976 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.7592 0.8269 -3.2544 H 0 0 0 0 0 0 0 0 0 0 0 0 -7.7055 -1.5140 2.4850 H 0 0 0 0 0 0 0 0 0 0 0 0 -10.2620 -0.4054 -0.5024 H 0 0 0 0 0 0 0 0 0 0 0 0 -9.7152 1.1698 0.2473 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.4745 -1.8545 1.4170 H 0 0 0 0 0 0 0 0 0 0 0 0 -1.6682 -0.9106 2.3532 H 0 0 0 0 0 0 0 0 0 0 0 0 1.7089 -2.0470 -1.3288 H 0 0 0 0 0 0 0 0 0 0 0 0 4.4093 -3.6845 -0.0234 H 0 0 0 0 0 0 0 0 0 0 0 0 5.5921 -3.8577 1.2816 H 0 0 0 0 0 0 0 0 0 0 0 0 6.0599 -2.9880 -0.2336 H 0 0 0 0 0 0 0 0 0 0 0 0 6.9810 0.4581 0.7288 H 0 0 0 0 0 0 0 0 0 0 0 0 8.3486 0.9944 -1.9407 H 0 0 0 0 0 0 0 0 0 0 0 0 8.8386 2.0392 0.8817 H 0 0 0 0 0 0 0 0 0 0 0 0 10.5172 -0.1784 -0.3202 H 0 0 0 0 0 0 0 0 0 0 0 0 8.1735 -0.6787 1.5407 H 0 0 0 0 0 0 0 0 0 0 0 0 10.1476 -2.1995 1.5672 H 0 0 0 0 0 0 0 0 0 0 0 0 9.9894 -2.4228 -0.2183 H 0 0 0 0 0 0 0 0 0 0 0 0 8.5364 -3.9117 0.2374 H 0 0 0 0 0 0 0 0 0 0 0 0 11.2654 0.7769 1.5189 H 0 0 0 0 0 0 0 0 0 0 0 0 10.6719 2.7413 -0.0599 H 0 0 0 0 0 0 0 0 0 0 0 0 7.4561 2.9845 -1.9119 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 6 12 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 6 21 23 1 0 23 24 1 0 24 25 1 0 25 26 1 0 26 27 1 6 23 28 1 0 28 29 2 0 29 30 1 0 30 31 2 0 30 32 1 0 32 33 1 0 14 34 1 0 5 35 1 0 4 36 1 0 36 37 1 0 3 38 1 0 38 39 1 0 39 40 1 0 40 41 1 0 41 42 1 0 42 43 1 0 43 44 1 0 44 45 1 0 43 46 1 0 42 47 1 0 41 48 1 0 40 49 1 0 7 2 1 0 34 9 1 0 46 39 1 0 18 12 1 0 26 21 1 0 33 28 1 0 26 17 1 0 1 50 1 0 1 51 1 0 1 52 1 0 2 53 1 6 3 54 1 1 4 55 1 6 5 56 1 1 6 57 1 1 9 58 1 1 10 59 1 0 10 60 1 0 11 61 1 0 11 62 1 0 13 63 1 0 13 64 1 0 13 65 1 0 14 66 1 6 15 67 1 0 15 68 1 0 16 69 1 0 16 70 1 0 17 71 1 6 18 72 1 1 19 73 1 0 19 74 1 0 20 75 1 0 20 76 1 0 22 77 1 0 22 78 1 0 22 79 1 0 23 80 1 1 24 81 1 0 24 82 1 0 25 83 1 0 25 84 1 0 27 85 1 0 29 86 1 0 33 87 1 0 33 88 1 0 34 89 1 0 34 90 1 0 35 91 1 0 37 92 1 0 37 93 1 0 37 94 1 0 39 95 1 1 40 96 1 6 41 97 1 1 42 98 1 6 43 99 1 1 44100 1 0 44101 1 0 45102 1 0 47103 1 0 48104 1 0 49105 1 0 M END

Standard InCHIKey	LBCSKUSUYQVKDB-LDVFCLCPSA-N
Standard InCHI	InChI=1S/C36H56O13/c1-17-30(49-32-28(41)27(40)26(39)24(15-37)48-32)31(44-4)29(42)33(46-17)47-20-7-10-34(2)19(14-20)5-6-23-22(34)8-11-35(3)21(9-12-36(23,35)43)18-13-25(38)45-16-18/h13,17,19-24,26-33,37,39-43H,5-12,14-16H2,1-4H3/t17-,19+,20-,21+,22-,23+,24-,26-,27+,28-,29-,30-,31-,32+,33-,34-,35+,36-/m0/s1
SMILES	C[C@H]1[C@@H]([C@H]([C@@H]([C@@H](O1)O[C@H]1CC[C@@]2(C)[C@H](CC[C@@H]3[C@@H]2CC[C@]2(C)[C@H](CC[C@]32O)C2=CC(=O)OC2)C1)O)OC)O[C@@H]1[C@H]([C@@H]([C@H]([C@H](CO)O1)O)O)O

Calculated Properties

Physi-Chem Properties

Molecular Weight:	696.37	Volume:	680.317 ? Van der Waals volume.
Dense:	1.024	LogP:	0.939 ? The logarithm of the n-octanol/water distribution coefficients.
logD7.4:	1.663 ? The logarithm of the n-octanol/water distribution coefficient at pH=7.4.	LogS:	-2.992 ? The logarithm of aqueous solubility value.
Rotatable Bonds:	7.0	Rigid Bonds:	38.0
TPSA:	193.83 ? Topological Polar Surface Area.	H-Bond Acceptor:	13.0
H-Bond Donor:	6.0	Rings:	7.0
Heavy Atoms:	13.0

MedChem Properties

QED Drug-Likeness Score:	0.163	GASA:	1.0 ? GASA represents the probability of being difficult to synthesize, ranging from 0 to 1.
Synthetic Accessibility Score:	5.584	Fsp³:	0.917
MCE-18:	132.145 ? 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:	0.842	Fluc inhibitor:	0.001 ? The fluc inhibitor value is the probability of being fLuc inhibitors, within the range of 0 to 1.
Blue fluorescence:	0.011 ? 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:	0.164	Promiscuous compounds:	0.273

ADMET Properties (ADMETlab3.0)

ADMET: Absorption

Caco-2 Permeability:	-6.432	MDCK Permeability:	-5.227
Pgp-inhibitor:	0.014	Pgp-substrate:	0.783
PAMPA:	0.996 ? 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):	0.376
20% Bioavailability (F20%):	0.137	30% Bioavailability (F30%):	0.66
50% Bioavailability (F50%):	0.92

ADMET: Distribution

Blood-Brain-Barrier Penetration (BBB):	0.086	MRP1:	0.192
Plasma Protein Binding (PPB):	70.936%	Volume Distribution (VD):	-0.371
Fu:	23.491% ? The fraction unbound in plasms.	OATP1B1 inhibitor:	1.0
OATP1B3 inhibitor:	0.993	BCRP inhibitor:	0.101
BSEP inhibitor:	0.312

ADMET: Metabolism

CYP1A2-inhibitor:	0.03	CYP1A2-substrate:	0.0
CYP2C19-inhibitor:	0.15	CYP2C19-substrate:	0.0
CYP2C9-inhibitor:	0.0	CYP2C9-substrate:	0.0
CYP2D6-inhibitor:	0.0	CYP2D6-substrate:	0.0
CYP3A4-inhibitor:	0.824	CYP3A4-substrate:	0.908
CYP2B6-substrate:	0.0	CYP2C8-inhibitor:	0.022
HLM stability:	0.012 ? 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):

1.03

Half-life (T1/2):

3.134

ADMET: Toxicity

hERG Blockers:	0.024	hERG Blockers (10um):	0.286
Human Hepatotoxicity (H-HT):	0.624	Drug-induced Liver Injury (DILI):	0.97
AMES Toxicity:	0.95	Rat Oral Acute Toxicity:	0.857
Maximum Recommended Daily Dose:	0.989	Skin Sensitization:	1.0
Carcinogencity:	0.756	Eye Corrosion:	0.0
Eye Irritation:	0.0	Respiratory Toxicity:	0.869
Drug-induced Neurotoxicity:	0.0	Ototoxicity:	0.922
Hematotoxicity:	0.865	Drug-induced Nephrotoxicity:	0.995
Genotoxicity:	1.0	RPMI-8226 Immunitoxicity:	0.894
A549 Cytotoxicity:	0.832	Hek293 Cytotoxicity:	0.957
BCF:	0.862 ? 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:	3.35 ? 48 hour Tetrahymena pyriformis IGC50. The unit of IGC50 is -log10[(mg/L)/(1000*MW)].
LC50DM:	4.882 ? 48 hour Daphnia magna LC50. The unit of LC50DM is -log10[(mg/L)/(1000*MW)].	LC50FM:	4.081 ? 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
NPO8402	Thevetia peruviana	Species	Apocynaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[26714048]
NPO8402	Thevetia peruviana	Species	Apocynaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[39027575]
NPO8402	Thevetia peruviana	Species	Apocynaceae	Eukaryota	n.a.	n.a.	n.a.	Database[COCONUT]
NPO8402	Thevetia peruviana	Species	Apocynaceae	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
IC50	4

Activity Type	# Activity
Cell line	1
Non-molecular	2
Others	1

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
NPT1312	Cell line	SW1990	Homo sapiens	IC50	=	620.0	nM	PMID[26714048]
NPT20529	Non-molecular	NON-PROTEIN TARGET	n.a.	IC50	=	400.0	nM	PMID[26714048]
NPT20529	Non-molecular	NON-PROTEIN TARGET	n.a.	IC50	=	420.0	nM	PMID[26714048]
NPT27	Others	Unspecified	n.a.	IC50	>	10000.0	nM	PMID[26714048]

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 NPC486143 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	14175
0.1-0.2	29968
0.2-0.3	4427
0.3-0.4	1026
0.4-0.5	99
0.5-0.6	51
0.6-0.7	42
0.7-0.8	0
0.8-0.85	9
0.85-0.9	6
0.9-0.95	4
0.95-1	2

Similarity Score	Similarity Level	Natural Product ID
1.0	High Similarity	NPC486142
1.0	High Similarity	NPC486149
0.9302	High Similarity	NPC486144
0.9302	High Similarity	NPC486145
0.9302	High Similarity	NPC486147
0.9302	High Similarity	NPC486148
0.8876	High Similarity	NPC120390
0.8824	High Similarity	NPC486135
0.8824	High Similarity	NPC486137
0.8721	High Similarity	NPC232785
0.8721	High Similarity	NPC486139
0.8625	High Similarity	NPC5311
0.8495	Intermediate Similarity	NPC474423
0.8488	Intermediate Similarity	NPC231518
0.8488	Intermediate Similarity	NPC488944
0.8471	Intermediate Similarity	NPC236973
0.8242	Intermediate Similarity	NPC486136
0.8202	Intermediate Similarity	NPC486146
0.814	Intermediate Similarity	NPC30483
0.814	Intermediate Similarity	NPC470897
0.8065	Intermediate Similarity	NPC475419
0.7935	Intermediate Similarity	NPC479360
0.7935	Intermediate Similarity	NPC479359
0.7935	Intermediate Similarity	NPC488943
0.7935	Intermediate Similarity	NPC488942
0.7865	Intermediate Similarity	NPC475629
0.7841	Intermediate Similarity	NPC292467
0.7789	Intermediate Similarity	NPC486134
0.7789	Intermediate Similarity	NPC486141
0.7753	Intermediate Similarity	NPC479353
0.7753	Intermediate Similarity	NPC479354
0.7753	Intermediate Similarity	NPC486130
0.7711	Intermediate Similarity	NPC99620
0.7684	Intermediate Similarity	NPC74259
0.7667	Intermediate Similarity	NPC488941
0.7667	Intermediate Similarity	NPC488940
0.7667	Intermediate Similarity	NPC486127
0.7604	Intermediate Similarity	NPC474908
0.7529	Intermediate Similarity	NPC77299
0.7529	Intermediate Similarity	NPC480906
0.7474	Intermediate Similarity	NPC475590
0.7449	Intermediate Similarity	NPC488945
0.7449	Intermediate Similarity	NPC488946
0.7444	Intermediate Similarity	NPC32177
0.7444	Intermediate Similarity	NPC469756
0.7444	Intermediate Similarity	NPC275901
0.7442	Intermediate Similarity	NPC480914
0.7419	Intermediate Similarity	NPC329986
0.7419	Intermediate Similarity	NPC140092
0.7363	Intermediate Similarity	NPC188234
0.7263	Intermediate Similarity	NPC479357
0.7263	Intermediate Similarity	NPC486132
0.7263	Intermediate Similarity	NPC486131
0.7188	Intermediate Similarity	NPC486128
0.7174	Intermediate Similarity	NPC480910
0.7174	Intermediate Similarity	NPC240070
0.7174	Intermediate Similarity	NPC480909
0.7158	Intermediate Similarity	NPC486138
0.7158	Intermediate Similarity	NPC276838
0.7111	Intermediate Similarity	NPC480907
0.7045	Intermediate Similarity	NPC199428
0.7045	Intermediate Similarity	NPC109448
0.7045	Intermediate Similarity	NPC76572
0.7045	Intermediate Similarity	NPC310341
0.7045	Intermediate Similarity	NPC193382
0.69	Remote Similarity	NPC486140
0.6842	Remote Similarity	NPC125077
0.6832	Remote Similarity	NPC486133
0.6832	Remote Similarity	NPC486150
0.6742	Remote Similarity	NPC469750
0.6739	Remote Similarity	NPC72260
0.6705	Remote Similarity	NPC471633
0.6667	Remote Similarity	NPC84949
0.6667	Remote Similarity	NPC480562
0.6667	Remote Similarity	NPC488938
0.6667	Remote Similarity	NPC74945
0.6667	Remote Similarity	NPC208193
0.6667	Remote Similarity	NPC488937
0.6667	Remote Similarity	NPC31354
0.6667	Remote Similarity	NPC69576
0.6629	Remote Similarity	NPC84987
0.6569	Remote Similarity	NPC117445
0.6569	Remote Similarity	NPC308262
0.6531	Remote Similarity	NPC146857
0.6526	Remote Similarity	NPC40749
0.6509	Remote Similarity	NPC486152
0.6495	Remote Similarity	NPC55532
0.6458	Remote Similarity	NPC32793
0.6458	Remote Similarity	NPC116075
0.6381	Remote Similarity	NPC488947
0.6364	Remote Similarity	NPC488939
0.6344	Remote Similarity	NPC484202
0.6344	Remote Similarity	NPC93883
0.6344	Remote Similarity	NPC305574
0.6264	Remote Similarity	NPC196429
0.625	Remote Similarity	NPC329675
0.625	Remote Similarity	NPC194716
0.6238	Remote Similarity	NPC475219
0.6122	Remote Similarity	NPC475556
0.6122	Remote Similarity	NPC311706
0.61	Remote Similarity	NPC469749
0.6064	Remote Similarity	NPC250556
0.6022	Remote Similarity	NPC157376
0.6022	Remote Similarity	NPC142066
0.6022	Remote Similarity	NPC603972
0.6	Remote Similarity	NPC483822
0.6	Remote Similarity	NPC471353
0.5978	Remote Similarity	NPC99728
0.5978	Remote Similarity	NPC87250
0.5978	Remote Similarity	NPC244402
0.5978	Remote Similarity	NPC50305
0.5963	Remote Similarity	NPC286809
0.5962	Remote Similarity	NPC479358
0.59	Remote Similarity	NPC264336
0.5888	Remote Similarity	NPC329784
0.5882	Remote Similarity	NPC247190
0.5851	Remote Similarity	NPC479356
0.5851	Remote Similarity	NPC17896
0.5851	Remote Similarity	NPC469755
0.5851	Remote Similarity	NPC284406
0.5851	Remote Similarity	NPC479355
0.5851	Remote Similarity	NPC197707
0.5851	Remote Similarity	NPC251866
0.5851	Remote Similarity	NPC480915
0.5686	Remote Similarity	NPC59288
0.567	Remote Similarity	NPC179412
0.567	Remote Similarity	NPC471356
0.5657	Remote Similarity	NPC173555
0.5612	Remote Similarity	NPC193893
0.5588	Remote Similarity	NPC610296
0.5521	Remote Similarity	NPC99080
0.55	Remote Similarity	NPC5883
0.5472	Remote Similarity	NPC476221
0.5472	Remote Similarity	NPC477709
0.5464	Remote Similarity	NPC243196
0.5408	Remote Similarity	NPC146456
0.5368	Remote Similarity	NPC158344
0.5312	Remote Similarity	NPC473852
0.5287	Remote Similarity	NPC268829
0.5287	Remote Similarity	NPC295110
0.5258	Remote Similarity	NPC219085
0.5258	Remote Similarity	NPC309034
0.5258	Remote Similarity	NPC486129
0.5243	Remote Similarity	NPC27363
0.5204	Remote Similarity	NPC486126
0.5196	Remote Similarity	NPC103534
0.5196	Remote Similarity	NPC44899
0.5196	Remote Similarity	NPC304260
0.5196	Remote Similarity	NPC29639
0.5155	Remote Similarity	NPC479351
0.5155	Remote Similarity	NPC479352
0.51	Remote Similarity	NPC77319
0.51	Remote Similarity	NPC471351
0.51	Remote Similarity	NPC471355
0.5052	Remote Similarity	NPC474418
0.5051	Remote Similarity	NPC34390
0.5049	Remote Similarity	NPC488935
0.5049	Remote Similarity	NPC488936

Similar Clinical/Approved Drugs

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

● The left chart: Distribution of similarity level between NPC486143 and all drugs/candidates.
● The right table: Most similar clinical/approved drugs (Tc>=0.5 or Top200).

range	Tanimoto Coefficient
0-0.1	5973
0.1-0.2	3038
0.2-0.3	118
0.3-0.4	5
0.4-0.5	6
0.5-0.6	6
0.6-0.7	3
0.7-0.8	0
0.8-0.85	1
0.85-0.9	0
0.9-0.95	0
0.95-1	0

Similarity Score	Similarity Level	Drug ID	Developmental Stage
0.8488	Intermediate Similarity	NPD8033	Approved
0.6739	Remote Similarity	NPD8294	Phase 4
0.6162	Remote Similarity	NPD8377	Phase 4
0.6064	Remote Similarity	NPD7507	Pre-clinical
0.5851	Remote Similarity	NPD7319	Approved
0.5729	Remote Similarity	NPD8335	Phase 4
0.5657	Remote Similarity	NPD8296	Phase 4
0.5354	Remote Similarity	NPD8380	Approved
0.5189	Remote Similarity	NPD8378	Pre-clinical
0.5189	Remote Similarity	NPD8379	Approved

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