NPASS Compound

Natural Product: NPC231342

Natural Product ID	NPC231342
Common Name ? The InCHIKey will be temporarily assigned as the "Common Name" if no IUPAC name or alternative short name is available.	LQDPZVYIZKOAPV-BCHUPDFZSA-N
IUPAC Name	n.a.
Synonyms
Synthetic Gene Cluster	n.a.
ChEMBL Identifier	CHEMBL2408942
PubChem CID	71745337
Chemical Classification	CHEMONTID:0000000 [Organic compounds] [CHEMONTID:0000002] Organoheterocyclic compounds [CHEMONTID:0001640] Naphthopyrans

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 70 75 0 0 0 0 0 0 0 0999 V2000 -3.7433 2.1266 0.0598 O 0 0 0 0 0 0 0 0 0 0 0 0 -3.8785 1.0516 0.9341 C 0 0 1 0 0 0 0 0 0 0 0 0 -4.2124 -0.1764 0.1132 C 0 0 2 0 0 0 0 0 0 0 0 0 -3.3512 -0.2218 -0.9568 O 0 0 0 0 0 0 0 0 0 0 0 0 -2.0978 -0.6221 -0.4411 C 0 0 2 0 0 0 0 0 0 0 0 0 -1.5633 0.4509 0.5115 C 0 0 2 0 0 0 0 0 0 0 0 0 -2.5382 0.7218 1.6097 C 0 0 2 0 0 0 0 0 0 0 0 0 -2.7950 -0.4141 2.3892 O 0 0 0 0 0 0 0 0 0 0 0 0 -1.4115 1.6022 -0.2373 O 0 0 0 0 0 0 0 0 0 0 0 0 -0.2489 -0.1158 0.9884 C 0 0 2 0 0 0 0 0 0 0 0 0 0.1925 0.3953 2.3023 C 0 0 0 0 0 0 0 0 0 0 0 0 1.4700 -0.3728 2.6913 C 0 0 0 0 0 0 0 0 0 0 0 0 2.4216 -0.0758 1.6133 C 0 0 2 0 0 0 0 0 0 0 0 0 1.9899 -0.6524 0.2627 C 0 0 2 0 0 0 0 0 0 0 0 0 0.7444 0.0942 -0.1453 C 0 0 1 0 0 0 0 0 0 0 0 0 0.2045 -0.3568 -1.4469 C 0 0 0 0 0 0 0 0 0 0 0 0 -1.1187 -0.9940 -1.4761 C 0 0 0 0 0 0 0 0 0 0 0 0 1.1397 1.5618 -0.2675 C 0 0 0 0 0 0 0 0 0 0 0 0 1.8389 -2.1245 0.3141 C 0 0 0 0 0 0 0 0 0 0 0 0 3.1749 -0.2922 -0.5467 C 0 0 0 0 0 0 0 0 0 0 0 0 3.6166 0.0398 -1.7967 N 0 0 0 0 0 0 0 0 0 0 0 0 4.9431 0.2469 -1.7808 C 0 0 0 0 0 0 0 0 0 0 0 0 5.3511 0.0359 -0.4642 C 0 0 0 0 0 0 0 0 0 0 0 0 4.2620 -0.2979 0.3051 C 0 0 0 0 0 0 0 0 0 0 0 0 3.7989 -0.6577 1.6930 C 0 0 0 0 0 0 0 0 0 0 0 0 6.6991 0.1917 -0.1877 C 0 0 0 0 0 0 0 0 0 0 0 0 7.6286 0.5396 -1.1446 C 0 0 0 0 0 0 0 0 0 0 0 0 7.2256 0.7480 -2.4447 C 0 0 0 0 0 0 0 0 0 0 0 0 5.8845 0.5945 -2.7278 C 0 0 0 0 0 0 0 0 0 0 0 0 -5.6609 -0.2424 -0.2578 C 0 0 0 0 0 0 0 0 0 0 0 0 -6.3927 -0.1840 0.9493 O 0 0 0 0 0 0 0 0 0 0 0 0 -5.9548 -1.5941 -0.8601 C 0 0 0 0 0 0 0 0 0 0 0 0 -6.1089 0.8933 -1.1142 C 0 0 0 0 0 0 0 0 0 0 0 0 -3.2933 2.8699 0.5524 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.6604 1.2180 1.6923 H 0 0 0 0 0 0 0 0 0 0 0 0 -3.9956 -1.0669 0.7589 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.3442 -1.4919 0.2311 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.1721 1.5718 2.2013 H 0 0 0 0 0 0 0 0 0 0 0 0 -3.0484 -0.0590 3.2995 H 0 0 0 0 0 0 0 0 0 0 0 0 -1.7460 1.5216 -1.1684 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.3293 -1.2404 1.0872 H 0 0 0 0 0 0 0 0 0 0 0 0 0.3388 1.4662 2.3947 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.5569 0.0925 3.0569 H 0 0 0 0 0 0 0 0 0 0 0 0 1.2105 -1.4235 2.8378 H 0 0 0 0 0 0 0 0 0 0 0 0 1.8405 0.0243 3.6384 H 0 0 0 0 0 0 0 0 0 0 0 0 2.5314 1.0226 1.5157 H 0 0 0 0 0 0 0 0 0 0 0 0 0.2100 0.4773 -2.2121 H 0 0 0 0 0 0 0 0 0 0 0 0 0.9531 -1.0891 -1.8794 H 0 0 0 0 0 0 0 0 0 0 0 0 -1.6097 -0.8146 -2.4819 H 0 0 0 0 0 0 0 0 0 0 0 0 -1.0050 -2.1199 -1.4636 H 0 0 0 0 0 0 0 0 0 0 0 0 0.7633 2.1847 0.5376 H 0 0 0 0 0 0 0 0 0 0 0 0 0.7169 1.9966 -1.2217 H 0 0 0 0 0 0 0 0 0 0 0 0 2.2490 1.6735 -0.3955 H 0 0 0 0 0 0 0 0 0 0 0 0 1.9818 -2.5676 1.3371 H 0 0 0 0 0 0 0 0 0 0 0 0 0.8904 -2.5262 -0.0546 H 0 0 0 0 0 0 0 0 0 0 0 0 2.6405 -2.6255 -0.3057 H 0 0 0 0 0 0 0 0 0 0 0 0 3.0239 0.1238 -2.6467 H 0 0 0 0 0 0 0 0 0 0 0 0 3.8161 -1.7660 1.7204 H 0 0 0 0 0 0 0 0 0 0 0 0 4.4314 -0.1999 2.4621 H 0 0 0 0 0 0 0 0 0 0 0 0 6.9912 0.0194 0.8565 H 0 0 0 0 0 0 0 0 0 0 0 0 8.6770 0.6572 -0.9122 H 0 0 0 0 0 0 0 0 0 0 0 0 7.9494 1.0250 -3.2194 H 0 0 0 0 0 0 0 0 0 0 0 0 5.5902 0.7644 -3.7616 H 0 0 0 0 0 0 0 0 0 0 0 0 -6.5953 0.7332 1.2098 H 0 0 0 0 0 0 0 0 0 0 0 0 -5.9380 -1.5892 -1.9592 H 0 0 0 0 0 0 0 0 0 0 0 0 -6.9676 -1.9614 -0.5586 H 0 0 0 0 0 0 0 0 0 0 0 0 -5.2435 -2.3609 -0.4348 H 0 0 0 0 0 0 0 0 0 0 0 0 -7.1682 0.6662 -1.4301 H 0 0 0 0 0 0 0 0 0 0 0 0 -6.1781 1.8013 -0.4660 H 0 0 0 0 0 0 0 0 0 0 0 0 -5.4642 1.0931 -1.9820 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 6 9 1 6 6 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 15 18 1 6 14 19 1 1 14 20 1 0 20 21 1 0 21 22 1 0 22 23 2 0 23 24 1 0 24 25 1 0 23 26 1 0 26 27 2 0 27 28 1 0 28 29 2 0 3 30 1 0 30 31 1 0 30 32 1 0 30 33 1 0 7 2 1 0 15 10 1 0 24 20 2 0 17 5 1 0 29 22 1 0 25 13 1 0 1 34 1 0 2 35 1 1 3 36 1 1 5 37 1 1 7 38 1 1 8 39 1 0 9 40 1 0 10 41 1 1 11 42 1 0 11 43 1 0 12 44 1 0 12 45 1 0 13 46 1 6 16 47 1 0 16 48 1 0 17 49 1 0 17 50 1 0 18 51 1 0 18 52 1 0 18 53 1 0 19 54 1 0 19 55 1 0 19 56 1 0 21 57 1 0 25 58 1 0 25 59 1 0 26 60 1 0 27 61 1 0 28 62 1 0 29 63 1 0 31 64 1 0 32 65 1 0 32 66 1 0 32 67 1 0 33 68 1 0 33 69 1 0 33 70 1 0 M END

Standard InCHIKey	LQDPZVYIZKOAPV-BCHUPDFZSA-N
Standard InCHI	InChI=1S/C27H37NO5/c1-24(2,31)23-20(29)22(30)27(32)18-10-9-14-13-16-15-7-5-6-8-17(15)28-21(16)26(14,4)25(18,3)12-11-19(27)33-23/h5-8,14,18-20,22-23,28-32H,9-13H2,1-4H3/t14-,18+,19-,20+,22+,23-,25-,26+,27+/m0/s1
SMILES	O[C@H]1[C@H](O[C@@H]2[C@]([C@@H]1O)(O)[C@@H]1CC[C@@H]3[C@]([C@]1(CC2)C)(C)c1[nH]c2c(c1C3)cccc2)C(O)(C)C

Calculated Properties

Physi-Chem Properties

Molecular Weight:	455.27	Volume:	468.611 ? Van der Waals volume.
Dense:	0.972	LogP:	2.616 ? The logarithm of the n-octanol/water distribution coefficients.
logD7.4:	2.813 ? The logarithm of the n-octanol/water distribution coefficient at pH=7.4.	LogS:	-4.092 ? The logarithm of aqueous solubility value.
Rotatable Bonds:	1.0	Rigid Bonds:	29.0
TPSA:	105.94 ? Topological Polar Surface Area.	H-Bond Acceptor:	6.0
H-Bond Donor:	5.0	Rings:	6.0
Heavy Atoms:	6.0

MedChem Properties

QED Drug-Likeness Score:	0.455	GASA:	1.0 ? GASA represents the probability of being difficult to synthesize, ranging from 0 to 1.
Synthetic Accessibility Score:	4.978	Fsp³:	0.704
MCE-18:	144.348 ? 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:	0.302	Fluc inhibitor:	0.0 ? The fluc inhibitor value is the probability of being fLuc inhibitors, within the range of 0 to 1.
Blue fluorescence:	0.543 ? The blue fluorescence value is the probability of being blue fluorescence, within the range of 0 to 1	Green fluorescence:	0.015 ? The green fluorescence value is the probability of being green fluorescence, within the range of 0 to 1
Reactive compounds:	0.009	Promiscuous compounds:	0.177

ADMET Properties (ADMETlab3.0)

ADMET: Absorption

Caco-2 Permeability:	-5.73	MDCK Permeability:	-5.093
Pgp-inhibitor:	0.0	Pgp-substrate:	0.017
PAMPA:	0.99 ? 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%):	0.008	30% Bioavailability (F30%):	0.028
50% Bioavailability (F50%):	0.907

ADMET: Distribution

Blood-Brain-Barrier Penetration (BBB):	0.975	MRP1:	0.113
Plasma Protein Binding (PPB):	87.287%	Volume Distribution (VD):	-0.256
Fu:	8.497% ? The fraction unbound in plasms.	OATP1B1 inhibitor:	1.0
OATP1B3 inhibitor:	0.999	BCRP inhibitor:	0.883
BSEP inhibitor:	0.879

ADMET: Metabolism

CYP1A2-inhibitor:	0.992	CYP1A2-substrate:	0.0
CYP2C19-inhibitor:	0.137	CYP2C19-substrate:	0.071
CYP2C9-inhibitor:	0.246	CYP2C9-substrate:	0.041
CYP2D6-inhibitor:	0.005	CYP2D6-substrate:	0.018
CYP3A4-inhibitor:	0.998	CYP3A4-substrate:	0.998
CYP2B6-substrate:	0.0	CYP2C8-inhibitor:	0.999
HLM stability:	0.001 ? 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):

5.93

Half-life (T1/2):

2.122

ADMET: Toxicity

hERG Blockers:	0.202	hERG Blockers (10um):	0.454
Human Hepatotoxicity (H-HT):	0.597	Drug-induced Liver Injury (DILI):	0.157
AMES Toxicity:	0.597	Rat Oral Acute Toxicity:	0.58
Maximum Recommended Daily Dose:	0.802	Skin Sensitization:	0.911
Carcinogencity:	0.692	Eye Corrosion:	0.0
Eye Irritation:	0.12	Respiratory Toxicity:	0.87
Drug-induced Neurotoxicity:	0.186	Ototoxicity:	0.811
Hematotoxicity:	0.186	Drug-induced Nephrotoxicity:	0.737
Genotoxicity:	0.825	RPMI-8226 Immunitoxicity:	0.099
A549 Cytotoxicity:	0.361	Hek293 Cytotoxicity:	0.596
BCF:	1.943 ? 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:	4.096 ? 48 hour Tetrahymena pyriformis IGC50. The unit of IGC50 is -log10[(mg/L)/(1000*MW)].
LC50DM:	5.277 ? 48 hour Daphnia magna LC50. The unit of LC50DM is -log10[(mg/L)/(1000*MW)].	LC50FM:	4.835 ? 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
NPO32542	penicillium camemberti oucmdz-1492	Species	Aspergillaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[23886345]

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	1

Activity Type	# Activity
Organism	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
NPT1453	Organism	Influenza A virus (A/PR/8/34(H1N1))	Influenza A virus (A/Puerto Rico/8/1934(H1N1))	IC50	=	32200.0	nM	DOI[10.6019/CHEMBL1201861]

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 NPC231342 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	16592
0.1-0.2	32160
0.2-0.3	940
0.3-0.4	114
0.4-0.5	24
0.5-0.6	20
0.6-0.7	6
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
0.7162	Intermediate Similarity	NPC165201
0.6625	Remote Similarity	NPC119700
0.6463	Remote Similarity	NPC20697
0.6296	Remote Similarity	NPC609321
0.6265	Remote Similarity	NPC34271
0.6047	Remote Similarity	NPC18661
0.6023	Remote Similarity	NPC600666
0.593	Remote Similarity	NPC123019
0.5875	Remote Similarity	NPC602195
0.5663	Remote Similarity	NPC6093
0.5542	Remote Similarity	NPC198339
0.5455	Remote Similarity	NPC224641
0.5402	Remote Similarity	NPC489082
0.5393	Remote Similarity	NPC487201
0.5376	Remote Similarity	NPC36356
0.5375	Remote Similarity	NPC302191
0.5368	Remote Similarity	NPC609846
0.5357	Remote Similarity	NPC97525
0.5258	Remote Similarity	NPC601417
0.5253	Remote Similarity	NPC606615
0.5244	Remote Similarity	NPC99428
0.5222	Remote Similarity	NPC487204
0.5222	Remote Similarity	NPC235900
0.52	Remote Similarity	NPC609845
0.5172	Remote Similarity	NPC487209
0.5111	Remote Similarity	NPC206967
0.5057	Remote Similarity	NPC487208

Similar Clinical/Approved Drugs

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

● The left chart: Distribution of similarity level between NPC231342 and all drugs/candidates.
● The right table: Most similar clinical/approved drugs (Tc>=0.5 or Top200).

range	Tanimoto Coefficient
0-0.1	5044
0.1-0.2	3995
0.2-0.3	106
0.3-0.4	5
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