NPASS Compound

Natural Product: NPC274392

Natural Product ID	NPC274392
Common Name ? The InCHIKey will be temporarily assigned as the "Common Name" if no IUPAC name or alternative short name is available.	HHYXHNSYWAYIPS-UHFFFAOYSA-N
IUPAC Name	n.a.
Synonyms
Synthetic Gene Cluster	n.a.
ChEMBL Identifier	n.a.
PubChem CID	5319720
Chemical Classification	CHEMONTID:0000000 [Organic compounds] [CHEMONTID:0000002] Organoheterocyclic compounds [CHEMONTID:0002566] Isoquinolines and derivatives [CHEMONTID:0000054] Benzylisoquinolines

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 45 47 0 0 0 0 0 0 0 0999 V2000 0.4618 -0.4418 2.0006 C 0 0 0 0 0 0 0 0 0 0 0 0 -0.0302 0.5699 1.1068 N 0 0 0 0 0 0 0 0 0 0 0 0 0.3500 1.8940 1.4516 C 0 0 0 0 0 0 0 0 0 0 0 0 1.5447 2.3794 0.6748 C 0 0 0 0 0 0 0 0 0 0 0 0 2.3470 1.2861 0.0762 C 0 0 0 0 0 0 0 0 0 0 0 0 3.7479 1.3244 -0.0016 C 0 0 0 0 0 0 0 0 0 0 0 0 4.4246 0.2703 -0.5792 C 0 0 0 0 0 0 0 0 0 0 0 0 3.7338 -0.8149 -1.0778 C 0 0 0 0 0 0 0 0 0 0 0 0 2.3278 -0.8461 -0.9959 C 0 0 0 0 0 0 0 0 0 0 0 0 1.6566 0.2022 -0.4215 C 0 0 0 0 0 0 0 0 0 0 0 0 0.1894 0.2543 -0.2859 C 0 0 0 0 0 0 0 0 0 0 0 0 -0.5389 -0.9129 -0.8146 C 0 0 0 0 0 0 0 0 0 0 0 0 -2.0136 -0.6598 -0.6617 C 0 0 0 0 0 0 0 0 0 0 0 0 -2.6984 -0.0251 -1.6747 C 0 0 0 0 0 0 0 0 0 0 0 0 -4.0505 0.1927 -1.5101 C 0 0 0 0 0 0 0 0 0 0 0 0 -4.7484 -0.1929 -0.3841 C 0 0 0 0 0 0 0 0 0 0 0 0 -4.0200 -0.8242 0.6017 C 0 0 0 0 0 0 0 0 0 0 0 0 -2.6744 -1.0601 0.4779 C 0 0 0 0 0 0 0 0 0 0 0 0 -6.1006 0.0439 -0.2591 O 0 0 0 0 0 0 0 0 0 0 0 0 -6.8772 -0.3117 0.8402 C 0 0 0 0 0 0 0 0 0 0 0 0 5.8309 0.2830 -0.6703 O 0 0 0 0 0 0 0 0 0 0 0 0 6.5556 -0.7585 -1.2449 C 0 0 0 0 0 0 0 0 0 0 0 0 -0.2764 -0.7881 2.7393 H 0 0 0 0 0 0 0 0 0 0 0 0 0.8151 -1.2949 1.3758 H 0 0 0 0 0 0 0 0 0 0 0 0 1.3850 -0.0244 2.4818 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.5052 2.6072 1.3107 H 0 0 0 0 0 0 0 0 0 0 0 0 0.6235 2.0004 2.5418 H 0 0 0 0 0 0 0 0 0 0 0 0 2.2374 2.9845 1.2957 H 0 0 0 0 0 0 0 0 0 0 0 0 1.2068 3.0845 -0.1398 H 0 0 0 0 0 0 0 0 0 0 0 0 4.2682 2.1863 0.3963 H 0 0 0 0 0 0 0 0 0 0 0 0 4.2771 -1.6409 -1.5314 H 0 0 0 0 0 0 0 0 0 0 0 0 1.7822 -1.6956 -1.3859 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.1578 1.1649 -0.8483 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.3534 -1.0026 -1.8865 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.3048 -1.8691 -0.3424 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.1660 0.2875 -2.5723 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.5771 0.7013 -2.3319 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.5120 -1.1597 1.5286 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.0937 -1.5643 1.2618 H 0 0 0 0 0 0 0 0 0 0 0 0 -6.5896 -1.3108 1.2712 H 0 0 0 0 0 0 0 0 0 0 0 0 -6.8261 0.4606 1.6577 H 0 0 0 0 0 0 0 0 0 0 0 0 -7.9486 -0.4143 0.5711 H 0 0 0 0 0 0 0 0 0 0 0 0 7.6231 -0.6311 -0.9383 H 0 0 0 0 0 0 0 0 0 0 0 0 6.4395 -0.8542 -2.3380 H 0 0 0 0 0 0 0 0 0 0 0 0 6.2349 -1.7267 -0.7654 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 2 0 6 7 1 0 7 8 2 0 8 9 1 0 9 10 2 0 10 11 1 0 11 12 1 0 12 13 1 0 13 14 2 0 14 15 1 0 15 16 2 0 16 17 1 0 17 18 2 0 16 19 1 0 19 20 1 0 7 21 1 0 21 22 1 0 11 2 1 0 18 13 1 0 10 5 1 0 1 23 1 0 1 24 1 0 1 25 1 0 3 26 1 0 3 27 1 0 4 28 1 0 4 29 1 0 6 30 1 0 8 31 1 0 9 32 1 0 11 33 1 0 12 34 1 0 12 35 1 0 14 36 1 0 15 37 1 0 17 38 1 0 18 39 1 0 20 40 1 0 20 41 1 0 20 42 1 0 22 43 1 0 22 44 1 0 22 45 1 0 M END

Standard InCHIKey	HHYXHNSYWAYIPS-UHFFFAOYSA-N
Standard InCHI	InChI=1S/C19H23NO2/c1-20-11-10-15-13-17(22-3)8-9-18(15)19(20)12-14-4-6-16(21-2)7-5-14/h4-9,13,19H,10-12H2,1-3H3
SMILES	CN1CCc2cc(ccc2C1Cc1ccc(cc1)OC)OC

Calculated Properties

Physi-Chem Properties

MedChem Properties

ADMET Properties (ADMETlab3.0)

ADMET: Absorption

ADMET: Distribution

ADMET: Metabolism

ADMET: Excretion

ADMET: Toxicity

Species Source

Organism ID	Organism Name	Taxonomy Level	Family	SuperKingdom	Isolation Part	Collection Location	Collection Time	Reference
NPO3478	Nelumbo nucifera	Species	Nelumbonaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[19919095]
NPO7372	Rosa laevigata	Species	Rosaceae	Eukaryota	n.a.	leaf	n.a.	PMID[21384845]
NPO7372	Rosa laevigata	Species	Rosaceae	Eukaryota	Leaves	Huangshan, Anhui Province, China	2008-NOV	PMID[21384845]
NPO3478	Nelumbo nucifera	Species	Nelumbonaceae	Eukaryota	flower buds and leaves	Khon Kaen province, Thailand	2010	PMID[23270663]
NPO7372	Rosa laevigata	Species	Rosaceae	Eukaryota	n.a.	n.a.	n.a.	PMID[23632365]
NPO3478	Nelumbo nucifera	Species	Nelumbonaceae	Eukaryota	Leaves	n.a.	n.a.	PMID[23642481]
NPO3478	Nelumbo nucifera	Species	Nelumbonaceae	Eukaryota	Flowers	n.a.	n.a.	PMID[26462418]
NPO3478	Nelumbo nucifera	Species	Nelumbonaceae	Eukaryota	n.a.	n.a.	n.a.	Database[COCONUT]
NPO3478	Nelumbo nucifera	Species	Nelumbonaceae	Eukaryota		n.a.	n.a.	Database[FooDB]
NPO3478	Nelumbo nucifera	Species	Nelumbonaceae	Eukaryota	Seed	n.a.	n.a.	Database[FooDB]
NPO3478	Nelumbo nucifera	Species	Nelumbonaceae	Eukaryota	Rhizome	n.a.	n.a.	Database[FooDB]
NPO3478	Nelumbo nucifera	Species	Nelumbonaceae	Eukaryota	Fruit	n.a.	n.a.	Database[FooDB]
NPO3478	Nelumbo nucifera	Species	Nelumbonaceae	Eukaryota	n.a.	n.a.	n.a.	Database[HerDing]
NPO7372	Rosa laevigata	Species	Rosaceae	Eukaryota	n.a.	n.a.	n.a.	Database[HerDing]
NPO7372	Rosa laevigata	Species	Rosaceae	Eukaryota	n.a.	n.a.	n.a.	Database[TCMID]
NPO3478	Nelumbo nucifera	Species	Nelumbonaceae	Eukaryota	n.a.	n.a.	n.a.	Database[TCMID]
NPO3478	Nelumbo nucifera	Species	Nelumbonaceae	Eukaryota	n.a.	n.a.	n.a.	Database[TCM_Taiwan]
NPO7372	Rosa laevigata	Species	Rosaceae	Eukaryota	n.a.	n.a.	n.a.	Database[TCM_Taiwan]
NPO3478	Nelumbo nucifera	Species	Nelumbonaceae	Eukaryota	n.a.	n.a.	n.a.	Database[TM-MC]
NPO7372	Rosa laevigata	Species	Rosaceae	Eukaryota	n.a.	n.a.	n.a.	Database[TM-MC]
NPO3478	Nelumbo nucifera	Species	Nelumbonaceae	Eukaryota	n.a.	n.a.	n.a.	Database[UNPD]
NPO7372	Rosa laevigata	Species	Rosaceae	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 NPC274392 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	30952
0.1-0.2	17095
0.2-0.3	1479
0.3-0.4	198
0.4-0.5	100
0.5-0.6	22
0.6-0.7	11
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	Natural Product ID
0.8222	Intermediate Similarity	NPC314682
0.6939	Remote Similarity	NPC213206
0.6939	Remote Similarity	NPC188163
0.6939	Remote Similarity	NPC328750
0.6226	Remote Similarity	NPC185838
0.6182	Remote Similarity	NPC135538
0.6182	Remote Similarity	NPC24233
0.614	Remote Similarity	NPC247639
0.614	Remote Similarity	NPC25084
0.6111	Remote Similarity	NPC609731
0.6	Remote Similarity	NPC147390
0.6	Remote Similarity	NPC428
0.5873	Remote Similarity	NPC256012
0.5873	Remote Similarity	NPC610965
0.5645	Remote Similarity	NPC317272
0.5645	Remote Similarity	NPC268503
0.5614	Remote Similarity	NPC321505
0.5614	Remote Similarity	NPC179825
0.5439	Remote Similarity	NPC191376
0.5417	Remote Similarity	NPC470926
0.5345	Remote Similarity	NPC317439
0.5211	Remote Similarity	NPC600054
0.5211	Remote Similarity	NPC601504
0.5147	Remote Similarity	NPC603603
0.5088	Remote Similarity	NPC474915
0.5082	Remote Similarity	NPC104196
0.5082	Remote Similarity	NPC27887
0.5075	Remote Similarity	NPC76682
0.5075	Remote Similarity	NPC10908
0.5075	Remote Similarity	NPC63646
0.5075	Remote Similarity	NPC317145
0.5075	Remote Similarity	NPC198498
0.5075	Remote Similarity	NPC115284
0.5072	Remote Similarity	NPC240841

Similar Clinical/Approved Drugs

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

● The left chart: Distribution of similarity level between NPC274392 and all drugs/candidates.
● The right table: Most similar clinical/approved drugs (Tc>=0.5 or Top200).

range	Tanimoto Coefficient
0-0.1	3940
0.1-0.2	4778
0.2-0.3	393
0.3-0.4	31
0.4-0.5	6
0.5-0.6	1
0.6-0.7	1
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
0.6939	Remote Similarity	NPD4664	Clinical (unspecified phase)
0.5075	Remote Similarity	NPD8099	Discontinued

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