Natural Product: NPC51141

Natural Product IDNPC51141
Common Name
?
The InCHIKey will be temporarily assigned as the "Common Name" if no IUPAC name or alternative short name is available.
MONIRWNCXRAPAW-UHFFFAOYSA-N
IUPAC Name n.a.
Synonyms
Synthetic Gene Cluster n.a.
ChEMBL Identifier n.a.
PubChem CID 5318084
Chemical Classification
  • CHEMONTID:0000000 [Organic compounds]
    • [CHEMONTID:0001392] Lignans, neolignans and related compounds

The Chemical Classification was calculated by Classyfire, a software for chemical taxonomy calculation. Reference: DOI:10.1186/s13321-016-0174-y.

  Chemical Representations

Standard InCHIKey MONIRWNCXRAPAW-UHFFFAOYSA-N
Standard InCHI InChI=1S/C37H40N2O6/c1-38-14-12-24-19-33-31(42-4)21-27(24)28(38)17-23-8-11-30(41-3)32(18-23)44-26-9-6-22(7-10-26)16-29-35-25(13-15-39(29)2)20-34(43-5)36(40)37(35)45-33/h6-11,18-21,28-29,40H,12-17H2,1-5H3
SMILES CN1CCc2cc3c(cc2C1Cc1ccc(c(c1)Oc1ccc(cc1)CC1c2c(CCN1C)cc(c(c2O3)O)OC)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
NPO11351 Stephania japonica Species Menispermaceae Eukaryota Aerial parts n.a. n.a. PMID[20426456]
NPO11351 Stephania japonica Species Menispermaceae Eukaryota n.a. n.a. n.a. PMID[9392886]
NPO11351 Stephania japonica Species Menispermaceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO11351 Stephania japonica Species Menispermaceae Eukaryota n.a. n.a. n.a. Database[HerDing]
NPO11351 Stephania japonica Species Menispermaceae Eukaryota n.a. n.a. n.a. Database[TCMID]
NPO11351 Stephania japonica Species Menispermaceae Eukaryota n.a. n.a. n.a. Database[TCM_Taiwan]
NPO11351 Stephania japonica Species Menispermaceae 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
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 NPC51141 and all remaining natural products in the NPASS database.
●  The right table: Most similar natural products (Tc>=0.5 or Top200).

Similarity Score Similarity Level Natural Product ID
0.9403 High Similarity NPC290582
0.9403 High Similarity NPC217748
0.9403 High Similarity NPC182052
0.9403 High Similarity NPC271013
0.9403 High Similarity NPC42663
0.9403 High Similarity NPC15414
0.8986 High Similarity NPC279228
0.8108 Intermediate Similarity NPC229373
0.8 Intermediate Similarity NPC181796
0.8 Intermediate Similarity NPC54654
0.8 Intermediate Similarity NPC7715
0.8 Intermediate Similarity NPC328155
0.8 Intermediate Similarity NPC222661
0.8 Intermediate Similarity NPC285931
0.7763 Intermediate Similarity NPC290005
0.7746 Intermediate Similarity NPC276890
0.7576 Intermediate Similarity NPC104196
0.7397 Intermediate Similarity NPC603603
0.7368 Intermediate Similarity NPC311973
0.7361 Intermediate Similarity NPC76682
0.7361 Intermediate Similarity NPC10908
0.7361 Intermediate Similarity NPC63646
0.7361 Intermediate Similarity NPC317145
0.7361 Intermediate Similarity NPC198498
0.7361 Intermediate Similarity NPC115284
0.7313 Intermediate Similarity NPC247639
0.7313 Intermediate Similarity NPC25084
0.7273 Intermediate Similarity NPC254441
0.7108 Intermediate Similarity NPC11296
0.7108 Intermediate Similarity NPC274661
0.7067 Intermediate Similarity NPC12424
0.7067 Intermediate Similarity NPC129518
0.7067 Intermediate Similarity NPC251580
0.7051 Intermediate Similarity NPC116465
0.6923 Remote Similarity NPC239824
0.6883 Remote Similarity NPC73492
0.6883 Remote Similarity NPC299990
0.6829 Remote Similarity NPC8836
0.6829 Remote Similarity NPC275680
0.6829 Remote Similarity NPC22115
0.6753 Remote Similarity NPC603853
0.6709 Remote Similarity NPC286119
0.6706 Remote Similarity NPC82457
0.6625 Remote Similarity NPC185639
0.6625 Remote Similarity NPC251735
0.6625 Remote Similarity NPC49075
0.6625 Remote Similarity NPC599951
0.6494 Remote Similarity NPC227060
0.6486 Remote Similarity NPC30779
0.6456 Remote Similarity NPC480587
0.642 Remote Similarity NPC223690
0.642 Remote Similarity NPC9532
0.6235 Remote Similarity NPC24260
0.6154 Remote Similarity NPC175890
0.6145 Remote Similarity NPC274716
0.6145 Remote Similarity NPC167116
0.6145 Remote Similarity NPC609821
0.6133 Remote Similarity NPC317272
0.6133 Remote Similarity NPC268503
0.6118 Remote Similarity NPC212237
0.6047 Remote Similarity NPC611658
0.6026 Remote Similarity NPC480592
0.6 Remote Similarity NPC240841
0.5949 Remote Similarity NPC41376
0.5897 Remote Similarity NPC256012
0.5897 Remote Similarity NPC610965
0.587 Remote Similarity NPC48490
0.5843 Remote Similarity NPC480586
0.5843 Remote Similarity NPC480590
0.5783 Remote Similarity NPC608819
0.5714 Remote Similarity NPC475393
0.5694 Remote Similarity NPC317439
0.5632 Remote Similarity NPC16357
0.5632 Remote Similarity NPC302245
0.5632 Remote Similarity NPC195538
0.5568 Remote Similarity NPC475479
0.5568 Remote Similarity NPC243454
0.5568 Remote Similarity NPC323537
0.5507 Remote Similarity NPC213206
0.5507 Remote Similarity NPC188163
0.5507 Remote Similarity NPC328750
0.5479 Remote Similarity NPC135538
0.5479 Remote Similarity NPC24233
0.5422 Remote Similarity NPC610959
0.5385 Remote Similarity NPC10871
0.5385 Remote Similarity NPC239584
0.5362 Remote Similarity NPC314682
0.5333 Remote Similarity NPC485712
0.5333 Remote Similarity NPC249996
0.5278 Remote Similarity NPC185838
0.5269 Remote Similarity NPC281581
0.5263 Remote Similarity NPC41122
0.5263 Remote Similarity NPC318805
0.5222 Remote Similarity NPC139783
0.5222 Remote Similarity NPC65312
0.5222 Remote Similarity NPC611798
0.5176 Remote Similarity NPC480591
0.5172 Remote Similarity NPC600054
0.5172 Remote Similarity NPC600872
0.5172 Remote Similarity NPC601504
0.5135 Remote Similarity NPC147390
0.5135 Remote Similarity NPC428
0.5106 Remote Similarity NPC206900
0.5106 Remote Similarity NPC254581
0.5055 Remote Similarity NPC601489
0.5055 Remote Similarity NPC604804
0.5053 Remote Similarity NPC485711

Similar Clinical/Approved Drugs

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

●  The left chart: Distribution of similarity level between NPC51141 and all drugs/candidates.
●  The right table: Most similar clinical/approved drugs (Tc>=0.5 or Top200).

Similarity Score Similarity Level Drug ID Developmental Stage
0.7361 Intermediate Similarity NPD8099 Discontinued
0.72 Intermediate Similarity NPD8156 Discontinued
0.6667 Remote Similarity NPD8095 Phase 1
0.5638 Remote Similarity NPD8054 Phase 4
0.5507 Remote Similarity NPD4664 Clinical (unspecified phase)

Bioactivity similarity

  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