Natural Product: NPC191410

Natural Product IDNPC191410
Common Name
?
The InCHIKey will be temporarily assigned as the "Common Name" if no IUPAC name or alternative short name is available.
VRFWJSCLROXBBW-FUHHSGJXSA-N
IUPAC Name n.a.
Synonyms
Synthetic Gene Cluster n.a.
ChEMBL Identifier n.a.
PubChem CID 73146
Chemical Classification
  • CHEMONTID:0000000 [Organic compounds]
    • [CHEMONTID:0000012] Lipids and lipid-like molecules
      • [CHEMONTID:0000259] Prenol lipids
        • [CHEMONTID:0002049] Terpene glycosides
          • [CHEMONTID:0001580] Triterpene glycosides
            • [CHEMONTID:0002358] Triterpene saponins

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 VRFWJSCLROXBBW-FUHHSGJXSA-N
Standard InCHI InChI=1S/C38H61NO8/c1-21(41)39-28-30(43)29(42)24(20-40)46-31(28)47-27-12-13-35(6)25(34(27,4)5)11-14-37(8)26(35)10-9-22-23-19-33(2,3)15-17-38(23,32(44)45)18-16-36(22,37)7/h9,23-31,40,42-43H,10-20H2,1-8H3,(H,39,41)(H,44,45)/t23-,24+,25-,26+,27-,28+,29+,30+,31-,35-,36+,37+,38-/m0/s1
SMILES CC(=N[C@@H]1[C@H]([C@@H]([C@@H](CO)O[C@H]1O[C@H]1CC[C@@]2(C)[C@@H](CC[C@]3(C)[C@@H]2CC=C2[C@@H]4CC(C)(C)CC[C@@]4(CC[C@@]32C)C(=O)O)C1(C)C)O)O)O

  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
NPO14975 Adenanthera pavonina Species Fabaceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO14975 Adenanthera pavonina Species Fabaceae Eukaryota n.a. n.a. n.a. Database[HerDing]
NPO14975 Adenanthera pavonina Species Fabaceae Eukaryota n.a. n.a. n.a. Database[TCMID]
NPO14975 Adenanthera pavonina Species Fabaceae 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
NPT12 Individual protein Human immunodeficiency virus type 1 integrase Human immunodeficiency virus 1 IC50 = 18300.0 nM PMID[35276425]

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 NPC191410 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
0.8353 Intermediate Similarity NPC76999
0.8065 Intermediate Similarity NPC119794
0.7528 Intermediate Similarity NPC164194
0.7412 Intermediate Similarity NPC606107
0.7396 Intermediate Similarity NPC73829
0.7283 Intermediate Similarity NPC25605
0.7128 Intermediate Similarity NPC488561
0.7033 Intermediate Similarity NPC475472
0.7021 Intermediate Similarity NPC109079
0.6961 Remote Similarity NPC280941
0.6961 Remote Similarity NPC235772
0.6907 Remote Similarity NPC114304
0.6842 Remote Similarity NPC127056
0.6771 Remote Similarity NPC472949
0.6705 Remote Similarity NPC204407
0.6701 Remote Similarity NPC22956
0.6632 Remote Similarity NPC12288
0.6471 Remote Similarity NPC79718
0.6463 Remote Similarity NPC120840
0.6444 Remote Similarity NPC283849
0.6373 Remote Similarity NPC257468
0.6346 Remote Similarity NPC75318
0.6304 Remote Similarity NPC286347
0.6224 Remote Similarity NPC56713
0.6224 Remote Similarity NPC59804
0.619 Remote Similarity NPC324875
0.619 Remote Similarity NPC292677
0.6176 Remote Similarity NPC180550
0.6176 Remote Similarity NPC35405
0.6132 Remote Similarity NPC488564
0.6129 Remote Similarity NPC31839
0.6082 Remote Similarity NPC270667
0.6019 Remote Similarity NPC62725
0.598 Remote Similarity NPC469945
0.596 Remote Similarity NPC136877
0.5938 Remote Similarity NPC284807
0.5938 Remote Similarity NPC473538
0.5914 Remote Similarity NPC28198
0.5914 Remote Similarity NPC476123
0.5904 Remote Similarity NPC480946
0.5904 Remote Similarity NPC130577
0.5904 Remote Similarity NPC142415
0.5904 Remote Similarity NPC102683
0.5842 Remote Similarity NPC114441
0.5833 Remote Similarity NPC270768
0.5833 Remote Similarity NPC59263
0.5833 Remote Similarity NPC210106
0.581 Remote Similarity NPC139044
0.5755 Remote Similarity NPC481082
0.5755 Remote Similarity NPC164419
0.5752 Remote Similarity NPC166422
0.5752 Remote Similarity NPC219180
0.5752 Remote Similarity NPC251263
0.5743 Remote Similarity NPC174679
0.5743 Remote Similarity NPC279554
0.5728 Remote Similarity NPC80843
0.5714 Remote Similarity NPC104400
0.5714 Remote Similarity NPC10320
0.5682 Remote Similarity NPC296164
0.5657 Remote Similarity NPC475611
0.5652 Remote Similarity NPC54636
0.5648 Remote Similarity NPC276093
0.5647 Remote Similarity NPC275809
0.5631 Remote Similarity NPC6377
0.5631 Remote Similarity NPC208381
0.5618 Remote Similarity NPC96580
0.5596 Remote Similarity NPC323359
0.5581 Remote Similarity NPC158141
0.5567 Remote Similarity NPC100383
0.5517 Remote Similarity NPC298554
0.5505 Remote Similarity NPC145899
0.5465 Remote Similarity NPC84319
0.5465 Remote Similarity NPC52021
0.5465 Remote Similarity NPC599947
0.5455 Remote Similarity NPC294112
0.5446 Remote Similarity NPC480939
0.5408 Remote Similarity NPC242611
0.5402 Remote Similarity NPC231063
0.5402 Remote Similarity NPC282395
0.5402 Remote Similarity NPC110308
0.537 Remote Similarity NPC471383
0.5287 Remote Similarity NPC182797
0.5287 Remote Similarity NPC282616
0.5287 Remote Similarity NPC52169
0.5287 Remote Similarity NPC488562
0.5259 Remote Similarity NPC323341
0.5259 Remote Similarity NPC133818
0.5258 Remote Similarity NPC57362
0.5238 Remote Similarity NPC604575
0.5227 Remote Similarity NPC481360
0.5221 Remote Similarity NPC475486
0.5217 Remote Similarity NPC200788
0.5172 Remote Similarity NPC198664
0.5165 Remote Similarity NPC488521
0.5164 Remote Similarity NPC161717
0.5161 Remote Similarity NPC601365
0.513 Remote Similarity NPC288205
0.513 Remote Similarity NPC51465
0.513 Remote Similarity NPC476992
0.5128 Remote Similarity NPC243680
0.5122 Remote Similarity NPC111466
0.5114 Remote Similarity NPC121798
0.5114 Remote Similarity NPC234346
0.5056 Remote Similarity NPC106112
0.5056 Remote Similarity NPC261935
0.5055 Remote Similarity NPC608622
0.5054 Remote Similarity NPC474727
0.5049 Remote Similarity NPC480938
0.5047 Remote Similarity NPC488516

Similar Clinical/Approved Drugs

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

●  The left chart: Distribution of similarity level between NPC191410 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
NPD

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