Natural Product: NPC600940

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

  Chemical Representations

  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

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 NPC600940 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
0.8641 High Similarity NPC600721
0.8641 High Similarity NPC605872
0.8447 Intermediate Similarity NPC610996
0.7664 Intermediate Similarity NPC611287
0.7636 Intermediate Similarity NPC610997
0.7228 Intermediate Similarity NPC238056
0.7117 Intermediate Similarity NPC600672
0.6832 Remote Similarity NPC146992
0.6832 Remote Similarity NPC85759
0.6699 Remote Similarity NPC294748
0.6667 Remote Similarity NPC224953
0.6635 Remote Similarity NPC478726
0.6381 Remote Similarity NPC472204
0.6355 Remote Similarity NPC126685
0.633 Remote Similarity NPC478728
0.6306 Remote Similarity NPC475241
0.6286 Remote Similarity NPC297768
0.6273 Remote Similarity NPC478727
0.6214 Remote Similarity NPC89843
0.6214 Remote Similarity NPC477331
0.6214 Remote Similarity NPC477332
0.6204 Remote Similarity NPC183888
0.6204 Remote Similarity NPC184915
0.619 Remote Similarity NPC478722
0.619 Remote Similarity NPC478725
0.6176 Remote Similarity NPC22742
0.6176 Remote Similarity NPC477346
0.6132 Remote Similarity NPC478723
0.6132 Remote Similarity NPC478724
0.6091 Remote Similarity NPC269318
0.6091 Remote Similarity NPC44782
0.6075 Remote Similarity NPC119583
0.6019 Remote Similarity NPC483170
0.6 Remote Similarity NPC472200
0.5981 Remote Similarity NPC173328
0.5963 Remote Similarity NPC115013
0.5926 Remote Similarity NPC186992
0.5905 Remote Similarity NPC478734
0.5849 Remote Similarity NPC158302
0.5818 Remote Similarity NPC169345
0.5818 Remote Similarity NPC478732
0.5814 Remote Similarity NPC147032
0.5794 Remote Similarity NPC109887
0.5794 Remote Similarity NPC478733
0.578 Remote Similarity NPC143421
0.5766 Remote Similarity NPC259294
0.5766 Remote Similarity NPC475270
0.5766 Remote Similarity NPC475327
0.575 Remote Similarity NPC290276
0.5727 Remote Similarity NPC476087
0.5727 Remote Similarity NPC475667
0.5701 Remote Similarity NPC477344
0.5688 Remote Similarity NPC472205
0.5688 Remote Similarity NPC477319
0.5676 Remote Similarity NPC290012
0.566 Remote Similarity NPC604005
0.566 Remote Similarity NPC605014
0.5644 Remote Similarity NPC478729
0.5636 Remote Similarity NPC307400
0.5636 Remote Similarity NPC27289
0.56 Remote Similarity NPC472352
0.5586 Remote Similarity NPC238264
0.5586 Remote Similarity NPC477345
0.5556 Remote Similarity NPC477326
0.5512 Remote Similarity NPC471024
0.55 Remote Similarity NPC77651
0.5492 Remote Similarity NPC10883
0.5455 Remote Similarity NPC60849
0.5439 Remote Similarity NPC123204
0.5429 Remote Similarity NPC477328
0.5429 Remote Similarity NPC477330
0.5398 Remote Similarity NPC477317
0.5398 Remote Similarity NPC477318
0.5385 Remote Similarity NPC477350
0.5377 Remote Similarity NPC477329
0.5357 Remote Similarity NPC478730
0.5345 Remote Similarity NPC475164
0.5315 Remote Similarity NPC479061
0.5299 Remote Similarity NPC473605
0.5299 Remote Similarity NPC475375
0.5278 Remote Similarity NPC477349
0.5268 Remote Similarity NPC479060
0.5242 Remote Similarity NPC10121
0.5242 Remote Similarity NPC198918
0.5189 Remote Similarity NPC146380
0.5179 Remote Similarity NPC267592
0.5164 Remote Similarity NPC63404
0.5135 Remote Similarity NPC600446
0.5135 Remote Similarity NPC605013
0.513 Remote Similarity NPC478731
0.5128 Remote Similarity NPC477347
0.5122 Remote Similarity NPC28069
0.5086 Remote Similarity NPC479057
0.5043 Remote Similarity NPC163409
0.5041 Remote Similarity NPC35338
0.5041 Remote Similarity NPC204214
0.5041 Remote Similarity NPC92283
0.5039 Remote Similarity NPC471025

Similar Clinical/Approved Drugs

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

●  The left chart: Distribution of similarity level between NPC600940 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