Natural Product: NPC610996

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 NPC610996 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
0.8614 High Similarity NPC600721
0.8614 High Similarity NPC605872
0.85 High Similarity NPC611287
0.8447 Intermediate Similarity NPC600940
0.8447 Intermediate Similarity NPC610997
0.7714 Intermediate Similarity NPC600672
0.7172 Intermediate Similarity NPC238056
0.6857 Remote Similarity NPC475241
0.6768 Remote Similarity NPC146992
0.6768 Remote Similarity NPC85759
0.67 Remote Similarity NPC297768
0.6634 Remote Similarity NPC294748
0.6442 Remote Similarity NPC224953
0.6346 Remote Similarity NPC478732
0.63 Remote Similarity NPC478734
0.6286 Remote Similarity NPC475270
0.6286 Remote Similarity NPC475327
0.625 Remote Similarity NPC476087
0.625 Remote Similarity NPC475667
0.6176 Remote Similarity NPC478733
0.6154 Remote Similarity NPC119583
0.6132 Remote Similarity NPC184915
0.6095 Remote Similarity NPC483170
0.6095 Remote Similarity NPC478726
0.6078 Remote Similarity NPC477344
0.6038 Remote Similarity NPC115013
0.6019 Remote Similarity NPC269318
0.6019 Remote Similarity NPC44782
0.598 Remote Similarity NPC89843
0.5962 Remote Similarity NPC479061
0.5962 Remote Similarity NPC60849
0.5943 Remote Similarity NPC238264
0.5943 Remote Similarity NPC477345
0.5905 Remote Similarity NPC479060
0.5849 Remote Similarity NPC478730
0.5833 Remote Similarity NPC126685
0.5818 Remote Similarity NPC475164
0.5818 Remote Similarity NPC478728
0.5784 Remote Similarity NPC22742
0.5784 Remote Similarity NPC477346
0.578 Remote Similarity NPC472200
0.5766 Remote Similarity NPC478727
0.5766 Remote Similarity NPC473605
0.5766 Remote Similarity NPC475375
0.5755 Remote Similarity NPC173328
0.5714 Remote Similarity NPC109887
0.5701 Remote Similarity NPC186992
0.5688 Remote Similarity NPC183888
0.5673 Remote Similarity NPC477331
0.5673 Remote Similarity NPC477332
0.566 Remote Similarity NPC478722
0.566 Remote Similarity NPC478725
0.5619 Remote Similarity NPC158302
0.5607 Remote Similarity NPC478723
0.5607 Remote Similarity NPC478724
0.5596 Remote Similarity NPC478731
0.5596 Remote Similarity NPC477317
0.5596 Remote Similarity NPC477318
0.5556 Remote Similarity NPC143421
0.5556 Remote Similarity NPC472204
0.5504 Remote Similarity NPC147032
0.5472 Remote Similarity NPC479059
0.5463 Remote Similarity NPC477319
0.5455 Remote Similarity NPC169345
0.5455 Remote Similarity NPC290012
0.5446 Remote Similarity NPC476066
0.5446 Remote Similarity NPC477347
0.5413 Remote Similarity NPC307400
0.5413 Remote Similarity NPC27289
0.5405 Remote Similarity NPC259294
0.54 Remote Similarity NPC606819
0.5357 Remote Similarity NPC475525
0.5357 Remote Similarity NPC475540
0.5321 Remote Similarity NPC479058
0.5289 Remote Similarity NPC290276
0.528 Remote Similarity NPC472352
0.5221 Remote Similarity NPC123204
0.5197 Remote Similarity NPC471024
0.5182 Remote Similarity NPC472205
0.5133 Remote Similarity NPC479057
0.5098 Remote Similarity NPC478729
0.5048 Remote Similarity NPC477330
0.5046 Remote Similarity NPC477326

Similar Clinical/Approved Drugs

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

●  The left chart: Distribution of similarity level between NPC610996 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