Natural Product: NPC118478

Natural Product IDNPC118478
Common Name
?
The InCHIKey will be temporarily assigned as the "Common Name" if no IUPAC name or alternative short name is available.
BRAQGYOYQRQKSH-CLIZTANYSA-N
IUPAC Name n.a.
Synonyms
Synthetic Gene Cluster n.a.
ChEMBL Identifier n.a.
PubChem CID 21636203
Chemical Classification
  • CHEMONTID:0000000 [Organic compounds]
    • [CHEMONTID:0004603] Organic oxygen compounds
      • [CHEMONTID:0000323] Organooxygen compounds
        • [CHEMONTID:0000011] Carbohydrates and carbohydrate conjugates
          • [CHEMONTID:0000198] Oligosaccharides

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 BRAQGYOYQRQKSH-CLIZTANYSA-N
Standard InCHI InChI=1S/C41H62O15/c1-19-36(44)29(46-6)14-34(50-19)55-37-20(2)51-32(13-26(37)42)56-38-21(3)52-33(15-30(38)47-7)53-28-12-23-9-10-24-25(40(23,4)16-27(28)43)11-8-22-17-48-41(5)35(22)31(18-49-41)54-39(24)45/h9,17,19-21,24-38,42-44H,8,10-16,18H2,1-7H3/t19-,20+,21-,24+,25-,26-,27+,28+,29+,30+,31+,32-,33+,34-,35+,36-,37+,38-,40-,41-/m0/s1
SMILES C[C@H]1[C@@H]([C@@H](C[C@@H](O1)O[C@@H]1[C@@H](C)O[C@H](C[C@@H]1O)O[C@H]1[C@H](C)O[C@@H](C[C@H]1OC)O[C@@H]1CC2=CC[C@@H]3[C@H](CCC4=CO[C@]5(C)[C@H]4[C@@H](CO5)OC3=O)[C@@]2(C)C[C@H]1O)OC)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
NPO27831 Phakellia flabellata Species Bubaridae Eukaryota n.a. n.a. n.a. DOI[10.1021/jo00445a028]
NPO29042 Vincetoxicum atratum Species Apocynaceae Eukaryota Roots n.a. n.a. PMID[11374953]
NPO28107 Penicillium expansum Species Aspergillaceae Eukaryota n.a. n.a. n.a. PMID[15056914]
NPO28107 Penicillium expansum Species Aspergillaceae Eukaryota n.a. n.a. n.a. PMID[15270557]
NPO27850 Trichilia catigua Species Meliaceae Eukaryota n.a. bark n.a. PMID[18020420]
NPO28574 Oroxylum indicum Species Bignoniaceae Eukaryota n.a. n.a. n.a. PMID[19948405]
NPO28107 Penicillium expansum Species Aspergillaceae Eukaryota n.a. n.a. n.a. PMID[20415462]
NPO28574 Oroxylum indicum Species Bignoniaceae Eukaryota n.a. seed n.a. PMID[23672042]
NPO28107 Penicillium expansum Species Aspergillaceae Eukaryota n.a. n.a. n.a. PMID[24024763]
NPO28574 Oroxylum indicum Species Bignoniaceae Eukaryota n.a. n.a. n.a. PMID[36483735]
NPO28333 Syzygium levinei Species Myrtaceae Eukaryota n.a. n.a. n.a. PMID[38005226]
NPO28214 Phyllosticta cirsii Species Phyllostictaceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO28176 Russula lepida Species Russulaceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO28197 Huperzia selago Species Lycopodiaceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO28574 Oroxylum indicum Species Bignoniaceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO28372 Corydalis pallida Species Papaveraceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO28158 Polygala fruticosa Species Polygalaceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO29042 Vincetoxicum atratum Species Apocynaceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO28494 Hydroclathrus tenuis Species Scytosiphonaceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO28525 Urginea riparia Species Hyacinthaceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO28425 Senecio miser Species Asteraceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO28543 Alcyonium coralloides Species Alcyoniidae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO28507 Hymenoxys grandiflora Species Asteraceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO28228 Kielmeyera rubriflora Species Calophyllaceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO27850 Trichilia catigua Species Meliaceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO28050 Thalictrum podocarpum Species Ranunculaceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO29373 Trichoplusia ni Species Noctuidae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO27918 Pterocarpus macrocarpus Species Fabaceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO28107 Penicillium expansum Species Aspergillaceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO27973 Simaba cuneata Species Simaroubaceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO28158 Polygala fruticosa Species Polygalaceae Eukaryota n.a. n.a. n.a. Database[HerDing]
NPO28197 Huperzia selago Species Lycopodiaceae Eukaryota n.a. n.a. n.a. Database[HerDing]
NPO28574 Oroxylum indicum Species Bignoniaceae Eukaryota n.a. n.a. n.a. Database[HerDing]
NPO28300 Sorbaria arborea Species Rosaceae Eukaryota n.a. n.a. n.a. Database[HerDing]
NPO28050 Thalictrum podocarpum Species Ranunculaceae Eukaryota n.a. n.a. n.a. Database[HerDing]
NPO28372 Corydalis pallida Species Papaveraceae Eukaryota n.a. n.a. n.a. Database[HerDing]
NPO28176 Russula lepida Species Russulaceae Eukaryota n.a. n.a. n.a. Database[TCMID]
NPO28050 Thalictrum podocarpum Species Ranunculaceae Eukaryota n.a. n.a. n.a. Database[TCMID]
NPO28197 Huperzia selago Species Lycopodiaceae Eukaryota n.a. n.a. n.a. Database[TCMID]
NPO28507 Hymenoxys grandiflora Species Asteraceae Eukaryota n.a. n.a. n.a. Database[TCMID]
NPO28574 Oroxylum indicum Species Bignoniaceae Eukaryota n.a. n.a. n.a. Database[TCMID]
NPO29042 Vincetoxicum atratum Species Apocynaceae Eukaryota n.a. n.a. n.a. Database[TCMID]
NPO28372 Corydalis pallida Species Papaveraceae Eukaryota n.a. n.a. n.a. Database[TCMID]
NPO28158 Polygala fruticosa Species Polygalaceae Eukaryota n.a. n.a. n.a. Database[TCMID]
NPO28300 Sorbaria arborea Species Rosaceae Eukaryota n.a. n.a. n.a. Database[TCMID]
NPO28574 Oroxylum indicum Species Bignoniaceae Eukaryota n.a. n.a. n.a. Database[TCM_Taiwan]
NPO28300 Sorbaria arborea Species Rosaceae Eukaryota n.a. n.a. n.a. Database[TCM_Taiwan]
NPO28197 Huperzia selago Species Lycopodiaceae Eukaryota n.a. n.a. n.a. Database[TCM_Taiwan]
NPO28372 Corydalis pallida Species Papaveraceae Eukaryota n.a. n.a. n.a. Database[TCM_Taiwan]
NPO29042 Vincetoxicum atratum Species Apocynaceae Eukaryota n.a. n.a. n.a. Database[TM-MC]
NPO28574 Oroxylum indicum Species Bignoniaceae Eukaryota n.a. n.a. n.a. Database[TM-MC]
NPO27938 Meliosma wightii Species Sabiaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO11786 Cylindropuntia leptocaulis Species Cactaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28228 Kielmeyera rubriflora Species Calophyllaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO29042 Vincetoxicum atratum Species Apocynaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28443 Larix lyallii Species Pinaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28300 Sorbaria arborea Species Rosaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28651 Othonna tagetes Species Asteraceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28333 Syzygium levinei Species Myrtaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO27850 Trichilia catigua Species Meliaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28009 Pellina semitubulosa n.a. n.a. n.a. n.a. n.a. n.a. Database[UNPD]
NPO27891 Lethariella sinensis Species Parmeliaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28593 Pteris pedata Species Pteridaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO27956 Eupatoriastrum nelsonii n.a. n.a. n.a. n.a. n.a. n.a. Database[UNPD]
NPO28050 Thalictrum podocarpum Species Ranunculaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28107 Penicillium expansum Species Aspergillaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO27973 Simaba cuneata Species Simaroubaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28176 Russula lepida Species Russulaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28404 Chasmanthera dependens Species Menispermaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28461 Crepis czerepanovii Species Asteraceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO29373 Trichoplusia ni Species Noctuidae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28479 Campanula hypopolia Species Campanulaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28574 Oroxylum indicum Species Bignoniaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28158 Polygala fruticosa Species Polygalaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28494 Hydroclathrus tenuis Species Scytosiphonaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28425 Senecio miser Species Asteraceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28214 Phyllosticta cirsii Species Phyllostictaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO27906 Philadelphus coronarius Species Hydrangeaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO25330 Maackia floribunda Species Fabaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28668 Agave cocui Species Asparagaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28611 Phragmatobia fuliginosa Species Erebidae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28525 Urginea riparia Species Hyacinthaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28197 Huperzia selago Species Lycopodiaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO27918 Pterocarpus macrocarpus Species Fabaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28316 Scandix pecten-veneris Species Apiaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO9245 Ventilago madraspatana Species Rhamnaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO27831 Phakellia flabellata Species Bubaridae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28071 Dendrobates auratus Species Dendrobatidae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28282 Turbina corymbosa Species Convolvulaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28507 Hymenoxys grandiflora Species Asteraceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO10135 Tripteris microcarpa Species Asteraceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28372 Corydalis pallida Species Papaveraceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28543 Alcyonium coralloides Species Alcyoniidae 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 NPC118478 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
0.8602 High Similarity NPC189126
0.7755 Intermediate Similarity NPC478667
0.6465 Remote Similarity NPC127153
0.5872 Remote Similarity NPC478666
0.5806 Remote Similarity NPC241657
0.5192 Remote Similarity NPC474410
0.5192 Remote Similarity NPC293658

Similar Clinical/Approved Drugs

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

●  The left chart: Distribution of similarity level between NPC118478 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