Natural Product: NPC192206

Natural Product IDNPC192206
Common Name
?
The InCHIKey will be temporarily assigned as the "Common Name" if no IUPAC name or alternative short name is available.
DQYACEDUQHWXQZ-YJLLQRRRSA-N
IUPAC Name n.a.
Synonyms
Synthetic Gene Cluster n.a.
ChEMBL Identifier n.a.
PubChem CID 101674001
Chemical Classification
  • CHEMONTID:0000000 [Organic compounds]
    • [CHEMONTID:0000012] Lipids and lipid-like molecules
      • [CHEMONTID:0000258] Steroids and steroid derivatives
        • [CHEMONTID:0001013] Steroidal glycosides
          • [CHEMONTID:0002364] Steroidal 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 DQYACEDUQHWXQZ-YJLLQRRRSA-N
Standard InCHI InChI=1S/C44H70O16/c1-19-8-13-44(54-17-19)20(2)30-28(60-44)15-26-24-7-6-22-14-23(9-11-42(22,4)25(24)10-12-43(26,30)5)56-41-38(59-40-36(52)34(50)31(47)21(3)55-40)37(33(49)29(16-45)57-41)58-39-35(51)32(48)27(46)18-53-39/h6,19-21,23-41,45-52H,7-18H2,1-5H3/t19-,20+,21+,23+,24-,25+,26+,27+,28+,29-,30+,31+,32+,33-,34-,35-,36-,37+,38-,39+,40+,41-,42+,43+,44-/m1/s1
SMILES C[C@@H]1CC[C@@]2([C@@H](C)[C@H]3[C@H](C[C@H]4[C@@H]5CC=C6C[C@H](CC[C@]6(C)[C@H]5CC[C@]34C)O[C@H]3[C@@H]([C@H]([C@@H]([C@@H](CO)O3)O)O[C@H]3[C@@H]([C@H]([C@H](CO3)O)O)O)O[C@H]3[C@@H]([C@@H]([C@H]([C@H](C)O3)O)O)O)O2)OC1

  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
NPO9062 Lilium longiflorum Thunb. Strain Liliaceae Eukaryota n.a. n.a. n.a. PMID[21524113]
NPO7703 Xanthorrhoea preissii Species Asphodelaceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO9062 Lilium longiflorum Thunb. Strain Liliaceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO8173 Lupinus multiflorus Species Fabaceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO6023 Neurolaena venturana Species Asteraceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO9062 Lilium longiflorum Thunb. Strain Liliaceae Eukaryota n.a. n.a. n.a. Database[HerDing]
NPO9062 Lilium longiflorum Thunb. Strain Liliaceae Eukaryota n.a. n.a. n.a. Database[TCMID]
NPO6023 Neurolaena venturana Species Asteraceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO7703 Xanthorrhoea preissii Species Asphodelaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO2383 Mimosa acacioides Species Fabaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO5425 Polygala nyikensis Species Polygalaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO10340 Crepis rubra Species Asteraceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO9062 Lilium longiflorum Thunb. Strain Liliaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO8173 Lupinus multiflorus 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

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 NPC192206 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
0.9255 High Similarity NPC602423
0.9062 High Similarity NPC300557
0.8431 Intermediate Similarity NPC309278
0.8252 Intermediate Similarity NPC475333
0.8252 Intermediate Similarity NPC224098
0.8252 Intermediate Similarity NPC208383
0.7909 Intermediate Similarity NPC480556
0.7706 Intermediate Similarity NPC31896
0.7624 Intermediate Similarity NPC113044
0.7624 Intermediate Similarity NPC283829
0.7624 Intermediate Similarity NPC161676
0.7573 Intermediate Similarity NPC470433
0.7573 Intermediate Similarity NPC46190
0.7573 Intermediate Similarity NPC171073
0.7549 Intermediate Similarity NPC475351
0.7524 Intermediate Similarity NPC480555
0.7524 Intermediate Similarity NPC150372
0.7477 Intermediate Similarity NPC232054
0.7455 Intermediate Similarity NPC477811
0.7451 Intermediate Similarity NPC14704
0.7431 Intermediate Similarity NPC218571
0.7431 Intermediate Similarity NPC487615
0.7426 Intermediate Similarity NPC470432
0.7426 Intermediate Similarity NPC230507
0.7304 Intermediate Similarity NPC477808
0.7273 Intermediate Similarity NPC480554
0.7241 Intermediate Similarity NPC210569
0.7216 Intermediate Similarity NPC181845
0.7156 Intermediate Similarity NPC269297
0.7156 Intermediate Similarity NPC222202
0.7143 Intermediate Similarity NPC480553
0.7027 Intermediate Similarity NPC194207
0.7027 Intermediate Similarity NPC22779
0.7009 Intermediate Similarity NPC248746
0.6972 Remote Similarity NPC97700
0.6972 Remote Similarity NPC30856
0.6972 Remote Similarity NPC102016
0.6972 Remote Similarity NPC95051
0.6949 Remote Similarity NPC15918
0.6944 Remote Similarity NPC6806
0.6917 Remote Similarity NPC305771
0.6917 Remote Similarity NPC94072
0.6917 Remote Similarity NPC169816
0.6863 Remote Similarity NPC206003
0.6863 Remote Similarity NPC473610
0.6822 Remote Similarity NPC473601
0.6789 Remote Similarity NPC51172
0.6789 Remote Similarity NPC49032
0.678 Remote Similarity NPC224314
0.6697 Remote Similarity NPC477809
0.6667 Remote Similarity NPC294129
0.6639 Remote Similarity NPC263359
0.6636 Remote Similarity NPC42171
0.6607 Remote Similarity NPC475319
0.6579 Remote Similarity NPC232037
0.6552 Remote Similarity NPC132080
0.646 Remote Similarity NPC115165
0.6371 Remote Similarity NPC244431
0.6348 Remote Similarity NPC116756
0.6325 Remote Similarity NPC476112
0.6325 Remote Similarity NPC307534
0.6283 Remote Similarity NPC150057
0.6283 Remote Similarity NPC147753
0.6239 Remote Similarity NPC141433
0.6239 Remote Similarity NPC249265
0.623 Remote Similarity NPC477807
0.6207 Remote Similarity NPC32361
0.6207 Remote Similarity NPC473518
0.6207 Remote Similarity NPC13193
0.6182 Remote Similarity NPC305423
0.6147 Remote Similarity NPC125324
0.614 Remote Similarity NPC151134
0.6134 Remote Similarity NPC233433
0.6129 Remote Similarity NPC79900
0.605 Remote Similarity NPC83137
0.6 Remote Similarity NPC128572
0.5985 Remote Similarity NPC329807
0.5984 Remote Similarity NPC470866
0.5981 Remote Similarity NPC250393
0.5966 Remote Similarity NPC108072
0.5948 Remote Similarity NPC184617
0.5948 Remote Similarity NPC475247
0.5946 Remote Similarity NPC70204
0.5913 Remote Similarity NPC471464
0.5902 Remote Similarity NPC167183
0.5888 Remote Similarity NPC477451
0.5882 Remote Similarity NPC232611
0.5872 Remote Similarity NPC19400
0.5862 Remote Similarity NPC475182
0.5856 Remote Similarity NPC6295
0.5852 Remote Similarity NPC481189
0.5847 Remote Similarity NPC475550
0.5812 Remote Similarity NPC73243
0.5812 Remote Similarity NPC244086
0.5812 Remote Similarity NPC84956
0.5809 Remote Similarity NPC329727
0.5806 Remote Similarity NPC94086
0.5806 Remote Similarity NPC473817
0.5794 Remote Similarity NPC220836
0.5789 Remote Similarity NPC98696
0.5789 Remote Similarity NPC40440
0.5776 Remote Similarity NPC124677
0.5727 Remote Similarity NPC306131
0.5727 Remote Similarity NPC200802
0.5714 Remote Similarity NPC247037
0.5714 Remote Similarity NPC473505
0.5714 Remote Similarity NPC485595
0.5667 Remote Similarity NPC475625
0.5662 Remote Similarity NPC329820
0.566 Remote Similarity NPC485594
0.5657 Remote Similarity NPC100451
0.5652 Remote Similarity NPC42482
0.5641 Remote Similarity NPC48886
0.5641 Remote Similarity NPC94881
0.5614 Remote Similarity NPC160426
0.5581 Remote Similarity NPC32707
0.5574 Remote Similarity NPC470864
0.5556 Remote Similarity NPC297348
0.5556 Remote Similarity NPC249204
0.5556 Remote Similarity NPC48339
0.5556 Remote Similarity NPC177834
0.5556 Remote Similarity NPC141769
0.5556 Remote Similarity NPC477547
0.5528 Remote Similarity NPC23808
0.5528 Remote Similarity NPC87998
0.5512 Remote Similarity NPC248202
0.5508 Remote Similarity NPC249553
0.5508 Remote Similarity NPC182900
0.5484 Remote Similarity NPC256983
0.547 Remote Similarity NPC469347
0.5446 Remote Similarity NPC211354
0.5446 Remote Similarity NPC107188
0.5439 Remote Similarity NPC94272
0.5413 Remote Similarity NPC325828
0.5407 Remote Similarity NPC330026
0.5398 Remote Similarity NPC264101
0.5364 Remote Similarity NPC234352
0.5344 Remote Similarity NPC208832
0.5317 Remote Similarity NPC308140
0.53 Remote Similarity NPC235126
0.53 Remote Similarity NPC242419
0.5268 Remote Similarity NPC222731
0.5259 Remote Similarity NPC195297
0.5259 Remote Similarity NPC475670
0.5242 Remote Similarity NPC197003
0.5217 Remote Similarity NPC107962
0.5169 Remote Similarity NPC112274
0.5167 Remote Similarity NPC122819
0.5164 Remote Similarity NPC98018
0.5164 Remote Similarity NPC284104
0.5164 Remote Similarity NPC103616
0.5159 Remote Similarity NPC470862
0.5126 Remote Similarity NPC486388
0.51 Remote Similarity NPC207617
0.51 Remote Similarity NPC607440
0.5094 Remote Similarity NPC144790
0.5094 Remote Similarity NPC149400
0.5094 Remote Similarity NPC88962
0.5083 Remote Similarity NPC475643
0.5081 Remote Similarity NPC486386
0.5043 Remote Similarity NPC15249
0.5043 Remote Similarity NPC306991
0.5043 Remote Similarity NPC25455

Similar Clinical/Approved Drugs

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

●  The left chart: Distribution of similarity level between NPC192206 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
0.6283 Remote Similarity NPD8450 Suspended
0.5413 Remote Similarity NPD8171 Phase 2
0.5167 Remote Similarity NPD8449 Approved

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