Natural Product: NPC225791

Natural Product IDNPC225791
Common Name
?
The InCHIKey will be temporarily assigned as the "Common Name" if no IUPAC name or alternative short name is available.
Sasanquasaponin I
IUPAC Name (2S,3S,4S,5R,6R)-6-[[(3S,4aR,6aR,6bS,7R,8S,8aR,9S,12aS,14aR,14bR)-9-[(Z)-hex-2-enoyl]oxy-7,8-dihydroxy-8a-(hydroxymethyl)-4,4,6a,6b,11,11,14b-heptamethyl-1,2,3,4a,5,6,7,8,9,10,12,12a,14,14a-tetradecahydropicen-3-yl]oxy]-4-[(2S,3R,4S,5R,6R)-4,5-dihydroxy-6-(hydroxymethyl)-3-[(2S,3R,4R,5R,6S)-3,4,5-trihydroxy-6-methyloxan-2-yl]oxyoxan-2-yl]oxy-3-hydroxy-5-[(2S,3R,4S,5S,6R)-3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]oxyoxane-2-carboxylic acid
Synonyms Sasanquasaponin I
Synthetic Gene Cluster n.a.
ChEMBL Identifier CHEMBL2087225
PubChem CID 49871628
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 IUCFFRZHJQBJND-QBFBLQJXSA-N
Standard InCHI InChI=1S/C60H96O26/c1-10-11-12-13-34(64)81-33-21-55(3,4)20-27-26-14-15-31-57(7)18-17-32(56(5,6)30(57)16-19-58(31,8)59(26,9)48(74)49(75)60(27,33)24-63)82-54-47(86-52-42(72)39(69)36(66)28(22-61)79-52)44(43(73)45(84-54)50(76)77)83-53-46(40(70)37(67)29(23-62)80-53)85-51-41(71)38(68)35(65)25(2)78-51/h12-14,25,27-33,35-49,51-54,61-63,65-75H,10-11,15-24H2,1-9H3,(H,76,77)/b13-12-/t25-,27-,28+,29+,30-,31+,32-,33-,35-,36+,37-,38+,39-,40-,41+,42+,43-,44-,45-,46+,47+,48-,49+,51-,52-,53-,54+,57-,58+,59-,60+/m0/s1
SMILES CCC/C=CC(=O)O[C@H]1CC(C)(C)C[C@H]2C3=CC[C@@H]4[C@@]5(C)CC[C@@H](C(C)(C)[C@@H]5CC[C@@]4(C)[C@]3(C)[C@H]([C@H]([C@@]12CO)O)O)O[C@H]1[C@@H]([C@H]([C@@H]([C@@H](C(=O)O)O1)O)O[C@H]1[C@@H]([C@H]([C@H]([C@@H](CO)O1)O)O)O[C@H]1[C@@H]([C@@H]([C@H]([C@H](C)O1)O)O)O)O[C@H]1[C@@H]([C@H]([C@@H]([C@@H](CO)O1)O)O)O

  Calculated Properties

Physi-Chem Properties

Molecular Weight:   1232.62 Volume:   1187.308
?
Van der Waals volume.
Dense:   1.038 LogP:   1.151
?
The logarithm of the n-octanol/water distribution coefficients.
logD7.4:   2.183
?
The logarithm of the n-octanol/water distribution coefficient at pH=7.4.
LogS:   -3.702
?
The logarithm of aqueous solubility value.
Rotatable Bonds:   17.0 Rigid Bonds:   53.0
TPSA:   420.66
?
Topological Polar Surface Area.
H-Bond Acceptor:   26.0
H-Bond Donor:   15.0 Rings:   9.0
Heavy Atoms:   26.0

MedChem Properties

QED Drug-Likeness Score:   0.036 GASA:   1.0
?
GASA represents the probability of being difficult to synthesize, ranging from 0 to 1.
Synthetic Accessibility Score:   7.328 Fsp3:   0.9
MCE-18:   202.632
?
MCE-18 stands for medicinal chemistry evolution.MCE-18≥45 is considered a suitable value.
Lipinski Rule-of-5:   Accepted
Pfizer Rule:   Rejected GSK Rule:   Accepted
Golden Triangle Rule:   Accepted BMS Rule:   1
Chelating Alert:   0 PAINS Alert:   0
Colloidal aggregators:   0.724 Fluc inhibitor:   0.002
?
The fluc inhibitor value is the probability of being fLuc inhibitors, within the range of 0 to 1.
Blue fluorescence:   0.005
?
The blue fluorescence value is the probability of being blue fluorescence, within the range of 0 to 1
Green fluorescence:   0.001
?
The green fluorescence value is the probability of being green fluorescence, within the range of 0 to 1
Reactive compounds:   0.39 Promiscuous compounds:   0.257

ADMET Properties (ADMETlab3.0)

ADMET: Absorption

Caco-2 Permeability:   -6.326 MDCK Permeability:   -5.148
Pgp-inhibitor:   0.0 Pgp-substrate:   0.967
PAMPA:   1.0
?
The experimental data for Peff was logarithmically transformed (logPeff). Molecules with log Peff values below 2.0 were classified as low-permeability (Category 0), while those with log Peff values exceeding 2.5 were classified as high-permeability (Category 1).
Human Intestinal Absorption (HIA):   0.996
20% Bioavailability (F20%):   0.818 30% Bioavailability (F30%):   0.975
50% Bioavailability (F50%):   1.0

ADMET: Distribution

Blood-Brain-Barrier Penetration (BBB):   0.0 MRP1:   0.559
Plasma Protein Binding (PPB):   63.25% Volume Distribution (VD):   -0.401
Fu: 22.33%
?
The fraction unbound in plasms.
OATP1B1 inhibitor:   0.999
OATP1B3 inhibitor:   0.515 BCRP inhibitor:   0.0
BSEP inhibitor:   0.0

ADMET: Metabolism

CYP1A2-inhibitor:   0.0 CYP1A2-substrate:   0.0
CYP2C19-inhibitor:   0.0 CYP2C19-substrate:   0.0
CYP2C9-inhibitor:   0.0 CYP2C9-substrate:   0.0
CYP2D6-inhibitor:   0.0 CYP2D6-substrate:   0.0
CYP3A4-inhibitor:   0.0 CYP3A4-substrate:   0.0
CYP2B6-substrate:   0.0 CYP2C8-inhibitor:   0.943
HLM stability:   0.001
?
Human liver microsomal (HLM) stability. Category 0: stable+ (HLM > 30 min); Category 1: unstable- (HLM ≤ 30 min). The output value is the probability of human liver microsomal instability, where a value closer to 1 indicates a higher likelihood of instability.

ADMET: Excretion

Clearance (CL):  -0.57 Half-life (T1/2):  3.96

ADMET: Toxicity

hERG Blockers:  0.001 hERG Blockers (10um):  0.002
Human Hepatotoxicity (H-HT):  0.585 Drug-induced Liver Injury (DILI):  0.428
AMES Toxicity:  0.864 Rat Oral Acute Toxicity:  0.0
Maximum Recommended Daily Dose:  0.0 Skin Sensitization:  1.0
Carcinogencity:  0.001 Eye Corrosion:  0.0
Eye Irritation:  0.0 Respiratory Toxicity:  0.001
Drug-induced Neurotoxicity:  0.0 Ototoxicity:  1.0
Hematotoxicity:  0.033 Drug-induced Nephrotoxicity:  0.999
Genotoxicity:  0.003 RPMI-8226 Immunitoxicity:  0.325
A549 Cytotoxicity:  0.804 Hek293 Cytotoxicity:  0.083
BCF:   0.417
?
Bioconcentration factors are used for considering secondary poisoning potential and assessing risks to human health via the food chain. The unit is -log10[(mg/L)/(1000*MW)].
IGC50:   3.372
?
48 hour Tetrahymena pyriformis IGC50. The unit of IGC50 is -log10[(mg/L)/(1000*MW)].
LC50DM:   5.121
?
48 hour Daphnia magna LC50. The unit of LC50DM is -log10[(mg/L)/(1000*MW)].
LC50FM:   3.882
?
96 hour fathead minnow LC50. The unit of LC50FM is -log10[(mg/L)/(1000*MW)].

  Species Source

Organism ID Organism Name Taxonomy Level Family SuperKingdom Isolation Part Collection Location Collection Time Reference
NPO23380 Camellia japonica Species Theaceae Eukaryota n.a. leaf n.a. PMID[16926516]
NPO23380 Camellia japonica Species Theaceae Eukaryota flower buds n.a. n.a. PMID[22834923]
NPO23380 Camellia japonica Species Theaceae Eukaryota Roots n.a. n.a. PMID[30395460]
NPO23380 Camellia japonica Species Theaceae Eukaryota n.a. n.a. n.a. PMID[32569471]
NPO23380 Camellia japonica Species Theaceae Eukaryota n.a. n.a. n.a. PMID[39065796]
NPO23380 Camellia japonica Species Theaceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO23380 Camellia japonica Species Theaceae Eukaryota n.a. n.a. n.a. Database[HerDing]
NPO23380 Camellia japonica Species Theaceae Eukaryota n.a. n.a. n.a. Database[TCMID]
NPO23380 Camellia japonica Species Theaceae Eukaryota n.a. n.a. n.a. Database[TCM_Taiwan]
NPO23380 Camellia japonica Species Theaceae 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
NPT20529 Non-molecular NON-PROTEIN TARGET n.a. Activity = 16.4 % PMID[22834923]
NPT20529 Non-molecular NON-PROTEIN TARGET n.a. Activity = 44.8 % PMID[22834923]
NPT20529 Non-molecular NON-PROTEIN TARGET n.a. Activity = 34.9 % PMID[22834923]
NPT20529 Non-molecular NON-PROTEIN TARGET n.a. Activity = 71.5 % PMID[22834923]

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 NPC225791 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
0.8584 High Similarity NPC277212
0.8584 High Similarity NPC30279
0.8559 High Similarity NPC484063
0.8559 High Similarity NPC484064
0.7647 Intermediate Similarity NPC46823
0.75 Intermediate Similarity NPC473918
0.7339 Intermediate Similarity NPC484059
0.7339 Intermediate Similarity NPC484060
0.7295 Intermediate Similarity NPC71391
0.7241 Intermediate Similarity NPC477075
0.7236 Intermediate Similarity NPC484061
0.7236 Intermediate Similarity NPC484062
0.6587 Remote Similarity NPC264566
0.6562 Remote Similarity NPC178264
0.6557 Remote Similarity NPC329976
0.65 Remote Similarity NPC302887
0.6484 Remote Similarity NPC192765
0.6475 Remote Similarity NPC160452
0.6423 Remote Similarity NPC609281
0.6371 Remote Similarity NPC480939
0.6341 Remote Similarity NPC477078
0.6325 Remote Similarity NPC603026
0.626 Remote Similarity NPC265841
0.626 Remote Similarity NPC477076
0.624 Remote Similarity NPC605294
0.621 Remote Similarity NPC477077
0.6154 Remote Similarity NPC47995
0.609 Remote Similarity NPC312650
0.6032 Remote Similarity NPC469947
0.6032 Remote Similarity NPC480948
0.6015 Remote Similarity NPC488308
0.6 Remote Similarity NPC23275
0.5985 Remote Similarity NPC181066
0.5985 Remote Similarity NPC301639
0.5985 Remote Similarity NPC478065
0.5865 Remote Similarity NPC329923
0.5865 Remote Similarity NPC475281
0.5854 Remote Similarity NPC44716
0.5806 Remote Similarity NPC475591
0.5806 Remote Similarity NPC236870
0.5755 Remote Similarity NPC488309
0.5738 Remote Similarity NPC22956
0.5736 Remote Similarity NPC606553
0.5735 Remote Similarity NPC271610
0.5714 Remote Similarity NPC283417
0.5714 Remote Similarity NPC200049
0.5693 Remote Similarity NPC476779
0.5692 Remote Similarity NPC25998
0.5669 Remote Similarity NPC114692
0.5649 Remote Similarity NPC313110
0.5635 Remote Similarity NPC131469
0.5625 Remote Similarity NPC477079
0.562 Remote Similarity NPC25605
0.562 Remote Similarity NPC262796
0.562 Remote Similarity NPC45346
0.5612 Remote Similarity NPC302543
0.5597 Remote Similarity NPC602995
0.5591 Remote Similarity NPC95437
0.554 Remote Similarity NPC475377
0.554 Remote Similarity NPC110700
0.554 Remote Similarity NPC329657
0.554 Remote Similarity NPC476074
0.5538 Remote Similarity NPC187290
0.553 Remote Similarity NPC609119
0.553 Remote Similarity NPC610461
0.552 Remote Similarity NPC605226
0.5512 Remote Similarity NPC470913
0.5468 Remote Similarity NPC484833
0.5462 Remote Similarity NPC187618
0.5455 Remote Similarity NPC470475
0.5455 Remote Similarity NPC478152
0.5455 Remote Similarity NPC478151
0.5441 Remote Similarity NPC470912
0.5426 Remote Similarity NPC470914
0.5401 Remote Similarity NPC329828
0.5385 Remote Similarity NPC606145
0.5372 Remote Similarity NPC164194
0.5362 Remote Similarity NPC21691
0.5344 Remote Similarity NPC120116
0.5342 Remote Similarity NPC150893
0.5333 Remote Similarity NPC477465
0.5324 Remote Similarity NPC476780
0.5308 Remote Similarity NPC236657
0.5299 Remote Similarity NPC607904
0.5299 Remote Similarity NPC610204
0.5294 Remote Similarity NPC478150
0.526 Remote Similarity NPC477474
0.5234 Remote Similarity NPC251768
0.5231 Remote Similarity NPC64715
0.5211 Remote Similarity NPC476777
0.5208 Remote Similarity NPC329960
0.5197 Remote Similarity NPC478066
0.5192 Remote Similarity NPC477473
0.5182 Remote Similarity NPC609305
0.5172 Remote Similarity NPC279915
0.5161 Remote Similarity NPC12288
0.5159 Remote Similarity NPC472949
0.5156 Remote Similarity NPC114304
0.5149 Remote Similarity NPC480936
0.5143 Remote Similarity NPC134914
0.5113 Remote Similarity NPC470477
0.5109 Remote Similarity NPC284449
0.5106 Remote Similarity NPC476774
0.5097 Remote Similarity NPC477470
0.5097 Remote Similarity NPC477472
0.5079 Remote Similarity NPC127056
0.5078 Remote Similarity NPC192791
0.5078 Remote Similarity NPC112352
0.5077 Remote Similarity NPC118440
0.5076 Remote Similarity NPC78034
0.5076 Remote Similarity NPC114484
0.5074 Remote Similarity NPC268184
0.5072 Remote Similarity NPC470476
0.507 Remote Similarity NPC258617
0.507 Remote Similarity NPC329993
0.5069 Remote Similarity NPC173435
0.5069 Remote Similarity NPC172374
0.5069 Remote Similarity NPC478064
0.5039 Remote Similarity NPC488561
0.5038 Remote Similarity NPC301449
0.5038 Remote Similarity NPC470478
0.5038 Remote Similarity NPC257468
0.5038 Remote Similarity NPC601290
0.5036 Remote Similarity NPC151543
0.5035 Remote Similarity NPC470518
0.5034 Remote Similarity NPC476775
0.5032 Remote Similarity NPC477467

Similar Clinical/Approved Drugs

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

●  The left chart: Distribution of similarity level between NPC225791 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