Natural Product: NPC72638

Natural Product IDNPC72638
Common Name
?
The InCHIKey will be temporarily assigned as the "Common Name" if no IUPAC name or alternative short name is available.
Aleuritolic Acid
IUPAC Name (4aS,6aR,6bR,8aR,10S,12aR,14aS,14bS)-10-hydroxy-2,2,6b,9,9,12a,14a-heptamethyl-1,3,4,5,6a,7,8,8a,10,11,12,13,14,14b-tetradecahydropicene-4a-carboxylic acid
Synonyms Aleuritolic Acid; Maprounic Acid
Synthetic Gene Cluster n.a.
ChEMBL Identifier CHEMBL258249
PubChem CID 161527
Chemical Classification
  • CHEMONTID:0000000 [Organic compounds]
    • [CHEMONTID:0000012] Lipids and lipid-like molecules
      • [CHEMONTID:0000259] Prenol lipids
        • [CHEMONTID:0001552] Sesterterpenoids
          • [CHEMONTID:0002883] Scalarane sesterterpenoids

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 BHHPRAFMEFGOLZ-QVUWEPBXSA-N
Standard InCHI InChI=1S/C30H48O3/c1-25(2)16-17-30(24(32)33)15-10-21-28(6)12-8-19-26(3,4)23(31)11-14-27(19,5)20(28)9-13-29(21,7)22(30)18-25/h10,19-20,22-23,31H,8-9,11-18H2,1-7H3,(H,32,33)/t19-,20+,22-,23-,27-,28+,29+,30+/m0/s1
SMILES O[C@H]1CC[C@]2([C@H](C1(C)C)CC[C@@]1([C@@H]2CC[C@@]2(C1=CC[C@@]1([C@H]2CC(C)(C)CC1)C(=O)O)C)C)C

  Calculated Properties

Physi-Chem Properties

Molecular Weight:   456.36 Volume:   505.751
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Van der Waals volume.
Dense:   0.902 LogP:   4.074
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The logarithm of the n-octanol/water distribution coefficients.
logD7.4:   3.483
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The logarithm of the n-octanol/water distribution coefficient at pH=7.4.
LogS:   -4.196
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The logarithm of aqueous solubility value.
Rotatable Bonds:   1.0 Rigid Bonds:   27.0
TPSA:   57.53
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Topological Polar Surface Area.
H-Bond Acceptor:   3.0
H-Bond Donor:   2.0 Rings:   5.0
Heavy Atoms:   3.0

MedChem Properties

QED Drug-Likeness Score:   0.409 GASA:   1.0
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GASA represents the probability of being difficult to synthesize, ranging from 0 to 1.
Synthetic Accessibility Score:   4.841 Fsp3:   0.9
MCE-18:   105.368
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MCE-18 stands for medicinal chemistry evolution.MCE-18≥45 is considered a suitable value.
Lipinski Rule-of-5:   Rejected
Pfizer Rule:   Accepted GSK Rule:   Accepted
Golden Triangle Rule:   Rejected BMS Rule:   0
Chelating Alert:   0 PAINS Alert:   0
Colloidal aggregators:   0.784 Fluc inhibitor:   0.0
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The fluc inhibitor value is the probability of being fLuc inhibitors, within the range of 0 to 1.
Blue fluorescence:   0.003
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The blue fluorescence value is the probability of being blue fluorescence, within the range of 0 to 1
Green fluorescence:   0.0
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The green fluorescence value is the probability of being green fluorescence, within the range of 0 to 1
Reactive compounds:   0.488 Promiscuous compounds:   0.046

ADMET Properties (ADMETlab3.0)

ADMET: Absorption

Caco-2 Permeability:   -5.413 MDCK Permeability:   -4.975
Pgp-inhibitor:   0.038 Pgp-substrate:   0.0
PAMPA:   0.962
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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):   0.0
20% Bioavailability (F20%):   0.103 30% Bioavailability (F30%):   0.012
50% Bioavailability (F50%):   0.984

ADMET: Distribution

Blood-Brain-Barrier Penetration (BBB):   0.254 MRP1:   0.736
Plasma Protein Binding (PPB):   90.277% Volume Distribution (VD):   -0.211
Fu: 7.277%
?
The fraction unbound in plasms.
OATP1B1 inhibitor:   1.0
OATP1B3 inhibitor:   0.998 BCRP inhibitor:   0.583
BSEP inhibitor:   0.99

ADMET: Metabolism

CYP1A2-inhibitor:   0.0 CYP1A2-substrate:   0.002
CYP2C19-inhibitor:   0.302 CYP2C19-substrate:   0.001
CYP2C9-inhibitor:   0.0 CYP2C9-substrate:   0.0
CYP2D6-inhibitor:   0.0 CYP2D6-substrate:   0.0
CYP3A4-inhibitor:   1.0 CYP3A4-substrate:   0.986
CYP2B6-substrate:   0.0 CYP2C8-inhibitor:   0.581
HLM stability:   0.489
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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):  2.606 Half-life (T1/2):  1.373

ADMET: Toxicity

hERG Blockers:  0.069 hERG Blockers (10um):  0.1
Human Hepatotoxicity (H-HT):  0.627 Drug-induced Liver Injury (DILI):  0.381
AMES Toxicity:  0.148 Rat Oral Acute Toxicity:  0.23
Maximum Recommended Daily Dose:  0.552 Skin Sensitization:  0.792
Carcinogencity:  0.813 Eye Corrosion:  0.023
Eye Irritation:  0.707 Respiratory Toxicity:  0.882
Drug-induced Neurotoxicity:  0.026 Ototoxicity:  0.692
Hematotoxicity:  0.448 Drug-induced Nephrotoxicity:  0.71
Genotoxicity:  0.291 RPMI-8226 Immunitoxicity:  0.035
A549 Cytotoxicity:  0.047 Hek293 Cytotoxicity:  0.2
BCF:   1.881
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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:   4.367
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48 hour Tetrahymena pyriformis IGC50. The unit of IGC50 is -log10[(mg/L)/(1000*MW)].
LC50DM:   5.636
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48 hour Daphnia magna LC50. The unit of LC50DM is -log10[(mg/L)/(1000*MW)].
LC50FM:   5.164
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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
NPO27192 Maprounea africana Species Euphorbiaceae Eukaryota n.a. n.a. n.a. PMID[10075783]
NPO6895 Elateriospermum tapos Species Euphorbiaceae Eukaryota leaves and stem Nakorn Si Thammarat Province, Thailand 2004-MAR PMID[18179177]
NPO41069 Sapium discolor Species Euphorbiaceae Eukaryota n.a. n.a. n.a. PMID[30350995]
NPO27192 Maprounea africana Species Euphorbiaceae Eukaryota n.a. n.a. n.a. PMID[6631436]
NPO27192 Maprounea africana Species Euphorbiaceae Eukaryota n.a. root n.a. PMID[7515410]
NPO27192 Maprounea africana Species Euphorbiaceae Eukaryota n.a. n.a. n.a. PMID[7515410]
NPO27192 Maprounea africana Species Euphorbiaceae Eukaryota Roots n.a. n.a. PMID[7561895]
NPO27192 Maprounea africana Species Euphorbiaceae Eukaryota n.a. n.a. n.a. Database[COCONUT]
NPO6895 Elateriospermum tapos Species Euphorbiaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO27192 Maprounea africana Species Euphorbiaceae 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
NPT459 Individual protein Human immunodeficiency virus type 1 reverse transcriptase Human immunodeficiency virus 1 IC50 = 24900.0 nM PMID[7515410]
NPT861 Individual protein Isocitrate dehydrogenase [NADP] cytoplasmic Homo sapiens Activity = 113.3 % PMID[26508549]
NPT861 Individual protein Isocitrate dehydrogenase [NADP] cytoplasmic Homo sapiens Activity = 102.6 % PMID[26508549]
NPT22879 Single protein DNA ligase 1 Homo sapiens IC50 = 95.0 ug.mL-1 PMID[31499361]

In vitro activity

Target ID Target Type Target Name Target Organism Activity Type Activity Relation Value Unit Reference
NPT34 Cell line BV-2 Mus musculus IC50 > 50000.0 nM PMID[30350995]
NPT2 Others Unspecified n.a. IC50 = 78700.0 nM PMID[7515410]

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 NPC72638 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
0.75 Intermediate Similarity NPC49320
0.7333 Intermediate Similarity NPC475708
0.7077 Intermediate Similarity NPC475876
0.6984 Remote Similarity NPC485428
0.6613 Remote Similarity NPC485430
0.6508 Remote Similarity NPC477057
0.6462 Remote Similarity NPC30522
0.6232 Remote Similarity NPC485422
0.5735 Remote Similarity NPC480946
0.5735 Remote Similarity NPC130577
0.5735 Remote Similarity NPC142415
0.5735 Remote Similarity NPC102683
0.5735 Remote Similarity NPC198664
0.5667 Remote Similarity NPC138374
0.5667 Remote Similarity NPC34700
0.5571 Remote Similarity NPC485429
0.5507 Remote Similarity NPC18064
0.5362 Remote Similarity NPC17733
0.5362 Remote Similarity NPC470629
0.5244 Remote Similarity NPC325032
0.5244 Remote Similarity NPC477483
0.5217 Remote Similarity NPC161751
0.5217 Remote Similarity NPC474972
0.5217 Remote Similarity NPC600543
0.5211 Remote Similarity NPC182797
0.5211 Remote Similarity NPC52169
0.5211 Remote Similarity NPC488562
0.5135 Remote Similarity NPC481311
0.5122 Remote Similarity NPC327962
0.507 Remote Similarity NPC187722
0.507 Remote Similarity NPC274330
0.5068 Remote Similarity NPC228784
0.5068 Remote Similarity NPC324341
0.5068 Remote Similarity NPC29765
0.5068 Remote Similarity NPC601810

Similar Clinical/Approved Drugs

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

●  The left chart: Distribution of similarity level between NPC72638 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