Structure

Physi-Chem Properties

Molecular Weight:  423.28
Volume:  468.791
LogP:  3.853
LogD:  3.505
LogS:  -3.633
# Rotatable Bonds:  4
TPSA:  69.56
# H-Bond Aceptor:  4
# H-Bond Donor:  3
# Rings:  3
# Heavy Atoms:  4

MedChem Properties

QED Drug-Likeness Score:  0.587
Synthetic Accessibility Score:  5.685
Fsp3:  0.519
Lipinski Rule-of-5:  Accepted
Pfizer Rule:  Rejected
GSK Rule:  Rejected
BMS Rule:  0
Golden Triangle Rule:  Accepted
Chelating Alert:  0
PAINS Alert:  0

ADMET Properties (ADMETlab2.0)

ADMET: Absorption

Caco-2 Permeability:  -4.678
MDCK Permeability:  9.114322892855853e-06
Pgp-inhibitor:  0.0
Pgp-substrate:  0.798
Human Intestinal Absorption (HIA):  0.566
20% Bioavailability (F20%):  0.058
30% Bioavailability (F30%):  0.007

ADMET: Distribution

Blood-Brain-Barrier Penetration (BBB):  0.621
Plasma Protein Binding (PPB):  98.96926879882812%
Volume Distribution (VD):  1.103
Pgp-substrate:  2.697298049926758%

ADMET: Metabolism

CYP1A2-inhibitor:  0.111
CYP1A2-substrate:  0.227
CYP2C19-inhibitor:  0.252
CYP2C19-substrate:  0.473
CYP2C9-inhibitor:  0.466
CYP2C9-substrate:  0.442
CYP2D6-inhibitor:  0.144
CYP2D6-substrate:  0.516
CYP3A4-inhibitor:  0.827
CYP3A4-substrate:  0.242

ADMET: Excretion

Clearance (CL):  0.876
Half-life (T1/2):  0.748

ADMET: Toxicity

hERG Blockers:  0.294
Human Hepatotoxicity (H-HT):  0.908
Drug-inuced Liver Injury (DILI):  0.051
AMES Toxicity:  0.13
Rat Oral Acute Toxicity:  0.181
Maximum Recommended Daily Dose:  0.97
Skin Sensitization:  0.847
Carcinogencity:  0.029
Eye Corrosion:  0.003
Eye Irritation:  0.011
Respiratory Toxicity:  0.898

Download Data

Data Type Select
General Info & Identifiers & Properties  
Structure MOL file  
Source Organisms  
Biological Activities  
Similar NPs/Drugs  

  Natural Product: NPC148507

Natural Product ID:  NPC148507
Common Name*:   HDTWJKXKJRROSS-NNTXTVRGSA-N
IUPAC Name:   n.a.
Synonyms:  
Standard InCHIKey:  HDTWJKXKJRROSS-NNTXTVRGSA-N
Standard InCHI:  InChI=1S/C15H18O2/c1-4-5-6-14(16)12-8-15-13(7-10(12)2)11(3)9-17-15/h4-5,7-9,14,16H,6H2,1-3H3/b5-4+/t14-/m0/s1
SMILES:  C/C=C/C[C@@H](c1cc2c(cc1C)c(C)co2)O
Synthetic Gene Cluster:   n.a.
ChEMBL Identifier:   n.a.
PubChem CID:   n.a.
Chemical Classification**:  
  • CHEMONTID:0000000 [Organic compounds]
    • [CHEMONTID:0000002] Organoheterocyclic compounds
      • [CHEMONTID:0000301] Benzofurans

*Note: the InCHIKey will be temporarily assigned as the "Common Name" if no IUPAC name or alternative short name is available.
**Note: the Chemical Classification was calculated by NPClassifier Version 1.5. Reference: PMID:34662515.

  Species Source

Organism ID Organism Name Taxonomy Level Family SuperKingdom Isolation Part Collection Location Collection Time Reference
NPO29103 Spongia matamata Species Spongiidae Eukaryota n.a. n.a. n.a. PMID[10075761]
NPO28939 Piptanthus nepalensis Species Fabaceae Eukaryota n.a. n.a. n.a. Database[HerDing]
NPO28939 Piptanthus nepalensis Species Fabaceae Eukaryota n.a. n.a. n.a. Database[TCMID]
NPO28939 Piptanthus nepalensis Species Fabaceae Eukaryota n.a. n.a. n.a. Database[TCM_Taiwan]
NPO28829 Pelvetia wrightii Species Fucaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28974 Smilax ornata Species Staphylinidae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO29103 Spongia matamata Species Spongiidae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO26540 Echinopsis spachiana Species Cactaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO29402 Launaea arborescens Species Asteraceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO29194 Harziella entomophila n.a. n.a. n.a. n.a. n.a. n.a. Database[UNPD]
NPO29013 Annulohypoxylon cohaerens Species Xylariaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO25969 Aspergillus nomius Species Aspergillaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28870 Clausena lenis Species Rutaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO11524 Macrotomia ugamensis Species Boraginaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28808 Piptanthus mongolicus Species Fabaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO28939 Piptanthus nepalensis Species Fabaceae Eukaryota n.a. n.a. n.a. Database[UNPD]
NPO29157 Reichardia gaditana Species Asteraceae 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 NP ID 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

Target ID Target Type Target Name Target Organism Activity Type Activity Relation Value Unit Reference

☑ Note for Activity Records:
☉ The quantitative biological activities were primarily integrated from ChEMBL (Version-30) database and were also directly collected from PubMed literature. PubMed PMID was provided as the reference link for each activity record.

  Chemically structural similarity: I. Similar Active Natural Products in NPASS

Top-200 similar NPs were calculated against the active-NP-set (includes 4,3285 NPs with experimentally-derived bioactivity available in NPASS)

Similarity level is defined by Tanimoto coefficient (Tc) between two molecules. Tc lies between [0, 1] where '1' indicates the highest similarity. What is Tanimoto coefficient

●  The left chart: Distribution of similarity level between NPC148507 and all remaining natural products in the NPASS database.
●  The right table: Most similar natural products (Tc>=0.56 or Top200).

Similarity Score Similarity Level Natural Product ID

  Chemically structural similarity: II. Similar Clinical/Approved Drugs

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

●  The left chart: Distribution of similarity level between NPC148507 and all drugs/candidates.
●  The right table: Most similar clinical/approved drugs (Tc>=0.56 or Top200).

Similarity Score Similarity Level Drug ID Developmental Stage

  Bioactivity similarity: Similar Natural Products in NPASS

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