NPASS Compound

Natural Product: NPC114064

Natural Product ID	NPC114064
Common Name ? The InCHIKey will be temporarily assigned as the "Common Name" if no IUPAC name or alternative short name is available.	Bisgravillol
IUPAC Name	5-[14-(3-hydroxy-5-methoxyphenyl)tetradecyl]benzene-1,3-diol
Synonyms	bisgravillol
Synthetic Gene Cluster	n.a.
ChEMBL Identifier	CHEMBL221393
PubChem CID	16109872
Chemical Classification	CHEMONTID:0000000 [Organic compounds] [CHEMONTID:0002448] Benzenoids [CHEMONTID:0000134] Phenols [CHEMONTID:0000190] Methoxyphenols

The Chemical Classification was calculated by Classyfire, a software for chemical taxonomy calculation. Reference: DOI:10.1186/s13321-016-0174-y.

Chemical Representations

RDKit 3D 71 72 0 0 0 0 0 0 0 0999 V2000 -7.8604 1.1180 -2.3723 C 0 0 0 0 0 0 0 0 0 0 0 0 -8.0842 1.8945 -1.2314 O 0 0 0 0 0 0 0 0 0 0 0 0 -7.5260 1.5582 0.0041 C 0 0 0 0 0 0 0 0 0 0 0 0 -6.7167 0.4224 0.1429 C 0 0 0 0 0 0 0 0 0 0 0 0 -6.1768 0.1064 1.3598 C 0 0 0 0 0 0 0 0 0 0 0 0 -5.3126 -1.0839 1.5233 C 0 0 0 0 0 0 0 0 0 0 0 0 -3.8613 -0.8266 1.3721 C 0 0 0 0 0 0 0 0 0 0 0 0 -3.3841 -0.3285 0.0588 C 0 0 0 0 0 0 0 0 0 0 0 0 -3.5952 -1.2419 -1.1039 C 0 0 0 0 0 0 0 0 0 0 0 0 -2.8918 -2.5692 -0.9273 C 0 0 0 0 0 0 0 0 0 0 0 0 -1.4093 -2.4552 -0.7661 C 0 0 0 0 0 0 0 0 0 0 0 0 -0.6970 -1.8211 -1.9135 C 0 0 0 0 0 0 0 0 0 0 0 0 0.7874 -1.7566 -1.6727 C 0 0 0 0 0 0 0 0 0 0 0 0 1.1846 -0.9697 -0.4634 C 0 0 0 0 0 0 0 0 0 0 0 0 2.7053 -1.0141 -0.3901 C 0 0 0 0 0 0 0 0 0 0 0 0 3.2189 -0.2413 0.8084 C 0 0 0 0 0 0 0 0 0 0 0 0 4.7444 -0.3665 0.7622 C 0 0 0 0 0 0 0 0 0 0 0 0 5.2794 0.4000 1.9527 C 0 0 0 0 0 0 0 0 0 0 0 0 6.7913 0.3416 2.0048 C 0 0 0 0 0 0 0 0 0 0 0 0 7.4068 0.9241 0.7900 C 0 0 0 0 0 0 0 0 0 0 0 0 7.7474 2.2550 0.6678 C 0 0 0 0 0 0 0 0 0 0 0 0 8.3193 2.7583 -0.4817 C 0 0 0 0 0 0 0 0 0 0 0 0 8.5552 1.9024 -1.5359 C 0 0 0 0 0 0 0 0 0 0 0 0 8.2224 0.5621 -1.4383 C 0 0 0 0 0 0 0 0 0 0 0 0 7.6515 0.0898 -0.2743 C 0 0 0 0 0 0 0 0 0 0 0 0 8.4735 -0.2869 -2.5266 O 0 0 0 0 0 0 0 0 0 0 0 0 8.6260 4.1052 -0.5109 O 0 0 0 0 0 0 0 0 0 0 0 0 -6.4536 0.9368 2.4398 C 0 0 0 0 0 0 0 0 0 0 0 0 -7.2420 2.0572 2.3409 C 0 0 0 0 0 0 0 0 0 0 0 0 -7.7704 2.3487 1.1027 C 0 0 0 0 0 0 0 0 0 0 0 0 -7.5036 2.8765 3.4493 O 0 0 0 0 0 0 0 0 0 0 0 0 -6.8407 1.2865 -2.7474 H 0 0 0 0 0 0 0 0 0 0 0 0 -8.5659 1.4629 -3.1755 H 0 0 0 0 0 0 0 0 0 0 0 0 -8.0013 0.0206 -2.1904 H 0 0 0 0 0 0 0 0 0 0 0 0 -6.5589 -0.1774 -0.7613 H 0 0 0 0 0 0 0 0 0 0 0 0 -5.4919 -1.5225 2.5120 H 0 0 0 0 0 0 0 0 0 0 0 0 -5.6397 -1.8721 0.7830 H 0 0 0 0 0 0 0 0 0 0 0 0 -3.3180 -1.7716 1.6002 H 0 0 0 0 0 0 0 0 0 0 0 0 -3.5205 -0.1168 2.1592 H 0 0 0 0 0 0 0 0 0 0 0 0 -2.2795 -0.1523 0.1591 H 0 0 0 0 0 0 0 0 0 0 0 0 -3.8182 0.6577 -0.2237 H 0 0 0 0 0 0 0 0 0 0 0 0 -3.1132 -0.7464 -1.9947 H 0 0 0 0 0 0 0 0 0 0 0 0 -4.6482 -1.3580 -1.3509 H 0 0 0 0 0 0 0 0 0 0 0 0 -3.1331 -3.1759 -1.8274 H 0 0 0 0 0 0 0 0 0 0 0 0 -3.3310 -3.0645 -0.0630 H 0 0 0 0 0 0 0 0 0 0 0 0 -1.0348 -3.4845 -0.5743 H 0 0 0 0 0 0 0 0 0 0 0 0 -1.1857 -1.8562 0.1608 H 0 0 0 0 0 0 0 0 0 0 0 0 -0.8326 -2.5035 -2.7966 H 0 0 0 0 0 0 0 0 0 0 0 0 -1.1209 -0.8570 -2.2108 H 0 0 0 0 0 0 0 0 0 0 0 0 1.2979 -1.3400 -2.5639 H 0 0 0 0 0 0 0 0 0 0 0 0 1.1213 -2.8210 -1.5051 H 0 0 0 0 0 0 0 0 0 0 0 0 0.7828 -1.4854 0.4541 H 0 0 0 0 0 0 0 0 0 0 0 0 0.8098 0.0669 -0.4964 H 0 0 0 0 0 0 0 0 0 0 0 0 3.0742 -0.4921 -1.3048 H 0 0 0 0 0 0 0 0 0 0 0 0 3.0056 -2.0598 -0.3240 H 0 0 0 0 0 0 0 0 0 0 0 0 2.9270 0.8238 0.7153 H 0 0 0 0 0 0 0 0 0 0 0 0 2.8194 -0.6553 1.7339 H 0 0 0 0 0 0 0 0 0 0 0 0 5.1227 -0.0032 -0.1982 H 0 0 0 0 0 0 0 0 0 0 0 0 5.0540 -1.4214 0.8771 H 0 0 0 0 0 0 0 0 0 0 0 0 4.9135 -0.1286 2.8647 H 0 0 0 0 0 0 0 0 0 0 0 0 4.8823 1.4236 1.9689 H 0 0 0 0 0 0 0 0 0 0 0 0 7.1097 0.8847 2.9173 H 0 0 0 0 0 0 0 0 0 0 0 0 7.0694 -0.7148 2.1231 H 0 0 0 0 0 0 0 0 0 0 0 0 7.5432 2.8917 1.5235 H 0 0 0 0 0 0 0 0 0 0 0 0 9.0042 2.3045 -2.4348 H 0 0 0 0 0 0 0 0 0 0 0 0 7.4128 -0.9717 -0.2591 H 0 0 0 0 0 0 0 0 0 0 0 0 8.9914 -1.1447 -2.4006 H 0 0 0 0 0 0 0 0 0 0 0 0 8.3300 4.6085 -1.3591 H 0 0 0 0 0 0 0 0 0 0 0 0 -6.0216 0.6685 3.3757 H 0 0 0 0 0 0 0 0 0 0 0 0 -8.3962 3.2306 1.0048 H 0 0 0 0 0 0 0 0 0 0 0 0 -7.6477 3.8706 3.2170 H 0 0 0 0 0 0 0 0 0 0 0 0 1 2 1 0 2 3 1 0 3 4 2 0 4 5 1 0 5 6 1 0 6 7 1 0 7 8 1 0 8 9 1 0 9 10 1 0 10 11 1 0 11 12 1 0 12 13 1 0 13 14 1 0 14 15 1 0 15 16 1 0 16 17 1 0 17 18 1 0 18 19 1 0 19 20 1 0 20 21 2 0 21 22 1 0 22 23 2 0 23 24 1 0 24 25 2 0 24 26 1 0 22 27 1 0 5 28 2 0 28 29 1 0 29 30 2 0 29 31 1 0 30 3 1 0 25 20 1 0 1 32 1 0 1 33 1 0 1 34 1 0 4 35 1 0 6 36 1 0 6 37 1 0 7 38 1 0 7 39 1 0 8 40 1 0 8 41 1 0 9 42 1 0 9 43 1 0 10 44 1 0 10 45 1 0 11 46 1 0 11 47 1 0 12 48 1 0 12 49 1 0 13 50 1 0 13 51 1 0 14 52 1 0 14 53 1 0 15 54 1 0 15 55 1 0 16 56 1 0 16 57 1 0 17 58 1 0 17 59 1 0 18 60 1 0 18 61 1 0 19 62 1 0 19 63 1 0 21 64 1 0 23 65 1 0 25 66 1 0 26 67 1 0 27 68 1 0 28 69 1 0 30 70 1 0 31 71 1 0 M END

Standard InCHIKey	HACJVLBLYFAKNF-UHFFFAOYSA-N
Standard InCHI	InChI=1S/C27H40O4/c1-31-27-19-23(18-26(30)21-27)15-13-11-9-7-5-3-2-4-6-8-10-12-14-22-16-24(28)20-25(29)17-22/h16-21,28-30H,2-15H2,1H3
SMILES	COc1cc(CCCCCCCCCCCCCCc2cc(cc(c2)O)O)cc(c1)O

Calculated Properties

Physi-Chem Properties

Molecular Weight:	428.29	Volume:	477.777 ? Van der Waals volume.
Dense:	0.896	LogP:	7.222 ? The logarithm of the n-octanol/water distribution coefficients.
logD7.4:	4.219 ? The logarithm of the n-octanol/water distribution coefficient at pH=7.4.	LogS:	-4.521 ? The logarithm of aqueous solubility value.
Rotatable Bonds:	16.0	Rigid Bonds:	12.0
TPSA:	69.92 ? Topological Polar Surface Area.	H-Bond Acceptor:	4.0
H-Bond Donor:	3.0	Rings:	2.0
Heavy Atoms:	4.0

MedChem Properties

QED Drug-Likeness Score:	0.246	GASA:	0.0 ? GASA represents the probability of being difficult to synthesize, ranging from 0 to 1.
Synthetic Accessibility Score:	2.24	Fsp³:	0.556
MCE-18:	12.0 ? 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:	1
Chelating Alert:	0	PAINS Alert:	0
Colloidal aggregators:	0.952	Fluc inhibitor:	0.414 ? The fluc inhibitor value is the probability of being fLuc inhibitors, within the range of 0 to 1.
Blue fluorescence:	0.003 ? The blue fluorescence value is the probability of being blue fluorescence, within the range of 0 to 1	Green fluorescence:	0.383 ? The green fluorescence value is the probability of being green fluorescence, within the range of 0 to 1
Reactive compounds:	0.641	Promiscuous compounds:	0.085

ADMET Properties (ADMETlab3.0)

ADMET: Absorption

Caco-2 Permeability:	-5.266	MDCK Permeability:	-4.766
Pgp-inhibitor:	0.03	Pgp-substrate:	0.003
PAMPA:	0.0 ? 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):	0.003
20% Bioavailability (F20%):	0.917	30% Bioavailability (F30%):	0.975
50% Bioavailability (F50%):	0.999

ADMET: Distribution

Blood-Brain-Barrier Penetration (BBB):	0.025	MRP1:	0.323
Plasma Protein Binding (PPB):	99.6%	Volume Distribution (VD):	1.411
Fu:	0.718% ? The fraction unbound in plasms.	OATP1B1 inhibitor:	0.996
OATP1B3 inhibitor:	1.0	BCRP inhibitor:	0.939
BSEP inhibitor:	0.943

ADMET: Metabolism

CYP1A2-inhibitor:	0.998	CYP1A2-substrate:	0.999
CYP2C19-inhibitor:	0.998	CYP2C19-substrate:	0.995
CYP2C9-inhibitor:	1.0	CYP2C9-substrate:	1.0
CYP2D6-inhibitor:	0.999	CYP2D6-substrate:	0.999
CYP3A4-inhibitor:	0.033	CYP3A4-substrate:	1.0
CYP2B6-substrate:	0.139	CYP2C8-inhibitor:	1.0
HLM stability:	0.983 ? 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):

3.141

Half-life (T1/2):

1.685

ADMET: Toxicity

hERG Blockers:	0.841	hERG Blockers (10um):	0.922
Human Hepatotoxicity (H-HT):	0.565	Drug-induced Liver Injury (DILI):	0.105
AMES Toxicity:	0.146	Rat Oral Acute Toxicity:	0.168
Maximum Recommended Daily Dose:	0.763	Skin Sensitization:	0.982
Carcinogencity:	0.23	Eye Corrosion:	0.498
Eye Irritation:	0.996	Respiratory Toxicity:	0.923
Drug-induced Neurotoxicity:	0.103	Ototoxicity:	0.176
Hematotoxicity:	0.058	Drug-induced Nephrotoxicity:	0.121
Genotoxicity:	0.0	RPMI-8226 Immunitoxicity:	0.068
A549 Cytotoxicity:	0.901	Hek293 Cytotoxicity:	0.908
BCF:	1.384 ? 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:	5.396 ? 48 hour Tetrahymena pyriformis IGC50. The unit of IGC50 is -log10[(mg/L)/(1000*MW)].
LC50DM:	6.525 ? 48 hour Daphnia magna LC50. The unit of LC50DM is -log10[(mg/L)/(1000*MW)].	LC50FM:	6.527 ? 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
NPO8945	Grevillea robusta	Species	Proteaceae	Eukaryota	leaves	n.a.	n.a.	PMID[17243726]
NPO8945	Grevillea robusta	Species	Proteaceae	Eukaryota	n.a.	n.a.	n.a.	Database[COCONUT]
NPO8945	Grevillea robusta	Species	Proteaceae	Eukaryota	n.a.	n.a.	n.a.	Database[HerDing]
NPO8945	Grevillea robusta	Species	Proteaceae	Eukaryota	n.a.	n.a.	n.a.	Database[TCMID]
NPO8945	Grevillea robusta	Species	Proteaceae	Eukaryota	n.a.	n.a.	n.a.	Database[TCM_Taiwan]
NPO8945	Grevillea robusta	Species	Proteaceae	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

Activity Type	# Activity
IC50	3

Activity Type	# Activity
Cell line	3

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
NPT83	Cell line	MCF7	Homo sapiens	IC50	=	29400.0	nM	PMID[20584605]
NPT397	Cell line	NCI-H460	Homo sapiens	IC50	=	28700.0	nM	PMID[26396683]
NPT395	Cell line	SF-268	Homo sapiens	IC50	=	29400.0	nM	PMID[21733687]

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

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 NPC114064 and all remaining natural products in the NPASS database.
● The right table: Most similar natural products (Tc>=0.5 or Top200).

range	Tanimoto Coefficient
0-0.1	25507
0.1-0.2	19870
0.2-0.3	4062
0.3-0.4	324
0.4-0.5	51
0.5-0.6	26
0.6-0.7	11
0.7-0.8	0
0.8-0.85	0
0.85-0.9	2
0.9-0.95	0
0.95-1	0

Similarity Score	Similarity Level	Natural Product ID
0.8605	High Similarity	NPC127894
0.8605	High Similarity	NPC470759
0.7949	Intermediate Similarity	NPC168657
0.7674	Intermediate Similarity	NPC219070
0.7021	Intermediate Similarity	NPC15860
0.6818	Remote Similarity	NPC78446
0.68	Remote Similarity	NPC140521
0.6486	Remote Similarity	NPC246056
0.6	Remote Similarity	NPC294186
0.6	Remote Similarity	NPC147310
0.6	Remote Similarity	NPC249836
0.6	Remote Similarity	NPC137415
0.6	Remote Similarity	NPC166313
0.6	Remote Similarity	NPC192032
0.6	Remote Similarity	NPC24407
0.6	Remote Similarity	NPC11280
0.5714	Remote Similarity	NPC29577
0.5581	Remote Similarity	NPC470700
0.5581	Remote Similarity	NPC54844
0.5581	Remote Similarity	NPC39097
0.5581	Remote Similarity	NPC302681
0.5581	Remote Similarity	NPC241891
0.5581	Remote Similarity	NPC118286
0.5581	Remote Similarity	NPC134829
0.5581	Remote Similarity	NPC109691
0.551	Remote Similarity	NPC181361
0.5455	Remote Similarity	NPC603370
0.5333	Remote Similarity	NPC53051
0.5333	Remote Similarity	NPC24404
0.5333	Remote Similarity	NPC313030
0.5333	Remote Similarity	NPC39664
0.5294	Remote Similarity	NPC82299
0.5217	Remote Similarity	NPC146798
0.5217	Remote Similarity	NPC222522
0.5217	Remote Similarity	NPC106396
0.5217	Remote Similarity	NPC276737
0.5217	Remote Similarity	NPC141090
0.5217	Remote Similarity	NPC94351
0.5217	Remote Similarity	NPC168303
0.5208	Remote Similarity	NPC135414
0.5106	Remote Similarity	NPC22610
0.5106	Remote Similarity	NPC486908

Similar Clinical/Approved Drugs

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

● The left chart: Distribution of similarity level between NPC114064 and all drugs/candidates.
● The right table: Most similar clinical/approved drugs (Tc>=0.5 or Top200).

range	Tanimoto Coefficient
0-0.1	4874
0.1-0.2	4103
0.2-0.3	165
0.3-0.4	8
0.4-0.5	0
0.5-0.6	0
0.6-0.7	0
0.7-0.8	0
0.8-0.85	0
0.85-0.9	0
0.9-0.95	0
0.95-1	0

Similarity Score	Similarity Level	Drug ID	Developmental Stage
		NPD

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