NPASS Compound

Structure

NPC320278 OpenBabel06302216192D 109113 0 0 1 0 0 0 0 0999 V2000 32.0429 10.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 31.1769 10.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 31.1769 9.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 30.3109 8.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 29.4449 9.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 28.5788 8.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 27.7128 9.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 26.8468 8.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 25.9808 9.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 25.1147 8.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 24.2487 9.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 23.3827 8.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 22.5167 9.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 21.6506 8.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 20.7846 9.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 19.9186 8.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 19.0526 9.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 18.1865 8.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 17.3205 9.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 16.4545 8.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 15.5885 9.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 14.7224 8.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 13.8564 9.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 12.9904 8.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 12.1244 9.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 11.2583 8.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 10.3923 9.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 9.5263 8.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 8.6603 9.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 7.7942 8.5000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 6.9282 9.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 6.0622 8.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 5.1962 9.0000 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 6.0622 7.5000 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 5.1962 7.0000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 5.1962 6.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 6.0622 5.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 6.9282 6.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 7.7942 5.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 7.7942 4.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 6.9282 4.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 6.0622 4.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 4.3301 7.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 4.3301 8.5000 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 3.4641 7.0000 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 2.5981 7.5000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 2.5981 8.5000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 3.4641 9.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1.7321 9.0000 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1.7321 10.0000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 0.8660 10.5000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 0.8660 11.5000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 1.7321 12.0000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 2.5981 11.5000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 2.5981 10.5000 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 3.4641 12.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1.7321 13.0000 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 -0.0000 12.0000 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 -0.0000 10.0000 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 -0.8660 10.5000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 -1.7321 10.0000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 -2.5981 10.5000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 -2.5981 11.5000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 -1.7321 12.0000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 -0.8660 11.5000 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 -1.7321 13.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 -3.4641 12.0000 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 -3.4641 10.0000 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 -4.3301 10.5000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 -5.1962 10.0000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 -6.0622 10.5000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 -6.0622 11.5000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 -5.1962 12.0000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 -4.3301 11.5000 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 -5.1962 13.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 -6.9282 12.0000 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 -6.9282 13.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 -6.0622 13.5000 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 -7.7942 13.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 -6.9282 10.0000 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 -7.7942 10.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 -5.1962 9.0000 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 -4.3301 8.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 -1.7321 9.0000 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1.7321 7.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 0.8660 7.5000 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1.7321 6.0000 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 2.5981 5.5000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 3.4641 6.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 2.5981 4.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 3.4641 4.0000 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1.7321 4.0000 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1.7321 3.0000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 2.5981 2.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 0.8660 2.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 0.8660 1.5000 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 -0.0000 1.0000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 -0.8660 1.5000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 -1.7321 1.0000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 -1.7321 -0.0000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 -0.8660 -0.5000 0.0000 C 0 0 3 0 0 0 0 0 0 0 0 0 0.0000 -0.0000 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 -0.8660 -1.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 -2.5981 -0.5000 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 -2.5981 -1.5000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 -2.5981 1.5000 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 -3.4641 1.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 -0.8660 2.5000 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 7.7942 7.5000 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1 2 1 0 0 0 0 2 3 1 0 0 0 0 3 4 1 0 0 0 0 4 5 1 0 0 0 0 5 6 1 0 0 0 0 6 7 1 0 0 0 0 7 8 1 0 0 0 0 8 9 1 0 0 0 0 9 10 1 0 0 0 0 10 11 1 0 0 0 0 11 12 1 0 0 0 0 12 13 1 0 0 0 0 13 14 1 0 0 0 0 14 15 1 0 0 0 0 15 16 1 0 0 0 0 16 17 1 0 0 0 0 17 18 1 0 0 0 0 18 19 1 0 0 0 0 19 20 1 0 0 0 0 20 21 1 0 0 0 0 21 22 1 0 0 0 0 22 23 1 0 0 0 0 23 24 1 0 0 0 0 24 25 1 0 0 0 0 25 26 1 0 0 0 0 26 27 1 0 0 0 0 27 28 1 0 0 0 0 28 29 1 0 0 0 0 29 30 1 0 0 0 0 30 31 1 0 0 0 0 30109 1 0 0 0 0 31 32 1 0 0 0 0 32 33 2 0 0 0 0 32 34 1 0 0 0 0 34 35 1 0 0 0 0 35 36 1 0 0 0 0 35 43 1 0 0 0 0 36 37 1 0 0 0 0 37 42 1 0 0 0 0 37 38 2 0 0 0 0 38 39 1 0 0 0 0 39 40 2 0 0 0 0 40 41 1 0 0 0 0 41 42 2 0 0 0 0 43 44 2 0 0 0 0 43 45 1 0 0 0 0 45 46 1 0 0 0 0 46 47 1 0 0 0 0 46 85 1 0 0 0 0 47 48 1 0 0 0 0 47 49 1 0 0 0 0 49 50 1 0 0 0 0 50 55 1 0 0 0 0 50 51 1 0 0 0 0 51 52 1 0 0 0 0 51 59 1 0 0 0 0 52 53 1 0 0 0 0 52 58 1 0 0 0 0 53 54 1 0 0 0 0 53 57 1 0 0 0 0 54 55 1 0 0 0 0 54 56 1 0 0 0 0 59 60 1 0 0 0 0 60 65 1 0 0 0 0 60 61 1 0 0 0 0 61 62 1 0 0 0 0 61 84 1 0 0 0 0 62 63 1 0 0 0 0 62 68 1 0 0 0 0 63 64 1 0 0 0 0 63 67 1 0 0 0 0 64 65 1 0 0 0 0 64 66 1 0 0 0 0 68 69 1 0 0 0 0 69 74 1 0 0 0 0 69 70 1 0 0 0 0 70 71 1 0 0 0 0 70 82 1 0 0 0 0 71 72 1 0 0 0 0 71 80 1 0 0 0 0 72 73 1 0 0 0 0 72 76 1 0 0 0 0 73 74 1 0 0 0 0 73 75 1 0 0 0 0 76 77 1 0 0 0 0 77 78 2 0 0 0 0 77 79 1 0 0 0 0 80 81 1 0 0 0 0 82 83 1 0 0 0 0 85 86 2 0 0 0 0 85 87 1 0 0 0 0 87 88 1 0 0 0 0 88 89 1 0 0 0 0 88 90 1 0 0 0 0 90 91 2 0 0 0 0 90 92 1 0 0 0 0 92 93 1 0 0 0 0 93 94 1 0 0 0 0 93 95 1 0 0 0 0 95 96 1 0 0 0 0 96 97 1 0 0 0 0 97102 1 0 0 0 0 97 98 1 0 0 0 0 98 99 1 0 0 0 0 98108 1 0 0 0 0 99100 1 0 0 0 0 99106 1 0 0 0 0 100101 1 0 0 0 0 100104 1 0 0 0 0 101102 1 0 0 0 0 101103 1 0 0 0 0 104105 1 0 0 0 0 106107 1 0 0 0 0 M END $$$$

Physi-Chem Properties

Molecular Weight:	1555.0
Volume:	1600.61
LogP:	8.267
LogD:	5.716
LogS:	-3.061
# Rotatable Bonds:	59
TPSA:	374.84
# H-Bond Aceptor:	28
# H-Bond Donor:	10
# Rings:	5
# Heavy Atoms:	28

MedChem Properties

QED Drug-Likeness Score:	0.013
Synthetic Accessibility Score:	7.586
Fsp3:	0.864
Lipinski Rule-of-5:	Rejected
Pfizer Rule:	Accepted
GSK Rule:	Rejected
BMS Rule:	2
Golden Triangle Rule:	Rejected
Chelating Alert:	0
PAINS Alert:	0

ADMET Properties (ADMETlab2.0)

ADMET: Absorption

Caco-2 Permeability:	-5.857
MDCK Permeability:	2.639807235027547e-06
Pgp-inhibitor:	0.999
Pgp-substrate:	0.467
Human Intestinal Absorption (HIA):	0.997
20% Bioavailability (F20%):	0.963
30% Bioavailability (F30%):	0.999

ADMET: Distribution

Blood-Brain-Barrier Penetration (BBB):	0.009
Plasma Protein Binding (PPB):	96.91012573242188%
Volume Distribution (VD):	0.32
Pgp-substrate:	4.94478702545166%

ADMET: Metabolism

CYP1A2-inhibitor:	0.0
CYP1A2-substrate:	0.04
CYP2C19-inhibitor:	0.016
CYP2C19-substrate:	0.047
CYP2C9-inhibitor:	0.042
CYP2C9-substrate:	0.009
CYP2D6-inhibitor:	0.004
CYP2D6-substrate:	0.039
CYP3A4-inhibitor:	0.847
CYP3A4-substrate:	0.121

ADMET: Excretion

Clearance (CL):	0.907
Half-life (T1/2):	0.003

ADMET: Toxicity

hERG Blockers:	0.457
Human Hepatotoxicity (H-HT):	0.724
Drug-inuced Liver Injury (DILI):	0.926
AMES Toxicity:	0.16
Rat Oral Acute Toxicity:	0.656
Maximum Recommended Daily Dose:	0.009
Skin Sensitization:	0.028
Carcinogencity:	0.003
Eye Corrosion:	0.003
Eye Irritation:	0.001
Respiratory Toxicity:	0.021

Download Data

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

Natural Product: NPC320278

Natural Product ID:	NPC320278
*Common Name:**	HIPHWDZPUSZGPV-FIUKSXRLSA-N
IUPAC Name:	n.a.
Synonyms:
Standard InCHIKey:	HIPHWDZPUSZGPV-FIUKSXRLSA-N
Standard InCHI:	InChI=1S/C81H142N4O24/c1-14-15-16-17-18-19-20-21-22-23-24-25-26-27-28-29-30-31-32-33-34-35-36-37-38-39-43-46-59(87)48-61(88)84-60(47-58-44-41-40-42-45-58)76(95)85-62(77(96)83-51(3)75(94)82-50(2)49-101-78-67(93)71(98-11)68(97-10)55(7)105-78)52(4)102-80-72(65(91)63(89)53(5)104-80)109-79-66(92)70(64(90)54(6)103-79)108-81-74(100-13)73(99-12)69(56(8)106-81)107-57(9)86/h40-42,44-45,50-56,59-60,62-74,78-81,87,89-93H,14-39,43,46-49H2,1-13H3,(H,82,94)(H,83,96)(H,84,88)(H,85,95)/t50-,51+,52+,53-,54-,55-,56-,59?,60+,62+,63+,64-,65+,66+,67+,68-,69+,70+,71-,72+,73+,74-,78?,79-,80?,81-/m0/s1
SMILES:	CCCCCCCCCCCCCCCCCCCCCCCCCCCCCC(CC(=O)NC(CC1=CC=CC=C1)C(=O)NC(C(C)OC2C(C(C(C(O2)C)O)O)OC3C(C(C(C(O3)C)O)OC4C(C(C(C(O4)C)OC(=O)C)OC)OC)O)C(=O)NC(C)C(=O)NC(C)COC5C(C(C(C(O5)C)OC)OC)O)O
Synthetic Gene Cluster:	n.a.
ChEMBL Identifier:	n.a.
PubChem CID:	45480587
Chemical Classification:**	CHEMONTID:0000000 [Organic compounds] [CHEMONTID:0000264] Organic acids and derivatives [CHEMONTID:0000265] Carboxylic acids and derivatives [CHEMONTID:0000013] Amino acids, peptides, and analogues [CHEMONTID:0000348] Peptides [CHEMONTID:0004831] Oligopeptides

*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
NPO21665	Mycobacterium avium	Species	Mycobacteriaceae	Bacteria	n.a.	n.a.	n.a.	PMID[2476400]
NPO21665	Mycobacterium avium	Species	Mycobacteriaceae	Bacteria	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 NPC320278 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 NPC320278 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