NP-MRD: Showing NP-Card for Amaralin (NP0051837)

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Record Information

Version

2.0

Created at

2022-04-27 23:03:09 UTC

Updated at

2022-04-27 23:03:09 UTC

NP-MRD ID

NP0051837

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Amaralin

Description

Amaralin belongs to the class of organic compounds known as terpene lactones. These are prenol lipids containing a lactone ring. Thus, amaralin is considered to be an isoprenoid. Amaralin is found in Helenium amarum. Based on a literature review very few articles have been published on amaralin.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 39 42  0  0  0  0  0  0  0  0999 V2000
    2.7024   -2.4509   -1.6575 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6140   -1.4385   -0.8182 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.6670   -0.9362    0.0566 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.7742   -1.5240    0.2964 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.2550    0.2830    0.5770 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.8343    0.2447    0.6452 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.3478    1.6534    0.5882 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0990    1.8492    0.4275 C   0  0  1  0  0  0  0  0  0  0  0  0
   -0.2915    3.1461   -0.3847 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9000    0.8334   -0.2477 C   0  0  2  0  0  0  0  0  0  0  0  0
   -2.3774    1.2229   -0.0630 C   0  0  1  0  0  0  0  0  0  0  0  0
   -3.2494    0.9814   -1.1053 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1472   -0.0483   -0.1892 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.1316   -1.1233   -0.4571 C   0  0  2  0  0  0  0  0  0  0  0  0
   -2.4876   -2.3327    0.1288 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9014   -0.5498    0.2747 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.2260   -0.6544    1.7402 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.2425   -1.4015   -0.1516 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4381   -0.5701   -0.5580 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.8798   -2.7658   -2.2738 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.6292   -2.9902   -1.7370 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5935   -0.2801    1.5900 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.9208    2.1572   -0.2467 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7010    2.1661    1.5092 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5513    2.0983    1.4330 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1288    4.0057    0.1367 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.3287    2.9920   -1.3040 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3268    3.2642   -0.7132 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7474    0.8010   -1.3422 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6466    1.8644    0.7810 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9923   -0.2643    0.4941 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9617   -1.1876   -1.5348 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7495   -2.9746   -0.5586 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8669   -1.5874    2.1987 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8175    0.2540    2.2617 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3281   -0.6143    1.9394 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.0231   -2.0776   -1.0040 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.5212   -2.0770    0.6999 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.1978    0.0315   -1.4322 H   0  0  0  0  0  0  0  0  0  0  0  0
  9  8  1  0
  8  7  1  0
  7  6  1  0
  6  5  1  0
  5  3  1  0
  3  4  2  0
  3  2  1  0
  2  1  2  3
  2 19  1  0
 19 18  1  0
 18 16  1  0
 16 17  1  1
 16 14  1  0
 14 15  1  0
 14 13  1  0
 13 12  1  0
 12 11  1  0
 11 10  1  0
 10  8  1  0
 19  6  1  0
 10 16  1  0
 11 13  1  0
  9 26  1  0
  9 27  1  0
  9 28  1  0
  8 25  1  1
  7 23  1  0
  7 24  1  0
  6 22  1  1
  1 20  1  0
  1 21  1  0
 19 39  1  6
 18 37  1  0
 18 38  1  0
 17 34  1  0
 17 35  1  0
 17 36  1  0
 14 32  1  6
 15 33  1  0
 13 31  1  1
 11 30  1  1
 10 29  1  6
M  END

  Mrv1652304282201032D          

 19 22  0  0  1  0            999 V2000
    1.1113   -1.8249    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.3663   -1.0403    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.1387   -0.7505    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8469   -1.1736    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.9576   -1.9911    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.3875   -2.5874    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5658   -2.5135    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.1426   -3.2217    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7693   -2.1385    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.1603   -1.4120    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.9778   -1.3013    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.5902   -0.8157    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7375   -0.0039    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.6989   -0.5554    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.0314   -1.0403    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.2863   -1.8249    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.5206   -1.6534    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.6989    0.2696    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.4770   -0.2228    0.0000 C   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
  1  7  1  0  0  0  0
  7  8  1  1  0  0  0
  5  9  1  1  0  0  0
  9 10  1  0  0  0  0
 10 11  2  0  0  0  0
 10 12  1  0  0  0  0
  4 12  1  6  0  0  0
 12 13  2  0  0  0  0
  2 14  1  0  0  0  0
 14 15  1  0  0  0  0
 15 16  1  0  0  0  0
  1 16  1  6  0  0  0
 16 17  1  1  0  0  0
 15 17  1  1  0  0  0
 14 18  1  6  0  0  0
  2 19  1  6  0  0  0
M  END
> <DATABASE_ID>
NP0051837

> <DATABASE_NAME>
NP-MRD

> <SMILES>
C[C@@H]1C[C@@H]2OC(=O)C(=C)[C@H]2C[C@]2(C)[C@@H](O)[C@@H]3O[C@@H]3[C@@H]12

> <INCHI_IDENTIFIER>
InChI=1S/C15H20O4/c1-6-4-9-8(7(2)14(17)18-9)5-15(3)10(6)11-12(19-11)13(15)16/h6,8-13,16H,2,4-5H2,1,3H3/t6-,8-,9+,10-,11-,12-,13+,15+/m1/s1

> <INCHI_KEY>
XPNBRTWIMIGGMT-MIPSWGQUSA-N

> <FORMULA>
C15H20O4

> <MOLECULAR_WEIGHT>
264.321

> <EXACT_MASS>
264.136159124

> <JCHEM_ACCEPTOR_COUNT>
3

> <JCHEM_ATOM_COUNT>
39

> <JCHEM_AVERAGE_POLARIZABILITY>
27.995026214345458

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(1S,3R,7S,9R,10S,11R,13S,14R)-14-hydroxy-1,9-dimethyl-4-methylidene-6,12-dioxatetracyclo[8.4.0.0^{3,7}.0^{11,13}]tetradecan-5-one

> <ALOGPS_LOGP>
0.94

> <JCHEM_LOGP>
1.5646601543333325

> <ALOGPS_LOGS>
-1.89

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
4

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA_STRONGEST_ACIDIC>
13.664745629933513

> <JCHEM_PKA_STRONGEST_BASIC>
-3.3828402614670816

> <JCHEM_POLAR_SURFACE_AREA>
59.06

> <JCHEM_REFRACTIVITY>
67.07130000000001

> <JCHEM_ROTATABLE_BOND_COUNT>
0

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
3.37e+00 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(1S,3R,7S,9R,10S,11R,13S,14R)-14-hydroxy-1,9-dimethyl-4-methylidene-6,12-dioxatetracyclo[8.4.0.0^{3,7}.0^{11,13}]tetradecan-5-one

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 28-APR-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   28-APR-22         0                                  
HETATM    1  C   UNK     0       2.074  -3.407   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       2.550  -1.942   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       3.992  -1.401   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       5.314  -2.191   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       5.521  -3.717   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       4.457  -4.830   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       2.923  -4.692   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       2.133  -6.014   0.000  0.00  0.00           C+0
HETATM    9  O   UNK     0       7.036  -3.992   0.000  0.00  0.00           O+0
HETATM   10  C   UNK     0       7.766  -2.636   0.000  0.00  0.00           C+0
HETATM   11  O   UNK     0       9.292  -2.429   0.000  0.00  0.00           O+0
HETATM   12  C   UNK     0       6.702  -1.523   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       6.977  -0.007   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       1.305  -1.037   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       0.059  -1.942   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       0.534  -3.406   0.000  0.00  0.00           C+0
HETATM   17  O   UNK     0      -0.972  -3.086   0.000  0.00  0.00           O+0
HETATM   18  O   UNK     0       1.305   0.503   0.000  0.00  0.00           O+0
HETATM   19  C   UNK     0       2.757  -0.416   0.000  0.00  0.00           C+0
CONECT    1    2    7   16                                                  
CONECT    2    1    3   14   19                                             
CONECT    3    2    4                                                       
CONECT    4    3    5   12                                                  
CONECT    5    4    6    9                                                  
CONECT    6    5    7                                                       
CONECT    7    6    1    8                                                  
CONECT    8    7                                                            
CONECT    9    5   10                                                       
CONECT   10    9   11   12                                                  
CONECT   11   10                                                            
CONECT   12   10    4   13                                                  
CONECT   13   12                                                            
CONECT   14    2   15   18                                                  
CONECT   15   14   16   17                                                  
CONECT   16   15    1   17                                                  
CONECT   17   16   15                                                       
CONECT   18   14                                                            
CONECT   19    2                                                            
MASTER        0    0    0    0    0    0    0    0   19    0   44    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₅H₂₀O₄

Average Mass

264.3210 Da

Monoisotopic Mass

264.13616 Da

IUPAC Name

(1S,3R,7S,9R,10S,11R,13S,14R)-14-hydroxy-1,9-dimethyl-4-methylidene-6,12-dioxatetracyclo[8.4.0.0^{3,7}.0^{11,13}]tetradecan-5-one

Traditional Name

(1S,3R,7S,9R,10S,11R,13S,14R)-14-hydroxy-1,9-dimethyl-4-methylidene-6,12-dioxatetracyclo[8.4.0.0^{3,7}.0^{11,13}]tetradecan-5-one

CAS Registry Number

Not Available

SMILES

C[C@@H]1C[C@@H]2OC(=O)C(=C)[C@H]2C[C@]2(C)[C@@H](O)[C@@H]3O[C@@H]3[C@@H]12

InChI Identifier

InChI=1S/C15H20O4/c1-6-4-9-8(7(2)14(17)18-9)5-15(3)10(6)11-12(19-11)13(15)16/h6,8-13,16H,2,4-5H2,1,3H3/t6-,8-,9+,10-,11-,12-,13+,15+/m1/s1

InChI Key

XPNBRTWIMIGGMT-MIPSWGQUSA-N

Experimental Spectra

Not Available

Predicted Spectra

Spectrum Type	Description	Depositor ID	Depositor Organization	Depositor	Deposition Date	View
1D NMR	¹³C NMR Spectrum (1D, 25 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 252 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 50 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 75 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 101 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 126 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 151 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 176 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 201 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 226 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum

Chemical Shift Submissions

Not Available

Species

Species of Origin

Species Name	Source	Reference
Helenium amarum	Plant	KNApSAcK

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as terpene lactones. These are prenol lipids containing a lactone ring.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Prenol lipids

Sub Class

Terpene lactones

Direct Parent

Terpene lactones

Alternative Parents

Substituents

Terpene lactone
Pseudoguaiane sesquiterpenoid
Sesquiterpenoid
Gamma butyrolactone
Oxane
Cyclic alcohol
Tetrahydrofuran
Enoate ester
Alpha,beta-unsaturated carboxylic ester
Carboxylic acid ester
Secondary alcohol
Lactone
Carboxylic acid derivative
Organoheterocyclic compound
Oxacycle
Dialkyl ether
Oxirane
Ether
Monocarboxylic acid or derivatives
Alcohol
Organic oxygen compound
Hydrocarbon derivative
Carbonyl group
Organooxygen compound
Organic oxide
Aliphatic heteropolycyclic compound

Molecular Framework

Aliphatic heteropolycyclic compounds

External Descriptors

azulenofuran (CHEBI:2620 )
sesquiterpene lactone (CHEBI:2620 )
pseudoguaianolide (C09291 )
Pseudoguaiane sesquiterpenoids (C09291 )
Pseudoguaiane sesquiterpenoids (LMPR0103420002 )

Physical Properties

State

Not Available

Experimental Properties

Property	Value	Reference
Melting Point	Not Available	Not Available
Boiling Point	Not Available	Not Available
Water Solubility	Not Available	Not Available
LogP	Not Available	Not Available

Predicted Properties

Property	Value	Source
logP	0.94	ALOGPS
logP	1.56	ChemAxon
logS	-1.9	ALOGPS
pKa (Strongest Acidic)	13.66	ChemAxon
pKa (Strongest Basic)	-3.4	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	3	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	59.06 Å²	ChemAxon
Rotatable Bond Count	0	ChemAxon
Refractivity	67.07 m³·mol⁻¹	ChemAxon
Polarizability	28 Å³	ChemAxon
Number of Rings	4	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	Yes	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	No	ChemAxon

External Links

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FoodDB ID

Not Available

KNApSAcK ID

C00003209

Chemspider ID

90642

KEGG Compound ID

C09291

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

100302

PDB ID

Not Available

ChEBI ID

2620

Good Scents ID

Not Available

References

General References

Not Available

Showing NP-Card for Amaralin (NP0051837)

MOL for NP0051837 (Amaralin)

3D MOL for NP0051837 (Amaralin)

3D SDF for NP0051837 (Amaralin)

3D-SDF for NP0051837 (Amaralin)

PDB for NP0051837 (Amaralin)

3D PDB for NP0051837 (Amaralin)

SMILES for NP0051837 (Amaralin)

INCHI for NP0051837 (Amaralin)

Structure for NP0051837 (Amaralin)

3D Structure for NP0051837 (Amaralin)