NP-MRD: Showing NP-Card for (2s)-2-[(1s,2s,3e,7e,10s)-2-hydroxy-4,8-dimethyl-10-{[(2z)-2-methylbut-2-enoyl]oxy}cyclodeca-3,7-dien-1-yl]propyl (2z)-2-methylbut-2-enoate (NP0321690)

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Record Information

Version

2.0

Created at

2022-09-12 00:01:52 UTC

Updated at

2022-09-12 00:01:52 UTC

NP-MRD ID

NP0321690

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(2s)-2-[(1s,2s,3e,7e,10s)-2-hydroxy-4,8-dimethyl-10-{[(2z)-2-methylbut-2-enoyl]oxy}cyclodeca-3,7-dien-1-yl]propyl (2z)-2-methylbut-2-enoate

Description

(2S)-2-[(1S,2S,3E,7E,10S)-2-hydroxy-4,8-dimethyl-10-{[(2Z)-2-methylbut-2-enoyl]oxy}cyclodeca-3,7-dien-1-yl]propyl (2Z)-2-methylbut-2-enoate belongs to the class of organic compounds known as germacrane sesquiterpenoids. These are sesquiterpenoids having the germacrane skeleton, with a structure characterized by a cyclodecane ring substituted with an isopropyl and two methyl groups. (2s)-2-[(1s,2s,3e,7e,10s)-2-hydroxy-4,8-dimethyl-10-{[(2z)-2-methylbut-2-enoyl]oxy}cyclodeca-3,7-dien-1-yl]propyl (2z)-2-methylbut-2-enoate is found in Thapsia villosa. Based on a literature review very few articles have been published on (2S)-2-[(1S,2S,3E,7E,10S)-2-hydroxy-4,8-dimethyl-10-{[(2Z)-2-methylbut-2-enoyl]oxy}cyclodeca-3,7-dien-1-yl]propyl (2Z)-2-methylbut-2-enoate.

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1652309122202012D          

 30 30  0  0  1  0            999 V2000
    2.1434   -0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1434   -1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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    2.8579   -2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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    4.2868   -1.6500    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.0013   -1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.7158   -1.6500    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    5.7158   -2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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    5.7158   -0.0000    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    7.1447   -0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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 29 30  1  0  0  0  0
M  END

     RDKit          3D

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M  END


  Mrv1652309122202012D          

 30 30  0  0  1  0            999 V2000
    2.1434   -0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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M  END
> <DATABASE_ID>
NP0321690

> <DATABASE_NAME>
NP-MRD

> <SMILES>
C\C=C(\C)C(=O)OC[C@@H](C)[C@H]1[C@@H](O)\C=C(C)\CC\C=C(C)\C[C@@H]1OC(=O)C(\C)=C/C

> <INCHI_IDENTIFIER>
InChI=1S/C25H38O5/c1-8-18(5)24(27)29-15-20(7)23-21(26)13-16(3)11-10-12-17(4)14-22(23)30-25(28)19(6)9-2/h8-9,12-13,20-23,26H,10-11,14-15H2,1-7H3/b16-13+,17-12+,18-8-,19-9-/t20-,21+,22+,23+/m1/s1

> <INCHI_KEY>
YUEOTHPHUBXRFE-HDACCSAGSA-N

> <FORMULA>
C25H38O5

> <MOLECULAR_WEIGHT>
418.574

> <EXACT_MASS>
418.271924324

> <JCHEM_ACCEPTOR_COUNT>
3

> <JCHEM_ATOM_COUNT>
68

> <JCHEM_AVERAGE_POLARIZABILITY>
47.283763802126956

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(2S)-2-[(1S,2S,3E,7E,10S)-2-hydroxy-4,8-dimethyl-10-{[(2Z)-2-methylbut-2-enoyl]oxy}cyclodeca-3,7-dien-1-yl]propyl (2Z)-2-methylbut-2-enoate

> <JCHEM_LOGP>
5.796303183333335

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
1

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA_STRONGEST_ACIDIC>
14.479371237174362

> <JCHEM_PKA_STRONGEST_BASIC>
-3.0265230208599343

> <JCHEM_POLAR_SURFACE_AREA>
72.83000000000001

> <JCHEM_REFRACTIVITY>
123.02589999999998

> <JCHEM_ROTATABLE_BOND_COUNT>
8

> <JCHEM_RULE_OF_FIVE>
0

> <JCHEM_TRADITIONAL_IUPAC>
(2S)-2-[(1S,2S,3E,7E,10S)-2-hydroxy-4,8-dimethyl-10-{[(2Z)-2-methylbut-2-enoyl]oxy}cyclodeca-3,7-dien-1-yl]propyl (2Z)-2-methylbut-2-enoate

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 12-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   12-SEP-22         0                                  
HETATM    1  C   UNK     0       4.001  -0.770   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       4.001  -2.310   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       5.335  -3.080   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       5.335  -4.620   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       6.668  -2.310   0.000  0.00  0.00           C+0
HETATM    6  O   UNK     0       6.668  -0.770   0.000  0.00  0.00           O+0
HETATM    7  O   UNK     0       8.002  -3.080   0.000  0.00  0.00           O+0
HETATM    8  C   UNK     0       9.336  -2.310   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0      10.669  -3.080   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0      10.669  -4.620   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0      12.003  -2.310   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0      12.003  -0.770   0.000  0.00  0.00           C+0
HETATM   13  O   UNK     0      10.669  -0.000   0.000  0.00  0.00           O+0
HETATM   14  C   UNK     0      13.337  -0.000   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0      13.337   1.540   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0      12.003   2.310   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0      14.670   2.310   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0      16.004   1.540   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0      16.004  -0.000   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0      14.670  -0.770   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0      13.139  -0.931   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0      14.670  -2.310   0.000  0.00  0.00           C+0
HETATM   23  C   UNK     0      13.337  -3.080   0.000  0.00  0.00           C+0
HETATM   24  O   UNK     0      13.337  -4.620   0.000  0.00  0.00           O+0
HETATM   25  C   UNK     0      14.670  -5.390   0.000  0.00  0.00           C+0
HETATM   26  O   UNK     0      16.004  -4.620   0.000  0.00  0.00           O+0
HETATM   27  C   UNK     0      14.670  -6.930   0.000  0.00  0.00           C+0
HETATM   28  C   UNK     0      13.337  -7.700   0.000  0.00  0.00           C+0
HETATM   29  C   UNK     0      16.004  -7.700   0.000  0.00  0.00           C+0
HETATM   30  C   UNK     0      17.338  -6.930   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3                                                       
CONECT    3    2    4    5                                                  
CONECT    4    3                                                            
CONECT    5    3    6    7                                                  
CONECT    6    5                                                            
CONECT    7    5    8                                                       
CONECT    8    7    9                                                       
CONECT    9    8   10   11                                                  
CONECT   10    9                                                            
CONECT   11    9   12   23                                                  
CONECT   12   11   13   14                                                  
CONECT   13   12                                                            
CONECT   14   12   15                                                       
CONECT   15   14   16   17                                                  
CONECT   16   15                                                            
CONECT   17   15   18                                                       
CONECT   18   17   19                                                       
CONECT   19   18   20                                                       
CONECT   20   19   21   22                                                  
CONECT   21   20                                                            
CONECT   22   20   23                                                       
CONECT   23   22   11   24                                                  
CONECT   24   23   25                                                       
CONECT   25   24   26   27                                                  
CONECT   26   25                                                            
CONECT   27   25   28   29                                                  
CONECT   28   27                                                            
CONECT   29   27   30                                                       
CONECT   30   29                                                            
MASTER        0    0    0    0    0    0    0    0   30    0   60    0
END

View in JSmol

Synonyms

Value	Source
(2S)-2-[(1S,2S,3E,7E,10S)-2-Hydroxy-4,8-dimethyl-10-{[(2Z)-2-methylbut-2-enoyl]oxy}cyclodeca-3,7-dien-1-yl]propyl (2Z)-2-methylbut-2-enoic acid	Generator

Chemical Formula

C₂₅H₃₈O₅

Average Mass

418.5740 Da

Monoisotopic Mass

418.27192 Da

IUPAC Name

Not Available

Traditional Name

Not Available

CAS Registry Number

Not Available

SMILES

C\C=C(\C)C(=O)OC[C@@H](C)[C@H]1[C@@H](O)\C=C(C)\CC\C=C(C)\C[C@@H]1OC(=O)C(\C)=C/C

InChI Identifier

InChI=1S/C25H38O5/c1-8-18(5)24(27)29-15-20(7)23-21(26)13-16(3)11-10-12-17(4)14-22(23)30-25(28)19(6)9-2/h8-9,12-13,20-23,26H,10-11,14-15H2,1-7H3/b16-13+,17-12+,18-8-,19-9-/t20-,21+,22+,23+/m1/s1

InChI Key

YUEOTHPHUBXRFE-HDACCSAGSA-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, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 252 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 50 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 75 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 101 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 126 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 151 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 176 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 201 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 226 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, H₂O, 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
Thapsia villosa	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as germacrane sesquiterpenoids. These are sesquiterpenoids having the germacrane skeleton, with a structure characterized by a cyclodecane ring substituted with an isopropyl and two methyl groups.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Prenol lipids

Sub Class

Sesquiterpenoids

Direct Parent

Germacrane sesquiterpenoids

Alternative Parents

Substituents

Germacrane sesquiterpenoid
Fatty acid ester
Dicarboxylic acid or derivatives
Fatty acyl
Alpha,beta-unsaturated carboxylic ester
Enoate ester
Carboxylic acid ester
Secondary alcohol
Carboxylic acid derivative
Hydrocarbon derivative
Organic oxide
Organic oxygen compound
Alcohol
Carbonyl group
Organooxygen compound
Aliphatic homomonocyclic compound

Molecular Framework

Aliphatic homomonocyclic compounds

External Descriptors

Not Available

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

External Links

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FoodDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

Not Available

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

162883739

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for (2s)-2-[(1s,2s,3e,7e,10s)-2-hydroxy-4,8-dimethyl-10-{[(2z)-2-methylbut-2-enoyl]oxy}cyclodeca-3,7-dien-1-yl]propyl (2z)-2-methylbut-2-enoate (NP0321690)

MOL for NP0321690 ((2s)-2-[(1s,2s,3e,7e,10s)-2-hydroxy-4,8-dimethyl-10-{[(2z)-2-methylbut-2-enoyl]oxy}cyclodeca-3,7-dien-1-yl]propyl (2z)-2-methylbut-2-enoate)

3D MOL for NP0321690 ((2s)-2-[(1s,2s,3e,7e,10s)-2-hydroxy-4,8-dimethyl-10-{[(2z)-2-methylbut-2-enoyl]oxy}cyclodeca-3,7-dien-1-yl]propyl (2z)-2-methylbut-2-enoate)

3D SDF for NP0321690 ((2s)-2-[(1s,2s,3e,7e,10s)-2-hydroxy-4,8-dimethyl-10-{[(2z)-2-methylbut-2-enoyl]oxy}cyclodeca-3,7-dien-1-yl]propyl (2z)-2-methylbut-2-enoate)

3D-SDF for NP0321690 ((2s)-2-[(1s,2s,3e,7e,10s)-2-hydroxy-4,8-dimethyl-10-{[(2z)-2-methylbut-2-enoyl]oxy}cyclodeca-3,7-dien-1-yl]propyl (2z)-2-methylbut-2-enoate)

PDB for NP0321690 ((2s)-2-[(1s,2s,3e,7e,10s)-2-hydroxy-4,8-dimethyl-10-{[(2z)-2-methylbut-2-enoyl]oxy}cyclodeca-3,7-dien-1-yl]propyl (2z)-2-methylbut-2-enoate)

3D PDB for NP0321690 ((2s)-2-[(1s,2s,3e,7e,10s)-2-hydroxy-4,8-dimethyl-10-{[(2z)-2-methylbut-2-enoyl]oxy}cyclodeca-3,7-dien-1-yl]propyl (2z)-2-methylbut-2-enoate)

SMILES for NP0321690 ((2s)-2-[(1s,2s,3e,7e,10s)-2-hydroxy-4,8-dimethyl-10-{[(2z)-2-methylbut-2-enoyl]oxy}cyclodeca-3,7-dien-1-yl]propyl (2z)-2-methylbut-2-enoate)

INCHI for NP0321690 ((2s)-2-[(1s,2s,3e,7e,10s)-2-hydroxy-4,8-dimethyl-10-{[(2z)-2-methylbut-2-enoyl]oxy}cyclodeca-3,7-dien-1-yl]propyl (2z)-2-methylbut-2-enoate)

Structure for NP0321690 ((2s)-2-[(1s,2s,3e,7e,10s)-2-hydroxy-4,8-dimethyl-10-{[(2z)-2-methylbut-2-enoyl]oxy}cyclodeca-3,7-dien-1-yl]propyl (2z)-2-methylbut-2-enoate)

3D Structure for NP0321690 ((2s)-2-[(1s,2s,3e,7e,10s)-2-hydroxy-4,8-dimethyl-10-{[(2z)-2-methylbut-2-enoyl]oxy}cyclodeca-3,7-dien-1-yl]propyl (2z)-2-methylbut-2-enoate)