NP-MRD: Showing NP-Card for Lagosin (sesquiterpene) (NP0064253)

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Record Information

Version

2.0

Created at

2022-04-28 08:31:03 UTC

Updated at

2022-04-28 08:31:03 UTC

NP-MRD ID

NP0064253

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Lagosin (sesquiterpene)

Description

(1R,3R,6S,10R,11R)-3,11-dimethyl-7-methylidene-2,9,12-trioxatetracyclo[9.4.0.0¹,³.0⁶,¹⁰]Pentadec-14-ene-8,13-dione belongs to the class of organic compounds known as dihydropyranones. Dihydropyranones are compounds containing a hydrogenated pyran ring which bears a ketone, and contains one double bond. Lagosin (sesquiterpene) is found in Ambrosia psilostachya. Based on a literature review very few articles have been published on (1R,3R,6S,10R,11R)-3,11-dimethyl-7-methylidene-2,9,12-trioxatetracyclo[9.4.0.0¹,³.0⁶,¹⁰]Pentadec-14-ene-8,13-dione.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 36 39  0  0  0  0  0  0  0  0999 V2000
    3.3711    0.1669    1.0372 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.5448   -0.5477    0.3213 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0899   -1.9164    0.5043 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2913   -2.6113    1.5342 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.3990   -2.2862   -0.6774 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.7665   -1.0572   -1.1083 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.8531   -0.1042   -0.9073 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.5460    1.3360   -1.0049 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8649    1.7781    0.2394 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6099    1.5334    0.0772 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.3996    2.5958    0.8683 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1852    1.2804   -1.1441 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1357    0.2917   -0.0303 C   0  0  2  0  0  0  0  0  0  0  0  0
   -2.4701    0.0514    0.5558 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8038   -1.0790    1.1225 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8353   -2.1557    1.1788 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0451   -3.2687    1.7027 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6115   -1.8865    0.6036 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5433   -0.9344   -0.4997 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.5485   -1.5195   -1.5030 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.8597   -0.2103    1.9438 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.6471    1.1948    0.7995 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.6896   -1.2373   -2.2298 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.6267   -0.2961   -1.7228 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.5285    1.8920   -1.0629 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.9605    1.5004   -1.9256 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.0981    2.8690    0.3784 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.1686    1.2068    1.1398 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4187    2.6879    0.4924 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3336    2.3986    1.9539 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9005    3.5732    0.6263 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2471    0.8404    0.5309 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.8058   -1.2302    1.5581 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0344   -2.0562   -2.3305 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3103   -2.1320   -1.0151 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0670   -0.6676   -2.0068 H   0  0  0  0  0  0  0  0  0  0  0  0
 10 11  1  1
 10  9  1  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
  6 19  1  0
 19 20  1  6
 19 18  1  0
 18 16  1  0
 16 17  2  0
 16 15  1  0
 15 14  2  0
 14 13  1  0
 13 12  1  6
 13 10  1  0
 12 10  1  0
  2  7  1  0
 13 19  1  0
 11 29  1  0
 11 30  1  0
 11 31  1  0
  9 27  1  0
  9 28  1  0
  8 25  1  0
  8 26  1  0
  7 24  1  6
  6 23  1  6
  1 21  1  0
  1 22  1  0
 20 34  1  0
 20 35  1  0
 20 36  1  0
 15 33  1  0
 14 32  1  0
M  END


  Mrv1652304282210312D          

 20 23  0  0  1  0            999 V2000
    3.6631    1.1824    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.8226    0.3730    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    3.2892   -0.2564    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4645   -0.2317    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9696    0.4283    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.1771    1.2268    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.9308    1.5624    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.0170    2.3829    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.3495    2.8678    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4357    3.6883    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.5958    2.5322    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5097    1.7117    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.6572    1.9534    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3819    1.0073    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.3484   -0.1145    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.6417    0.2746    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.0435   -0.4460    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.9884    1.0232    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.7978    1.1826    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.3836    1.5843    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
  1  7  1  0  0  0  0
  7  8  1  0  0  0  0
  8  9  1  0  0  0  0
  9 10  2  0  0  0  0
  9 11  1  0  0  0  0
 11 12  2  0  0  0  0
  6 12  1  0  0  0  0
  7 13  1  1  0  0  0
  6 14  1  1  0  0  0
  5 14  1  0  0  0  0
  5 15  1  6  0  0  0
  2 16  1  6  0  0  0
 16 17  2  0  0  0  0
 16 18  1  0  0  0  0
 18 19  2  0  0  0  0
 18 20  1  0  0  0  0
  1 20  1  6  0  0  0
M  END
> <DATABASE_ID>
NP0064253

> <DATABASE_NAME>
NP-MRD

> <SMILES>
C[C@@]12CC[C@@H]3[C@@H](OC(=O)C3=C)[C@@]3(C)OC(=O)C=C[C@@]13O2

> <INCHI_IDENTIFIER>
InChI=1S/C15H16O5/c1-8-9-4-6-13(2)15(20-13)7-5-10(16)19-14(15,3)11(9)18-12(8)17/h5,7,9,11H,1,4,6H2,2-3H3/t9-,11+,13+,14+,15+/m0/s1

> <INCHI_KEY>
BJGUCDBGXVWUIY-RDXHHOOHSA-N

> <FORMULA>
C15H16O5

> <MOLECULAR_WEIGHT>
276.288

> <EXACT_MASS>
276.099773615

> <JCHEM_ACCEPTOR_COUNT>
3

> <JCHEM_ATOM_COUNT>
36

> <JCHEM_AVERAGE_POLARIZABILITY>
27.231764552069865

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
0

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(1R,3R,6S,10R,11R)-3,11-dimethyl-7-methylidene-2,9,12-trioxatetracyclo[9.4.0.0^{1,3}.0^{6,10}]pentadec-14-ene-8,13-dione

> <ALOGPS_LOGP>
1.24

> <JCHEM_LOGP>
2.040781420666666

> <ALOGPS_LOGS>
-2.57

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
4

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA_STRONGEST_BASIC>
-4.29807446209279

> <JCHEM_POLAR_SURFACE_AREA>
65.13

> <JCHEM_REFRACTIVITY>
68.2267

> <JCHEM_ROTATABLE_BOND_COUNT>
0

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
7.42e-01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(1R,3R,6S,10R,11R)-3,11-dimethyl-7-methylidene-2,9,12-trioxatetracyclo[9.4.0.0^{1,3}.0^{6,10}]pentadec-14-ene-8,13-dione

> <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       6.838   2.207   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       7.135   0.696   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       6.140  -0.479   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       4.600  -0.433   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       3.677   0.800   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       4.064   2.290   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       5.471   2.917   0.000  0.00  0.00           C+0
HETATM    8  O   UNK     0       5.632   4.448   0.000  0.00  0.00           O+0
HETATM    9  C   UNK     0       4.386   5.353   0.000  0.00  0.00           C+0
HETATM   10  O   UNK     0       4.547   6.885   0.000  0.00  0.00           O+0
HETATM   11  C   UNK     0       2.979   4.727   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       2.818   3.195   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       6.827   3.646   0.000  0.00  0.00           C+0
HETATM   14  O   UNK     0       2.579   1.880   0.000  0.00  0.00           O+0
HETATM   15  C   UNK     0       2.517  -0.214   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       8.664   0.513   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       9.414  -0.832   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       9.312   1.910   0.000  0.00  0.00           C+0
HETATM   19  O   UNK     0      10.823   2.208   0.000  0.00  0.00           O+0
HETATM   20  O   UNK     0       8.183   2.957   0.000  0.00  0.00           O+0
CONECT    1    2    7   20                                                  
CONECT    2    1    3   16                                                  
CONECT    3    2    4                                                       
CONECT    4    3    5                                                       
CONECT    5    4    6   14   15                                             
CONECT    6    5    7   12   14                                             
CONECT    7    6    1    8   13                                             
CONECT    8    7    9                                                       
CONECT    9    8   10   11                                                  
CONECT   10    9                                                            
CONECT   11    9   12                                                       
CONECT   12   11    6                                                       
CONECT   13    7                                                            
CONECT   14    6    5                                                       
CONECT   15    5                                                            
CONECT   16    2   17   18                                                  
CONECT   17   16                                                            
CONECT   18   16   19   20                                                  
CONECT   19   18                                                            
CONECT   20   18    1                                                       
MASTER        0    0    0    0    0    0    0    0   20    0   46    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₅H₁₆O₅

Average Mass

276.2880 Da

Monoisotopic Mass

276.09977 Da

IUPAC Name

(1R,3R,6S,10R,11R)-3,11-dimethyl-7-methylidene-2,9,12-trioxatetracyclo[9.4.0.0^{1,3}.0^{6,10}]pentadec-14-ene-8,13-dione

Traditional Name

(1R,3R,6S,10R,11R)-3,11-dimethyl-7-methylidene-2,9,12-trioxatetracyclo[9.4.0.0^{1,3}.0^{6,10}]pentadec-14-ene-8,13-dione

CAS Registry Number

Not Available

SMILES

C[C@@]12CC[C@@H]3[C@@H](OC(=O)C3=C)[C@@]3(C)OC(=O)C=C[C@@]13O2

InChI Identifier

InChI=1S/C15H16O5/c1-8-9-4-6-13(2)15(20-13)7-5-10(16)19-14(15,3)11(9)18-12(8)17/h5,7,9,11H,1,4,6H2,2-3H3/t9-,11+,13+,14+,15+/m0/s1

InChI Key

BJGUCDBGXVWUIY-RDXHHOOHSA-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
Ambrosia psilostachya	Plant	KNApSAcK

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as dihydropyranones. Dihydropyranones are compounds containing a hydrogenated pyran ring which bears a ketone, and contains one double bond.

Kingdom

Organic compounds

Super Class

Organoheterocyclic compounds

Class

Pyrans

Sub Class

Pyranones and derivatives

Direct Parent

Dihydropyranones

Alternative Parents

Substituents

Dihydropyranone
Dicarboxylic acid or derivatives
Gamma butyrolactone
Tetrahydrofuran
Enoate ester
Alpha,beta-unsaturated carboxylic ester
Lactone
Carboxylic acid ester
Ether
Oxirane
Dialkyl ether
Carboxylic acid derivative
Oxacycle
Organooxygen compound
Hydrocarbon derivative
Organic oxide
Organic oxygen compound
Carbonyl group
Aliphatic heteropolycyclic compound

Molecular Framework

Aliphatic heteropolycyclic 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
logP	1.24	ALOGPS
logP	2.04	ChemAxon
logS	-2.6	ALOGPS
pKa (Strongest Basic)	-4.3	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	3	ChemAxon
Hydrogen Donor Count	0	ChemAxon
Polar Surface Area	65.13 Å²	ChemAxon
Rotatable Bond Count	0	ChemAxon
Refractivity	68.23 m³·mol⁻¹	ChemAxon
Polarizability	27.23 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

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

163024376

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Showing NP-Card for Lagosin (sesquiterpene) (NP0064253)

MOL for NP0064253 (Lagosin (sesquiterpene))

3D MOL for NP0064253 (Lagosin (sesquiterpene))

3D SDF for NP0064253 (Lagosin (sesquiterpene))

3D-SDF for NP0064253 (Lagosin (sesquiterpene))

PDB for NP0064253 (Lagosin (sesquiterpene))

3D PDB for NP0064253 (Lagosin (sesquiterpene))

SMILES for NP0064253 (Lagosin (sesquiterpene))

INCHI for NP0064253 (Lagosin (sesquiterpene))

Structure for NP0064253 (Lagosin (sesquiterpene))

3D Structure for NP0064253 (Lagosin (sesquiterpene))