NP-MRD: Showing NP-Card for (1s,6r,9s)-2,2-dimethyltricyclo[7.2.1.0¹,⁶]dodec-7-ene-8-carboxylic acid (NP0274508)

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Record Information

Version

2.0

Created at

2022-09-08 21:55:40 UTC

Updated at

2022-09-08 21:55:40 UTC

NP-MRD ID

NP0274508

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(1s,6r,9s)-2,2-dimethyltricyclo[7.2.1.0¹,⁶]dodec-7-ene-8-carboxylic acid

Description

Omphalic acid, also known as omphalate, belongs to the class of organic compounds known as carboxylic acids. Carboxylic acids are compounds containing a carboxylic acid group with the formula -C(=O)OH. (1s,6r,9s)-2,2-dimethyltricyclo[7.2.1.0¹,⁶]dodec-7-ene-8-carboxylic acid is found in Omphalanthus filiformis. (1s,6r,9s)-2,2-dimethyltricyclo[7.2.1.0¹,⁶]dodec-7-ene-8-carboxylic acid was first documented in 2012 (PMID: 22220686). Based on a literature review a small amount of articles have been published on Omphalic acid (PMID: 35389217) (PMID: 34397211).

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 39 41  0  0  0  0  0  0  0  0999 V2000
   -2.3310   -1.6385   -0.1570 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7310   -0.2906    0.1196 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1854    0.1079    1.5306 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3723    0.7008   -0.8223 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8152    2.1068   -0.6290 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3208    1.9741   -0.9538 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.2776    1.1268    0.1301 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.7623    1.1448   -0.0657 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4620    0.0775   -0.3250 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9069    0.1716   -0.4092 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.6062   -0.8380   -0.6571 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.5945    1.3718   -0.2224 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.8020   -1.2147   -0.5318 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.4966   -1.7821    0.8616 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.2702   -1.0462    1.2906 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2478   -0.2720    0.1028 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.3752   -0.9955   -1.0593 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7859   -1.6979   -1.1724 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6155   -2.4761   -0.0435 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1737   -1.8796    0.5544 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2994   -0.8395    2.1269 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1986    0.5666    1.5029 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4397    0.7081    2.0518 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1064    0.3911   -1.8502 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4595    0.6583   -0.6965 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2597    2.7516   -1.3865 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9723    2.4740    0.3933 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2879    1.4880   -1.9544 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1610    2.9440   -1.0506 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.0966    1.6473    1.0932 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.2481    2.0999    0.0176 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.2549    1.4650    0.5578 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.3538   -1.9192   -1.1513 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.3398   -1.5820    1.5527 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.3266   -2.8735    0.7292 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.4329   -0.3967    2.1765 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5016   -1.8015    1.5827 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.3718   -0.4415   -1.9969 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0354   -1.9908   -1.2394 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  2  4  1  0
  4  5  1  0
  5  6  1  0
  6  7  1  0
  7  8  1  0
  8  9  2  0
  9 13  1  0
 13 14  1  0
 14 15  1  0
 16 15  1  1
 16 17  1  0
  9 10  1  0
 10 12  1  0
 10 11  2  0
 16  2  1  0
 16  7  1  0
 17 13  1  0
  1 18  1  0
  1 19  1  0
  1 20  1  0
  3 21  1  0
  3 22  1  0
  3 23  1  0
  4 24  1  0
  4 25  1  0
  5 26  1  0
  5 27  1  0
  6 28  1  0
  6 29  1  0
  7 30  1  1
  8 31  1  0
 13 33  1  6
 14 34  1  0
 14 35  1  0
 15 36  1  0
 15 37  1  0
 17 38  1  0
 17 39  1  0
 12 32  1  0
M  END


  Mrv1652309082223552D          

 17 19  0  0  1  0            999 V2000
    3.1958    2.3465    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.9588    1.5562    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2313    1.9453    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7894    1.4798    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.1332    0.7251    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.6590    0.0462    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8281    0.1194    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.4117   -0.6435    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5574   -0.6042    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1160   -1.3012    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4989   -2.0320    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.2917   -1.2675    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.1508    0.1622    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.9575    1.0058    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.7079    1.4538    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4154    0.8988    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.8101    0.5007    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
  2  4  1  0  0  0  0
  4  5  1  0  0  0  0
  5  6  1  0  0  0  0
  7  6  1  6  0  0  0
  7  8  1  0  0  0  0
  8  9  2  0  0  0  0
  9 10  1  0  0  0  0
 10 11  2  0  0  0  0
 10 12  1  0  0  0  0
  9 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
  7 16  1  0  0  0  0
  2 16  1  0  0  0  0
 16 17  1  6  0  0  0
 13 17  1  6  0  0  0
M  END
> <DATABASE_ID>
NP0274508

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CC1(C)CCC[C@@H]2C=C([C@H]3CC[C@@]12C3)C(O)=O

> <INCHI_IDENTIFIER>
InChI=1S/C15H22O2/c1-14(2)6-3-4-11-8-12(13(16)17)10-5-7-15(11,14)9-10/h8,10-11H,3-7,9H2,1-2H3,(H,16,17)/t10-,11+,15-/m0/s1

> <INCHI_KEY>
KXVCZWQOMYHQSO-RWSFTLGLSA-N

> <FORMULA>
C15H22O2

> <MOLECULAR_WEIGHT>
234.339

> <EXACT_MASS>
234.161979948

> <JCHEM_ACCEPTOR_COUNT>
2

> <JCHEM_ATOM_COUNT>
39

> <JCHEM_AVERAGE_POLARIZABILITY>
26.781115825378244

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(1S,6R,9S)-2,2-dimethyltricyclo[7.2.1.0^{1,6}]dodec-7-ene-8-carboxylic acid

> <JCHEM_LOGP>
3.4504003539999997

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-1

> <JCHEM_PKA_STRONGEST_ACIDIC>
4.942111312640795

> <JCHEM_POLAR_SURFACE_AREA>
37.3

> <JCHEM_REFRACTIVITY>
67.464

> <JCHEM_ROTATABLE_BOND_COUNT>
1

> <JCHEM_RULE_OF_FIVE>
1

> <JCHEM_TRADITIONAL_IUPAC>
(1S,6R,9S)-2,2-dimethyltricyclo[7.2.1.0^{1,6}]dodec-7-ene-8-carboxylic acid

> <JCHEM_VEBER_RULE>
1

$$$$

HEADER    PROTEIN                                 08-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   08-SEP-22         0                                  
HETATM    1  C   UNK     0       5.965   4.380   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       5.523   2.905   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       4.165   3.631   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       7.074   2.762   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       7.715   1.354   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       6.830   0.086   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       5.279   0.223   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       4.502  -1.201   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       2.907  -1.128   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       2.083  -2.429   0.000  0.00  0.00           C+0
HETATM   11  O   UNK     0       2.798  -3.793   0.000  0.00  0.00           O+0
HETATM   12  O   UNK     0       0.544  -2.366   0.000  0.00  0.00           O+0
HETATM   13  C   UNK     0       2.148   0.303   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       1.787   1.878   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       3.188   2.714   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       4.509   1.678   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       3.379   0.935   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3    4   16                                             
CONECT    3    2                                                            
CONECT    4    2    5                                                       
CONECT    5    4    6                                                       
CONECT    6    5    7                                                       
CONECT    7    6    8   16                                                  
CONECT    8    7    9                                                       
CONECT    9    8   10   13                                                  
CONECT   10    9   11   12                                                  
CONECT   11   10                                                            
CONECT   12   10                                                            
CONECT   13    9   14   17                                                  
CONECT   14   13   15                                                       
CONECT   15   14   16                                                       
CONECT   16   15    7    2   17                                             
CONECT   17   16   13                                                       
MASTER        0    0    0    0    0    0    0    0   17    0   38    0
END

View in JSmol

Synonyms

Value	Source
Omphalate	Generator

Chemical Formula

C₁₅H₂₂O₂

Average Mass

234.3390 Da

Monoisotopic Mass

234.16198 Da

IUPAC Name

(1S,6R,9S)-2,2-dimethyltricyclo[7.2.1.0^{1,6}]dodec-7-ene-8-carboxylic acid

Traditional Name

(1S,6R,9S)-2,2-dimethyltricyclo[7.2.1.0^{1,6}]dodec-7-ene-8-carboxylic acid

CAS Registry Number

Not Available

SMILES

CC1(C)CCC[C@@H]2C=C([C@H]3CC[C@@]12C3)C(O)=O

InChI Identifier

InChI=1S/C15H22O2/c1-14(2)6-3-4-11-8-12(13(16)17)10-5-7-15(11,14)9-10/h8,10-11H,3-7,9H2,1-2H3,(H,16,17)/t10-,11+,15-/m0/s1

InChI Key

KXVCZWQOMYHQSO-RWSFTLGLSA-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
Cheilolejeunea filiformis	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as carboxylic acids. Carboxylic acids are compounds containing a carboxylic acid group with the formula -C(=O)OH.

Kingdom

Organic compounds

Super Class

Organic acids and derivatives

Class

Carboxylic acids and derivatives

Sub Class

Carboxylic acids

Direct Parent

Carboxylic acids

Alternative Parents

Substituents

Monocarboxylic acid or derivatives
Carboxylic acid
Organic oxygen compound
Organic oxide
Hydrocarbon derivative
Organooxygen compound
Carbonyl group
Aliphatic homopolycyclic compound

Molecular Framework

Aliphatic homopolycyclic 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	3.45	ChemAxon
pKa (Strongest Acidic)	4.94	ChemAxon
Physiological Charge	-1	ChemAxon
Hydrogen Acceptor Count	2	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	37.3 Å²	ChemAxon
Rotatable Bond Count	1	ChemAxon
Refractivity	67.46 m³·mol⁻¹	ChemAxon
Polarizability	26.78 Å³	ChemAxon
Number of Rings	3	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	Yes	ChemAxon
Veber's Rule	Yes	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

101558912

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Ghosh S, Erchinger JE, Maji R, List B: Catalytic Asymmetric Spirocyclizing Diels-Alder Reactions of Enones: Stereoselective Total and Formal Syntheses of alpha-Chamigrene, beta-Chamigrene, Laurencenone C, Colletoic Acid, and Omphalic Acid. J Am Chem Soc. 2022 Apr 20;144(15):6703-6708. doi: 10.1021/jacs.2c01971. Epub 2022 Apr 7. [PubMed:35389217 ]
Chen R, Qiu D, Lei X, Niu Y, Hua Y, Peng H, Zeng T, Zhang Y: Total Synthesis and Assignment of the Absolute Configuration of (+)-Omphalic Acid. Org Lett. 2021 Sep 3;23(17):6972-6976. doi: 10.1021/acs.orglett.1c02599. Epub 2021 Aug 16. [PubMed:34397211 ]
Diaz-Marrero AR, de la Rosa JM, Brito I, Darias J, Cueto M: Dactylomelatriol, a biogenetically intriguing omphalane-derived marine sesquiterpene. J Nat Prod. 2012 Jan 27;75(1):115-8. doi: 10.1021/np200845f. Epub 2012 Jan 5. [PubMed:22220686 ]
LOTUS database [Link]

Showing NP-Card for (1s,6r,9s)-2,2-dimethyltricyclo[7.2.1.0¹,⁶]dodec-7-ene-8-carboxylic acid (NP0274508)

MOL for NP0274508 ((1s,6r,9s)-2,2-dimethyltricyclo[7.2.1.0¹,⁶]dodec-7-ene-8-carboxylic acid)

3D MOL for NP0274508 ((1s,6r,9s)-2,2-dimethyltricyclo[7.2.1.0¹,⁶]dodec-7-ene-8-carboxylic acid)

3D SDF for NP0274508 ((1s,6r,9s)-2,2-dimethyltricyclo[7.2.1.0¹,⁶]dodec-7-ene-8-carboxylic acid)

3D-SDF for NP0274508 ((1s,6r,9s)-2,2-dimethyltricyclo[7.2.1.0¹,⁶]dodec-7-ene-8-carboxylic acid)

PDB for NP0274508 ((1s,6r,9s)-2,2-dimethyltricyclo[7.2.1.0¹,⁶]dodec-7-ene-8-carboxylic acid)

3D PDB for NP0274508 ((1s,6r,9s)-2,2-dimethyltricyclo[7.2.1.0¹,⁶]dodec-7-ene-8-carboxylic acid)

SMILES for NP0274508 ((1s,6r,9s)-2,2-dimethyltricyclo[7.2.1.0¹,⁶]dodec-7-ene-8-carboxylic acid)

INCHI for NP0274508 ((1s,6r,9s)-2,2-dimethyltricyclo[7.2.1.0¹,⁶]dodec-7-ene-8-carboxylic acid)

Structure for NP0274508 ((1s,6r,9s)-2,2-dimethyltricyclo[7.2.1.0¹,⁶]dodec-7-ene-8-carboxylic acid)

3D Structure for NP0274508 ((1s,6r,9s)-2,2-dimethyltricyclo[7.2.1.0¹,⁶]dodec-7-ene-8-carboxylic acid)