NP-MRD: Showing NP-Card for Axiplyn E (NP0081955)

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Record Information

Version

2.0

Created at

2022-04-29 03:00:53 UTC

Updated at

2022-04-29 03:00:53 UTC

NP-MRD ID

NP0081955

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Axiplyn E

Description

(1S,2S,5S,6S,8R,9R,11R)-5-isothiocyanato-5,9-dimethyl-2-(propan-2-yl)-10-oxatricyclo[6.2.1.0¹,⁶]Undecane-9,11-diol belongs to the class of organic compounds known as sesquiterpenoids. These are terpenes with three consecutive isoprene units. Axiplyn E is found in Axinyssa aplysinoides. Based on a literature review very few articles have been published on (1S,2S,5S,6S,8R,9R,11R)-5-isothiocyanato-5,9-dimethyl-2-(propan-2-yl)-10-oxatricyclo[6.2.1.0¹,⁶]Undecane-9,11-diol.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 46 48  0  0  0  0  0  0  0  0999 V2000
   -0.6736    3.6910    0.8636 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7462    2.4532   -0.0566 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.1394    2.7372   -1.1959 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3824    1.2813    0.8126 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.0181    1.4707    1.3679 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0817    0.7756    0.6222 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.7392   -0.5753    0.0912 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.7626   -1.6134    0.5866 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9510   -0.5363   -1.3648 N   0  0  0  0  0  0  0  0  0  0  0  0
    3.1295   -0.6915   -1.8452 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.7163   -0.6665   -2.2041 S   0  0  0  0  0  0  0  0  0  0  0  0
    0.4015   -1.0889    0.4655 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.0204   -2.1951   -0.5276 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3953   -1.7896   -0.8801 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.1472   -0.2726   -1.0548 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.2409    0.3988   -1.4693 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7133   -0.0543    0.3544 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.7949   -0.6454    1.0597 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1877   -1.7655    0.3840 C   0  0  2  0  0  0  0  0  0  0  0  0
   -2.0899   -3.0428    1.1705 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5599   -1.6367    0.0569 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7263    3.4098    1.9164 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4719    4.4123    0.6183 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.2892    4.2358    0.6982 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7995    2.4117   -0.3674 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4783    3.2417   -1.9976 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.6600    1.9262   -1.6776 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.9185    3.5135   -0.9462 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0217    1.4704    1.7412 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.2226    2.5558    1.3812 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.0849    1.1488    2.4491 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.4724    1.4719   -0.1790 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.9717    0.6790    1.3158 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.4493   -2.6174    0.2202 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.6543   -1.6175    1.6888 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.7856   -1.3404    0.2844 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.4423   -1.4636    1.5013 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.6247   -2.0795   -1.4622 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1079   -3.1901   -0.1029 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8236   -2.2559   -1.7353 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3636   -0.2258   -1.8140 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0219    0.4205   -0.9037 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4089   -3.8664    0.4767 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8053   -3.0410    1.9971 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1025   -3.2956    1.5345 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6883   -2.1380   -0.7711 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  1
  7  9  1  0
  9 10  2  0
 10 11  2  0
  7 12  1  0
 12 13  1  0
 13 14  1  0
 14 15  1  0
 15 16  1  0
 15 17  1  0
 17 18  1  1
 18 19  1  0
 19 20  1  0
 19 21  1  6
 17  4  1  0
 17 12  1  0
 19 14  1  0
  1 22  1  0
  1 23  1  0
  1 24  1  0
  2 25  1  6
  3 26  1  0
  3 27  1  0
  3 28  1  0
  4 29  1  1
  5 30  1  0
  5 31  1  0
  6 32  1  0
  6 33  1  0
  8 34  1  0
  8 35  1  0
  8 36  1  0
 12 37  1  1
 13 38  1  0
 13 39  1  0
 14 40  1  6
 15 41  1  6
 16 42  1  0
 20 43  1  0
 20 44  1  0
 20 45  1  0
 21 46  1  0
M  END


  Mrv1652304292205002D          

 21 23  0  0  1  0            999 V2000
    2.1749    0.1816    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.6270   -0.5354    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.5048   -0.5497    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    3.9591    0.1526    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5675    0.8777    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.7314    0.8677    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.3720    1.6103    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8355    2.2928    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5492    1.6704    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5093   -1.3747    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.1876   -1.0128    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    4.9300   -0.6529    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.6724   -0.2931    0.0000 S   0  0  0  0  0  0  0  0  0  0  0  0
    1.9755   -1.0791    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2307   -0.5990    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.9571    0.4334    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.7186    0.8582    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.1379    0.3352    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.4586    1.0907    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2055   -0.0454    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.2215    0.7794    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
  1  6  1  0  0  0  0
  6  7  1  6  0  0  0
  7  8  1  0  0  0  0
  7  9  1  0  0  0  0
  3 10  1  1  0  0  0
  3 11  1  6  0  0  0
 11 12  2  0  0  0  0
 12 13  2  0  0  0  0
  2 14  1  6  0  0  0
 15 14  1  1  0  0  0
 15 16  1  0  0  0  0
 16 17  1  0  0  0  0
  1 17  1  1  0  0  0
 16 18  1  6  0  0  0
 16 19  1  1  0  0  0
 15 20  1  0  0  0  0
  1 20  1  0  0  0  0
 20 21  1  1  0  0  0
M  END
> <DATABASE_ID>
NP0081955

> <DATABASE_NAME>
NP-MRD

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

> <INCHI_IDENTIFIER>
InChI=1S/C16H25NO3S/c1-9(2)10-5-6-14(3,17-8-21)12-7-11-13(18)16(10,12)20-15(11,4)19/h9-13,18-19H,5-7H2,1-4H3/t10-,11+,12-,13+,14-,15+,16-/m0/s1

> <INCHI_KEY>
APGMRVREUPWQPH-GXADJQQRSA-N

> <FORMULA>
C16H25NO3S

> <MOLECULAR_WEIGHT>
311.44

> <EXACT_MASS>
311.155514843

> <JCHEM_ACCEPTOR_COUNT>
4

> <JCHEM_ATOM_COUNT>
46

> <JCHEM_AVERAGE_POLARIZABILITY>
34.105042730996686

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(1S,2S,5S,6S,8R,9R,11R)-5-isothiocyanato-5,9-dimethyl-2-(propan-2-yl)-10-oxatricyclo[6.2.1.0^{1,6}]undecane-9,11-diol

> <ALOGPS_LOGP>
2.80

> <JCHEM_LOGP>
2.650903405666666

> <ALOGPS_LOGS>
-3.96

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
13.712228389994642

> <JCHEM_PKA_STRONGEST_ACIDIC>
11.961377970300111

> <JCHEM_PKA_STRONGEST_BASIC>
-3.4156609986534896

> <JCHEM_POLAR_SURFACE_AREA>
62.05

> <JCHEM_REFRACTIVITY>
84.00280000000002

> <JCHEM_ROTATABLE_BOND_COUNT>
2

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
3.44e-02 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(1S,2S,5S,6S,8R,9R,11R)-2-isopropyl-5-isothiocyanato-5,9-dimethyl-10-oxatricyclo[6.2.1.0^{1,6}]undecane-9,11-diol

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 29-APR-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   29-APR-22         0                                  
HETATM    1  C   UNK     0       4.060   0.339   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       4.904  -0.999   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       6.542  -1.026   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       7.390   0.285   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       6.659   1.638   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       5.099   1.620   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       4.428   3.006   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       5.293   4.280   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       2.892   3.118   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       6.551  -2.566   0.000  0.00  0.00           C+0
HETATM   11  N   UNK     0       7.817  -1.890   0.000  0.00  0.00           N+0
HETATM   12  C   UNK     0       9.203  -1.219   0.000  0.00  0.00           C+0
HETATM   13  S   UNK     0      10.588  -0.547   0.000  0.00  0.00           S+0
HETATM   14  C   UNK     0       3.688  -2.014   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       2.297  -1.118   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       1.787   0.809   0.000  0.00  0.00           C+0
HETATM   17  O   UNK     0       3.208   1.602   0.000  0.00  0.00           O+0
HETATM   18  O   UNK     0       0.257   0.626   0.000  0.00  0.00           O+0
HETATM   19  C   UNK     0       0.856   2.036   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0       2.250  -0.085   0.000  0.00  0.00           C+0
HETATM   21  O   UNK     0       2.280   1.455   0.000  0.00  0.00           O+0
CONECT    1    2    6   17   20                                             
CONECT    2    1    3   14                                                  
CONECT    3    2    4   10   11                                             
CONECT    4    3    5                                                       
CONECT    5    4    6                                                       
CONECT    6    5    1    7                                                  
CONECT    7    6    8    9                                                  
CONECT    8    7                                                            
CONECT    9    7                                                            
CONECT   10    3                                                            
CONECT   11    3   12                                                       
CONECT   12   11   13                                                       
CONECT   13   12                                                            
CONECT   14    2   15                                                       
CONECT   15   14   16   20                                                  
CONECT   16   15   17   18   19                                             
CONECT   17   16    1                                                       
CONECT   18   16                                                            
CONECT   19   16                                                            
CONECT   20   15    1   21                                                  
CONECT   21   20                                                            
MASTER        0    0    0    0    0    0    0    0   21    0   46    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₆H₂₅NO₃S

Average Mass

311.4400 Da

Monoisotopic Mass

311.15551 Da

IUPAC Name

(1S,2S,5S,6S,8R,9R,11R)-5-isothiocyanato-5,9-dimethyl-2-(propan-2-yl)-10-oxatricyclo[6.2.1.0^{1,6}]undecane-9,11-diol

Traditional Name

(1S,2S,5S,6S,8R,9R,11R)-2-isopropyl-5-isothiocyanato-5,9-dimethyl-10-oxatricyclo[6.2.1.0^{1,6}]undecane-9,11-diol

CAS Registry Number

Not Available

SMILES

CC(C)[C@@H]1CC[C@](C)(N=C=S)[C@@H]2C[C@@H]3[C@@H](O)[C@]12O[C@@]3(C)O

InChI Identifier

InChI=1S/C16H25NO3S/c1-9(2)10-5-6-14(3,17-8-21)12-7-11-13(18)16(10,12)20-15(11,4)19/h9-13,18-19H,5-7H2,1-4H3/t10-,11+,12-,13+,14-,15+,16-/m0/s1

InChI Key

APGMRVREUPWQPH-GXADJQQRSA-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
Axinyssa aplysinoides	Animalia	KNApSAcK

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as sesquiterpenoids. These are terpenes with three consecutive isoprene units.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Prenol lipids

Sub Class

Sesquiterpenoids

Direct Parent

Sesquiterpenoids

Alternative Parents

Substituents

Sesquiterpenoid
Monosaccharide
Oxane
Cyclic alcohol
Tetrahydrofuran
Hemiacetal
Isothiocyanate
Secondary alcohol
Oxacycle
Propargyl-type 1,3-dipolar organic compound
Organic 1,3-dipolar compound
Organoheterocyclic compound
Hydrocarbon derivative
Organic nitrogen compound
Organopnictogen compound
Organosulfur compound
Organooxygen compound
Organonitrogen compound
Organic oxygen compound
Alcohol
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	2.8	ALOGPS
logP	2.65	ChemAxon
logS	-4	ALOGPS
pKa (Strongest Acidic)	11.96	ChemAxon
pKa (Strongest Basic)	-3.4	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	4	ChemAxon
Hydrogen Donor Count	2	ChemAxon
Polar Surface Area	62.05 Å²	ChemAxon
Rotatable Bond Count	2	ChemAxon
Refractivity	84 m³·mol⁻¹	ChemAxon
Polarizability	34.11 Å³	ChemAxon
Number of Rings	3	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

29213843

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

163028801

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Showing NP-Card for Axiplyn E (NP0081955)

MOL for NP0081955 (Axiplyn E)

3D MOL for NP0081955 (Axiplyn E)

3D SDF for NP0081955 (Axiplyn E)

3D-SDF for NP0081955 (Axiplyn E)

PDB for NP0081955 (Axiplyn E)

3D PDB for NP0081955 (Axiplyn E)

SMILES for NP0081955 (Axiplyn E)

INCHI for NP0081955 (Axiplyn E)

Structure for NP0081955 (Axiplyn E)

3D Structure for NP0081955 (Axiplyn E)