NP-MRD: Showing NP-Card for Kobusine (NP0067210)

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Record Information

Version

2.0

Created at

2022-04-28 11:36:58 UTC

Updated at

2022-04-28 11:36:58 UTC

NP-MRD ID

NP0067210

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Kobusine

Description

Kobusine is found in Aconitum sachalinense Fr.Schmidt(Saglalien), Aconitum talassicum, Aconitum vesoense var. macroyesoense and Delphinium davisii.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 50 56  0  0  0  0  0  0  0  0999 V2000
    4.6910    0.8267    0.0100 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4121    0.5277    0.0474 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.5977    0.1743   -1.1496 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.9975   -1.1843   -0.8858 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1452   -1.2213    0.3643 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.3595   -1.2671   -0.0762 C   0  0  1  0  0  0  0  0  0  0  0  0
   -0.9657   -1.6917    1.1992 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4596   -1.6694    1.2298 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6623   -0.7799    0.1482 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.6413   -1.6710   -0.9853 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6447    0.2074   -0.2802 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8610    0.9039   -1.4193 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3868    0.7159   -1.4934 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6143    0.1066   -0.4055 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.5967    0.9769   -0.0179 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.4818    1.2261   -1.2138 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.1053    2.4581   -0.9961 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.2527    0.1255    1.0104 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.3498    0.1393    2.2088 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9579   -0.3594    1.8567 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.6719    0.2164    0.6717 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.6449    0.5191    1.3485 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.6133    1.7956    1.9132 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.2047    0.8217   -0.9413 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.1925    1.0698    0.9377 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.1708    0.1186   -2.0704 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.3607   -1.4280   -1.7716 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.8431   -1.9011   -0.8216 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.3804   -2.0663    1.0124 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2335   -2.0386   -0.8215 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8412   -1.3764    2.2032 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7212   -2.7635    1.1405 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7544   -1.8817   -1.2220 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4341   -2.7834   -0.8062 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2586   -1.4838   -1.9558 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9670    0.8920    0.4932 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.5626   -0.2224   -0.7422 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2185    1.9609   -1.3599 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2745    0.5493   -2.4129 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0292    0.4412   -2.5382 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0094    1.8002   -1.5300 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1901    1.9145    0.3730 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.9403    1.1876   -2.1603 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.3518    2.9043   -1.8423 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.8012   -0.4926    2.9875 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.2926    1.1544    2.5871 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6046   -0.3863    2.7835 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9039    1.2311    0.8110 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.0834   -0.2374    2.0097 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.3381    1.9408    2.5724 H   0  0  0  0  0  0  0  0  0  0  0  0
  9 10  1  6
  9  8  1  0
  8  7  1  0
  7 20  1  0
 20 19  1  0
 18 19  1  1
 18  5  1  0
  5  4  1  0
  4  3  1  0
  3 16  1  0
 16 17  1  0
 16 15  1  0
 15 14  1  0
 14 13  1  6
 13 12  1  0
 12 11  1  0
 14  6  1  0
 14 21  1  0
  3  2  1  0
  2  1  2  3
  2 22  1  0
 22 23  1  0
 11  9  1  0
 21  9  1  0
  6  7  1  0
 21 20  1  0
 15 18  1  0
 22 18  1  0
  6  5  1  0
 10 33  1  0
 10 34  1  0
 10 35  1  0
  8 31  1  0
  8 32  1  0
 20 47  1  1
 19 45  1  0
 19 46  1  0
  5 29  1  1
  4 27  1  0
  4 28  1  0
  3 26  1  6
 16 43  1  6
 17 44  1  0
 15 42  1  1
 13 40  1  0
 13 41  1  0
 12 38  1  0
 12 39  1  0
 11 36  1  0
 11 37  1  0
  6 30  1  6
 21 48  1  1
  1 24  1  0
  1 25  1  0
 22 49  1  1
 23 50  1  0
M  END


  Mrv1652304282213372D          

 23 29  0  0  1  0            999 V2000
    5.5936    0.3634    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.1956    1.0998    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    5.1303    1.9677    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.3824    2.3429    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7177    1.8333    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7935    0.9482    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    4.4814    0.7044    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    4.3495   -0.2707    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.6805   -0.7145    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.9829   -0.2769    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    3.0350    0.7845    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.3357    1.2546    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.6368    0.8273    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.4234   -0.0016    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.6491   -0.2865    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1580   -0.5190    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.0232   -1.3329    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.9663    0.0845    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8503    0.1712    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.8228    0.0511    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    4.9061   -0.1728    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    2.3535    2.0794    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.9873    1.3320    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
  6  5  1  1  0  0  0
  7  6  1  1  0  0  0
  2  7  1  0  0  0  0
  7  8  1  0  0  0  0
  8  9  1  1  0  0  0
 10  9  1  6  0  0  0
 11 10  1  1  0  0  0
  6 11  1  0  0  0  0
 11 12  1  0  0  0  0
 12 13  1  0  0  0  0
 13 14  1  0  0  0  0
 14 15  2  0  0  0  0
 14 16  1  0  0  0  0
 10 16  1  0  0  0  0
 16 17  1  6  0  0  0
 13 18  1  1  0  0  0
 19 18  1  6  0  0  0
 10 19  1  0  0  0  0
 19 20  1  0  0  0  0
  6 20  1  0  0  0  0
 20 21  1  6  0  0  0
  1 21  1  0  0  0  0
  8 21  1  0  0  0  0
 12 22  1  6  0  0  0
  2 23  1  1  0  0  0
M  END
> <DATABASE_ID>
NP0067210

> <DATABASE_NAME>
NP-MRD

> <SMILES>
C[C@]12CN3[C@H]4C[C@@]56[C@@H]7C[C@@H]([C@H](O)[C@H]5[C@@](CCC1)([C@H]37)[C@@H]24)C(=C)[C@H]6O

> <INCHI_IDENTIFIER>
InChI=1S/C20H27NO2/c1-9-10-6-11-16-19-5-3-4-18(2)8-21(16)12(14(18)19)7-20(11,17(9)23)15(19)13(10)22/h10-17,22-23H,1,3-8H2,2H3/t10-,11-,12+,13+,14-,15+,16-,17-,18-,19+,20+/m1/s1

> <INCHI_KEY>
SYQIMSBCRURKCZ-OVKQLHJPSA-N

> <FORMULA>
C20H27NO2

> <MOLECULAR_WEIGHT>
313.441

> <EXACT_MASS>
313.204179113

> <JCHEM_ACCEPTOR_COUNT>
3

> <JCHEM_ATOM_COUNT>
50

> <JCHEM_AVERAGE_POLARIZABILITY>
40.052145377778686

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(1S,5S,8R,9S,11R,13R,14R,16S,17R,18S,19S)-5-methyl-12-methylidene-7-azaheptacyclo[9.6.2.0^{1,8}.0^{5,17}.0^{7,16}.0^{9,14}.0^{14,18}]nonadecane-13,19-diol

> <ALOGPS_LOGP>
1.17

> <JCHEM_LOGP>
0.6926554010000006

> <ALOGPS_LOGS>
-2.13

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
7

> <JCHEM_PHYSIOLOGICAL_CHARGE>
1

> <JCHEM_PKA>
14.722010538189284

> <JCHEM_PKA_STRONGEST_ACIDIC>
13.992143447470955

> <JCHEM_PKA_STRONGEST_BASIC>
9.318867982705632

> <JCHEM_POLAR_SURFACE_AREA>
43.7

> <JCHEM_REFRACTIVITY>
86.67869999999999

> <JCHEM_ROTATABLE_BOND_COUNT>
0

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
2.33e+00 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(1S,5S,8R,9S,11R,13R,14R,16S,17R,18S,19S)-5-methyl-12-methylidene-7-azaheptacyclo[9.6.2.0^{1,8}.0^{5,17}.0^{7,16}.0^{9,14}.0^{14,18}]nonadecane-13,19-diol

> <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      10.441   0.678   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       9.699   2.053   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       9.576   3.673   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       8.180   4.373   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       6.940   3.422   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       7.081   1.770   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       8.365   1.315   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       8.119  -0.505   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       6.870  -1.334   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       5.568  -0.517   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       5.665   1.464   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       4.360   2.342   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       3.055   1.544   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       2.657  -0.003   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       1.212  -0.535   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       4.028  -0.969   0.000  0.00  0.00           C+0
HETATM   17  O   UNK     0       3.777  -2.488   0.000  0.00  0.00           O+0
HETATM   18  C   UNK     0       3.670   0.158   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       5.321   0.319   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0       7.136   0.095   0.000  0.00  0.00           C+0
HETATM   21  N   UNK     0       9.158  -0.323   0.000  0.00  0.00           N+0
HETATM   22  O   UNK     0       4.393   3.882   0.000  0.00  0.00           O+0
HETATM   23  C   UNK     0      11.176   2.486   0.000  0.00  0.00           C+0
CONECT    1    2   21                                                       
CONECT    2    1    3    7   23                                             
CONECT    3    2    4                                                       
CONECT    4    3    5                                                       
CONECT    5    4    6                                                       
CONECT    6    5    7   11   20                                             
CONECT    7    6    2    8                                                  
CONECT    8    7    9   21                                                  
CONECT    9    8   10                                                       
CONECT   10    9   11   16   19                                             
CONECT   11   10    6   12                                                  
CONECT   12   11   13   22                                                  
CONECT   13   12   14   18                                                  
CONECT   14   13   15   16                                                  
CONECT   15   14                                                            
CONECT   16   14   10   17                                                  
CONECT   17   16                                                            
CONECT   18   13   19                                                       
CONECT   19   18   10   20                                                  
CONECT   20   19    6   21                                                  
CONECT   21   20    1    8                                                  
CONECT   22   12                                                            
CONECT   23    2                                                            
MASTER        0    0    0    0    0    0    0    0   23    0   58    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₂₀H₂₇NO₂

Average Mass

313.4410 Da

Monoisotopic Mass

313.20418 Da

IUPAC Name

(1S,5S,8R,9S,11R,13R,14R,16S,17R,18S,19S)-5-methyl-12-methylidene-7-azaheptacyclo[9.6.2.0^{1,8}.0^{5,17}.0^{7,16}.0^{9,14}.0^{14,18}]nonadecane-13,19-diol

Traditional Name

(1S,5S,8R,9S,11R,13R,14R,16S,17R,18S,19S)-5-methyl-12-methylidene-7-azaheptacyclo[9.6.2.0^{1,8}.0^{5,17}.0^{7,16}.0^{9,14}.0^{14,18}]nonadecane-13,19-diol

CAS Registry Number

Not Available

SMILES

C[C@]12CN3[C@H]4C[C@@]56[C@@H]7C[C@@H]([C@H](O)[C@H]5[C@@](CCC1)([C@H]37)[C@@H]24)C(=C)[C@H]6O

InChI Identifier

InChI=1S/C20H27NO2/c1-9-10-6-11-16-19-5-3-4-18(2)8-21(16)12(14(18)19)7-20(11,17(9)23)15(19)13(10)22/h10-17,22-23H,1,3-8H2,2H3/t10-,11-,12+,13+,14-,15+,16-,17-,18-,19+,20+/m1/s1

InChI Key

SYQIMSBCRURKCZ-OVKQLHJPSA-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
Aconitum sachalinense Fr.Schmidt(Saglalien)	Plant	KNApSAcK
Aconitum talassicum	Plant	KNApSAcK
Aconitum vesoense var. macroyesoense	Plant	KNApSAcK
Delphinium davisii	Plant	KNApSAcK

Chemical Taxonomy

Classification

Not classified

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	1.17	ALOGPS
logP	0.69	ChemAxon
logS	-2.1	ALOGPS
pKa (Strongest Acidic)	13.99	ChemAxon
pKa (Strongest Basic)	9.32	ChemAxon
Physiological Charge	1	ChemAxon
Hydrogen Acceptor Count	3	ChemAxon
Hydrogen Donor Count	2	ChemAxon
Polar Surface Area	43.7 Å²	ChemAxon
Rotatable Bond Count	0	ChemAxon
Refractivity	86.68 m³·mol⁻¹	ChemAxon
Polarizability	40.05 Å³	ChemAxon
Number of Rings	7	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

Not Available

References

General References

Not Available

Showing NP-Card for Kobusine (NP0067210)

MOL for NP0067210 (Kobusine)

3D MOL for NP0067210 (Kobusine)

3D SDF for NP0067210 (Kobusine)

3D-SDF for NP0067210 (Kobusine)

PDB for NP0067210 (Kobusine)

3D PDB for NP0067210 (Kobusine)

SMILES for NP0067210 (Kobusine)

INCHI for NP0067210 (Kobusine)

Structure for NP0067210 (Kobusine)

3D Structure for NP0067210 (Kobusine)