NP-MRD: Showing NP-Card for (-)-Paniculatumoside A (NP0079245)

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Record Information

Version

2.0

Created at

2022-04-29 00:16:55 UTC

Updated at

2022-04-29 00:16:56 UTC

NP-MRD ID

NP0079245

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(-)-Paniculatumoside A

Description

(-)-Paniculatumoside A is found in Cynanchum paniculatum.

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1652304292202162D          

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M  END

     RDKit          3D

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  Mrv1652304292202162D          

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  3  4  1  0  0  0  0
  4  5  2  0  0  0  0
  5  6  1  0  0  0  0
  6  7  1  0  0  0  0
  7  8  1  0  0  0  0
  8  9  1  0  0  0  0
  4  9  1  0  0  0  0
  9 10  1  0  0  0  0
  1 10  1  0  0  0  0
  9 11  1  6  0  0  0
  8 12  1  6  0  0  0
 12 13  1  0  0  0  0
 13 14  2  0  0  0  0
 15 14  1  6  0  0  0
 15 16  1  0  0  0  0
 16 17  1  0  0  0  0
 17 18  1  0  0  0  0
  7 18  1  1  0  0  0
 18 19  2  0  0  0  0
 16 20  1  6  0  0  0
 20 21  1  0  0  0  0
 21 22  1  0  0  0  0
 15 22  1  0  0  0  0
 22 23  1  0  0  0  0
 23 24  1  0  0  0  0
 14 24  1  0  0  0  0
 24 25  1  6  0  0  0
 22 26  1  1  0  0  0
  6 27  1  1  0  0  0
  2 28  1  6  0  0  0
 29 28  1  6  0  0  0
 29 30  1  0  0  0  0
 30 31  1  0  0  0  0
 31 32  1  0  0  0  0
 32 33  1  0  0  0  0
 33 34  1  0  0  0  0
 29 34  1  0  0  0  0
 33 35  1  6  0  0  0
 35 36  1  0  0  0  0
 32 37  1  1  0  0  0
 31 38  1  6  0  0  0
M  END
> <DATABASE_ID>
NP0079245

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CO[C@@H]1C[C@H](O[C@H]2CC[C@]3(C)[C@H]4C\C=C5\[C@@H](O)O[C@@]6(C)OC[C@@H](OC(=O)[C@@H]4[C@H](O)C=C3C2)[C@@H]56)O[C@H](C)[C@H]1O

> <INCHI_IDENTIFIER>
InChI=1S/C28H40O10/c1-13-24(30)19(33-4)11-21(35-13)36-15-7-8-27(2)14(9-15)10-18(29)22-17(27)6-5-16-23-20(37-26(22)32)12-34-28(23,3)38-25(16)31/h5,10,13,15,17-25,29-31H,6-9,11-12H2,1-4H3/b16-5+/t13-,15+,17+,18-,19-,20-,21+,22+,23-,24-,25+,27+,28-/m1/s1

> <INCHI_KEY>
NAKHVZIFCGVCRS-GKSKKHRFSA-N

> <FORMULA>
C28H40O10

> <MOLECULAR_WEIGHT>
536.618

> <EXACT_MASS>
536.262147488

> <JCHEM_ACCEPTOR_COUNT>
9

> <JCHEM_ATOM_COUNT>
78

> <JCHEM_AVERAGE_POLARIZABILITY>
56.8900253146791

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(1Z,4S,5R,8S,12R,13S,16S,19R,21S,22R)-12,21-dihydroxy-8-{[(2R,4R,5R,6R)-5-hydroxy-4-methoxy-6-methyloxan-2-yl]oxy}-5,19-dimethyl-15,18,20-trioxapentacyclo[14.5.1.0^{4,13}.0^{5,10}.0^{19,22}]docosa-1,10-dien-14-one

> <ALOGPS_LOGP>
1.03

> <JCHEM_LOGP>
1.3237549109999982

> <ALOGPS_LOGS>
-3.10

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
6

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
13.196291404461562

> <JCHEM_PKA_STRONGEST_ACIDIC>
11.74936109546684

> <JCHEM_PKA_STRONGEST_BASIC>
-3.1034756049862287

> <JCHEM_POLAR_SURFACE_AREA>
133.14000000000001

> <JCHEM_REFRACTIVITY>
133.49009999999998

> <JCHEM_ROTATABLE_BOND_COUNT>
3

> <JCHEM_RULE_OF_FIVE>
0

> <ALOGPS_SOLUBILITY>
4.31e-01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(1Z,4S,5R,8S,12R,13S,16S,19R,21S,22R)-12,21-dihydroxy-8-{[(2R,4R,5R,6R)-5-hydroxy-4-methoxy-6-methyloxan-2-yl]oxy}-5,19-dimethyl-15,18,20-trioxapentacyclo[14.5.1.0^{4,13}.0^{5,10}.0^{19,22}]docosa-1,10-dien-14-one

> <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      10.154   2.181   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      11.067   0.941   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0      10.450  -0.470   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       8.920  -0.641   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       8.303  -2.052   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       6.772  -2.223   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       5.859  -0.983   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       6.476   0.428   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       8.006   0.599   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       8.623   2.010   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       7.093   1.839   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       6.041   1.905   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       4.759   2.758   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       3.228   2.586   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       2.166   1.472   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       2.069  -0.065   0.000  0.00  0.00           C+0
HETATM   17  O   UNK     0       2.982  -1.305   0.000  0.00  0.00           O+0
HETATM   18  C   UNK     0       4.479  -1.668   0.000  0.00  0.00           C+0
HETATM   19  O   UNK     0       4.650  -3.198   0.000  0.00  0.00           O+0
HETATM   20  C   UNK     0       0.577  -0.448   0.000  0.00  0.00           C+0
HETATM   21  O   UNK     0      -0.248   0.853   0.000  0.00  0.00           O+0
HETATM   22  C   UNK     0       0.734   2.039   0.000  0.00  0.00           C+0
HETATM   23  O   UNK     0       0.832   3.576   0.000  0.00  0.00           O+0
HETATM   24  C   UNK     0       2.323   3.958   0.000  0.00  0.00           C+0
HETATM   25  O   UNK     0       2.878   5.395   0.000  0.00  0.00           O+0
HETATM   26  C   UNK     0      -0.697   2.606   0.000  0.00  0.00           C+0
HETATM   27  O   UNK     0       6.155  -3.634   0.000  0.00  0.00           O+0
HETATM   28  O   UNK     0      12.598   1.112   0.000  0.00  0.00           O+0
HETATM   29  C   UNK     0      13.214   2.523   0.000  0.00  0.00           C+0
HETATM   30  O   UNK     0      12.301   3.763   0.000  0.00  0.00           O+0
HETATM   31  C   UNK     0      12.918   5.174   0.000  0.00  0.00           C+0
HETATM   32  C   UNK     0      14.448   5.345   0.000  0.00  0.00           C+0
HETATM   33  C   UNK     0      15.362   4.106   0.000  0.00  0.00           C+0
HETATM   34  C   UNK     0      14.745   2.695   0.000  0.00  0.00           C+0
HETATM   35  O   UNK     0      16.892   4.277   0.000  0.00  0.00           O+0
HETATM   36  C   UNK     0      17.509   5.688   0.000  0.00  0.00           C+0
HETATM   37  O   UNK     0      15.065   6.756   0.000  0.00  0.00           O+0
HETATM   38  C   UNK     0      12.004   6.414   0.000  0.00  0.00           C+0
CONECT    1    2   10                                                       
CONECT    2    1    3   28                                                  
CONECT    3    2    4                                                       
CONECT    4    3    5    9                                                  
CONECT    5    4    6                                                       
CONECT    6    5    7   27                                                  
CONECT    7    6    8   18                                                  
CONECT    8    7    9   12                                                  
CONECT    9    8    4   10   11                                             
CONECT   10    9    1                                                       
CONECT   11    9                                                            
CONECT   12    8   13                                                       
CONECT   13   12   14                                                       
CONECT   14   13   15   24                                                  
CONECT   15   14   16   22                                                  
CONECT   16   15   17   20                                                  
CONECT   17   16   18                                                       
CONECT   18   17    7   19                                                  
CONECT   19   18                                                            
CONECT   20   16   21                                                       
CONECT   21   20   22                                                       
CONECT   22   21   15   23   26                                             
CONECT   23   22   24                                                       
CONECT   24   23   14   25                                                  
CONECT   25   24                                                            
CONECT   26   22                                                            
CONECT   27    6                                                            
CONECT   28    2   29                                                       
CONECT   29   28   30   34                                                  
CONECT   30   29   31                                                       
CONECT   31   30   32   38                                                  
CONECT   32   31   33   37                                                  
CONECT   33   32   34   35                                                  
CONECT   34   33   29                                                       
CONECT   35   33   36                                                       
CONECT   36   35                                                            
CONECT   37   32                                                            
CONECT   38   31                                                            
MASTER        0    0    0    0    0    0    0    0   38    0   86    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₂₈H₄₀O₁₀

Average Mass

536.6180 Da

Monoisotopic Mass

536.26215 Da

IUPAC Name

(1Z,4S,5R,8S,12R,13S,16S,19R,21S,22R)-12,21-dihydroxy-8-{[(2R,4R,5R,6R)-5-hydroxy-4-methoxy-6-methyloxan-2-yl]oxy}-5,19-dimethyl-15,18,20-trioxapentacyclo[14.5.1.0^{4,13}.0^{5,10}.0^{19,22}]docosa-1,10-dien-14-one

Traditional Name

CAS Registry Number

Not Available

SMILES

CO[C@@H]1C[C@H](O[C@H]2CC[C@]3(C)[C@H]4C\C=C5\[C@@H](O)O[C@@]6(C)OC[C@@H](OC(=O)[C@@H]4[C@H](O)C=C3C2)[C@@H]56)O[C@H](C)[C@H]1O

InChI Identifier

InChI=1S/C28H40O10/c1-13-24(30)19(33-4)11-21(35-13)36-15-7-8-27(2)14(9-15)10-18(29)22-17(27)6-5-16-23-20(37-26(22)32)12-34-28(23,3)38-25(16)31/h5,10,13,15,17-25,29-31H,6-9,11-12H2,1-4H3/b16-5+/t13-,15+,17+,18-,19-,20-,21+,22+,23-,24-,25+,27+,28-/m1/s1

InChI Key

NAKHVZIFCGVCRS-GKSKKHRFSA-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
Vincetoxicum pycnostelma	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	1.03	ALOGPS
logP	1.32	ChemAxon
logS	-3.1	ALOGPS
pKa (Strongest Acidic)	11.75	ChemAxon
pKa (Strongest Basic)	-3.1	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	9	ChemAxon
Hydrogen Donor Count	3	ChemAxon
Polar Surface Area	133.14 Å²	ChemAxon
Rotatable Bond Count	3	ChemAxon
Refractivity	133.49 m³·mol⁻¹	ChemAxon
Polarizability	56.89 Å³	ChemAxon
Number of Rings	6	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	No	ChemAxon
Ghose Filter	No	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	No	ChemAxon

External Links

Not Available

References

General References

Not Available

Showing NP-Card for (-)-Paniculatumoside A (NP0079245)

MOL for NP0079245 ((-)-Paniculatumoside A)

3D MOL for NP0079245 ((-)-Paniculatumoside A)

3D SDF for NP0079245 ((-)-Paniculatumoside A)

3D-SDF for NP0079245 ((-)-Paniculatumoside A)

PDB for NP0079245 ((-)-Paniculatumoside A)

3D PDB for NP0079245 ((-)-Paniculatumoside A)

SMILES for NP0079245 ((-)-Paniculatumoside A)

INCHI for NP0079245 ((-)-Paniculatumoside A)

Structure for NP0079245 ((-)-Paniculatumoside A)

3D Structure for NP0079245 ((-)-Paniculatumoside A)