NP-MRD: Showing NP-Card for [(6s)-3,4,5-trihydroxy-6-{[(1s,2s,6r)-5-hydroxy-2-(hydroxymethyl)-3,9-dioxatricyclo[4.4.0.0²,⁴]dec-7-en-10-yl]oxy}oxan-2-yl]methyl 3-phenylprop-2-enoate (NP0214423)

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Record Information

Version

2.0

Created at

2022-09-05 13:43:15 UTC

Updated at

2022-09-05 13:43:16 UTC

NP-MRD ID

NP0214423

Secondary Accession Numbers

None

Natural Product Identification

Common Name

[(6s)-3,4,5-trihydroxy-6-{[(1s,2s,6r)-5-hydroxy-2-(hydroxymethyl)-3,9-dioxatricyclo[4.4.0.0²,⁴]dec-7-en-10-yl]oxy}oxan-2-yl]methyl 3-phenylprop-2-enoate

Description

[(6s)-3,4,5-trihydroxy-6-{[(1s,2s,6r)-5-hydroxy-2-(hydroxymethyl)-3,9-dioxatricyclo[4.4.0.0²,⁴]dec-7-en-10-yl]oxy}oxan-2-yl]methyl 3-phenylprop-2-enoate is found in Picrorhiza kurrooa.

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1652309052215432D          

 35 39  0  0  1  0            999 V2000
   -3.2531   -1.4086    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0568   -2.2099    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6526   -2.7805    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4564   -3.5818    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0522   -4.1524    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.8560   -4.9537    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.4518   -5.5244    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.2439   -5.2937    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.4402   -4.4923    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.8443   -3.9217    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2647   -2.4406    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6689   -1.8700    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8768   -2.1007    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2810   -1.5300    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.5111   -1.7608    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.1070   -1.1901    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
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    0.1186   -0.1581    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0776    0.6432    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.5182    1.2138    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3103    0.9831    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.0118    1.4174    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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    2.6415    0.8845    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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    0.3078   -3.9340    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6805   -2.9020    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2764   -3.4726    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0  0  0  0
  3  2  1  4  0  0  0
  3  4  2  0  0  0  0
  4  5  1  0  0  0  0
  5  6  2  0  0  0  0
  6  7  1  0  0  0  0
  7  8  2  0  0  0  0
  8  9  1  0  0  0  0
  9 10  2  0  0  0  0
  5 10  1  0  0  0  0
  2 11  1  0  0  0  0
 11 12  1  0  0  0  0
 12 13  1  0  0  0  0
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 34 35  1  0  0  0  0
M  END

     RDKit          3D

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    0.8956    0.4098   -0.4443 C   0  0  1  0  0  0  0  0  0  0  0  0
   -0.3857    0.5345   -0.9217 O   0  0  0  0  0  0  0  0  0  0  0  0
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   -2.5511    0.0920   -0.8864 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4778    0.7162   -0.0621 C   0  0  1  0  0  0  0  0  0  0  0  0
   -3.7774    2.0286   -0.4992 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.7142    2.7366    0.2477 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.5420    2.0825    1.0541 C   0  0  0  0  0  0  0  0  0  0  0  0
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   11.1049    0.7772    1.0724 H   0  0  0  0  0  0  0  0  0  0  0  0
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M  END


  Mrv1652309052215432D          

 35 39  0  0  1  0            999 V2000
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 34 35  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0214423

> <DATABASE_NAME>
NP-MRD

> <SMILES>
OC[C@]12OC1C(O)[C@@H]1C=COC(O[C@@H]3OC(COC(=O)C=CC4=CC=CC=C4)C(O)C(O)C3O)[C@H]21

> <INCHI_IDENTIFIER>
InChI=1S/C24H28O11/c25-11-24-16-13(17(27)21(24)35-24)8-9-31-22(16)34-23-20(30)19(29)18(28)14(33-23)10-32-15(26)7-6-12-4-2-1-3-5-12/h1-9,13-14,16-23,25,27-30H,10-11H2/t13-,14?,16-,17?,18?,19?,20?,21?,22?,23+,24-/m1/s1

> <INCHI_KEY>
XZGPUOQGERGURE-BRFWTUNNSA-N

> <FORMULA>
C24H28O11

> <MOLECULAR_WEIGHT>
492.477

> <EXACT_MASS>
492.163161722

> <JCHEM_ACCEPTOR_COUNT>
10

> <JCHEM_ATOM_COUNT>
63

> <JCHEM_AVERAGE_POLARIZABILITY>
48.1667899718074

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
5

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
[(6S)-3,4,5-trihydroxy-6-{[(1S,2S,6R)-5-hydroxy-2-(hydroxymethyl)-3,9-dioxatricyclo[4.4.0.0^{2,4}]dec-7-en-10-yl]oxy}oxan-2-yl]methyl 3-phenylprop-2-enoate

> <JCHEM_LOGP>
-0.39791289166666716

> <JCHEM_MDDR_LIKE_RULE>
1

> <JCHEM_NUMBER_OF_RINGS>
5

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
13.09247924037918

> <JCHEM_PKA_STRONGEST_ACIDIC>
12.193155090836859

> <JCHEM_PKA_STRONGEST_BASIC>
-3.1218025089548433

> <JCHEM_POLAR_SURFACE_AREA>
167.67000000000002

> <JCHEM_REFRACTIVITY>
116.75920000000004

> <JCHEM_ROTATABLE_BOND_COUNT>
8

> <JCHEM_RULE_OF_FIVE>
1

> <JCHEM_TRADITIONAL_IUPAC>
[(6S)-3,4,5-trihydroxy-6-{[(1S,2S,6R)-5-hydroxy-2-(hydroxymethyl)-3,9-dioxatricyclo[4.4.0.0^{2,4}]dec-7-en-10-yl]oxy}oxan-2-yl]methyl 3-phenylprop-2-enoate

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 05-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   05-SEP-22         0                                  
HETATM    1  O   UNK     0      -6.072  -2.629   0.000  0.00  0.00           O+0
HETATM    2  C   UNK     0      -5.706  -4.125   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0      -6.818  -5.190   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      -6.452  -6.686   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      -7.564  -7.751   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0      -7.198  -9.247   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0      -8.310 -10.312   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0      -9.789  -9.881   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0     -10.155  -8.386   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0      -9.043  -7.321   0.000  0.00  0.00           C+0
HETATM   11  O   UNK     0      -4.227  -4.556   0.000  0.00  0.00           O+0
HETATM   12  C   UNK     0      -3.115  -3.491   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0      -1.637  -3.921   0.000  0.00  0.00           C+0
HETATM   14  O   UNK     0      -0.524  -2.856   0.000  0.00  0.00           O+0
HETATM   15  C   UNK     0       0.954  -3.287   0.000  0.00  0.00           C+0
HETATM   16  O   UNK     0       2.066  -2.222   0.000  0.00  0.00           O+0
HETATM   17  C   UNK     0       1.700  -0.726   0.000  0.00  0.00           C+0
HETATM   18  O   UNK     0       0.221  -0.295   0.000  0.00  0.00           O+0
HETATM   19  C   UNK     0      -0.145   1.201   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0       0.967   2.266   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0       2.446   1.835   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0       3.755   2.646   0.000  0.00  0.00           C+0
HETATM   23  O   UNK     0       3.869   4.182   0.000  0.00  0.00           O+0
HETATM   24  C   UNK     0       4.931   1.651   0.000  0.00  0.00           C+0
HETATM   25  O   UNK     0       5.874   0.433   0.000  0.00  0.00           O+0
HETATM   26  C   UNK     0       4.348   0.226   0.000  0.00  0.00           C+0
HETATM   27  C   UNK     0       4.395  -1.314   0.000  0.00  0.00           C+0
HETATM   28  O   UNK     0       3.086  -2.124   0.000  0.00  0.00           O+0
HETATM   29  C   UNK     0       2.812   0.339   0.000  0.00  0.00           C+0
HETATM   30  C   UNK     0       1.320  -4.783   0.000  0.00  0.00           C+0
HETATM   31  O   UNK     0       2.799  -5.213   0.000  0.00  0.00           O+0
HETATM   32  C   UNK     0       0.208  -5.848   0.000  0.00  0.00           C+0
HETATM   33  O   UNK     0       0.575  -7.343   0.000  0.00  0.00           O+0
HETATM   34  C   UNK     0      -1.270  -5.417   0.000  0.00  0.00           C+0
HETATM   35  O   UNK     0      -2.383  -6.482   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3   11                                                  
CONECT    3    2    4                                                       
CONECT    4    3    5                                                       
CONECT    5    4    6   10                                                  
CONECT    6    5    7                                                       
CONECT    7    6    8                                                       
CONECT    8    7    9                                                       
CONECT    9    8   10                                                       
CONECT   10    9    5                                                       
CONECT   11    2   12                                                       
CONECT   12   11   13                                                       
CONECT   13   12   14   34                                                  
CONECT   14   13   15                                                       
CONECT   15   14   16   30                                                  
CONECT   16   15   17                                                       
CONECT   17   16   18   29                                                  
CONECT   18   17   19                                                       
CONECT   19   18   20                                                       
CONECT   20   19   21                                                       
CONECT   21   20   22   29                                                  
CONECT   22   21   23   24                                                  
CONECT   23   22                                                            
CONECT   24   22   25   26                                                  
CONECT   25   24   26                                                       
CONECT   26   25   24   27   29                                             
CONECT   27   26   28                                                       
CONECT   28   27                                                            
CONECT   29   26   17   21                                                  
CONECT   30   15   31   32                                                  
CONECT   31   30                                                            
CONECT   32   30   33   34                                                  
CONECT   33   32                                                            
CONECT   34   32   13   35                                                  
CONECT   35   34                                                            
MASTER        0    0    0    0    0    0    0    0   35    0   78    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₂₄H₂₈O₁₁

Average Mass

492.4770 Da

Monoisotopic Mass

492.16316 Da

IUPAC Name

[(6S)-3,4,5-trihydroxy-6-{[(1S,2S,6R)-5-hydroxy-2-(hydroxymethyl)-3,9-dioxatricyclo[4.4.0.0^{2,4}]dec-7-en-10-yl]oxy}oxan-2-yl]methyl 3-phenylprop-2-enoate

Traditional Name

[(6S)-3,4,5-trihydroxy-6-{[(1S,2S,6R)-5-hydroxy-2-(hydroxymethyl)-3,9-dioxatricyclo[4.4.0.0^{2,4}]dec-7-en-10-yl]oxy}oxan-2-yl]methyl 3-phenylprop-2-enoate

CAS Registry Number

Not Available

SMILES

OC[C@]12OC1C(O)[C@@H]1C=COC(O[C@@H]3OC(COC(=O)C=CC4=CC=CC=C4)C(O)C(O)C3O)[C@H]21

InChI Identifier

InChI=1S/C24H28O11/c25-11-24-16-13(17(27)21(24)35-24)8-9-31-22(16)34-23-20(30)19(29)18(28)14(33-23)10-32-15(26)7-6-12-4-2-1-3-5-12/h1-9,13-14,16-23,25,27-30H,10-11H2/t13-,14?,16-,17?,18?,19?,20?,21?,22?,23+,24-/m1/s1

InChI Key

XZGPUOQGERGURE-BRFWTUNNSA-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
Picrorhiza kurrooa	LOTUS Database	35616633

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	-0.4	ChemAxon
pKa (Strongest Acidic)	12.19	ChemAxon
pKa (Strongest Basic)	-3.1	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	10	ChemAxon
Hydrogen Donor Count	5	ChemAxon
Polar Surface Area	167.67 Å²	ChemAxon
Rotatable Bond Count	8	ChemAxon
Refractivity	116.76 m³·mol⁻¹	ChemAxon
Polarizability	48.17 Å³	ChemAxon
Number of Rings	5	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	No	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	Yes	ChemAxon

External Links

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for [(6s)-3,4,5-trihydroxy-6-{[(1s,2s,6r)-5-hydroxy-2-(hydroxymethyl)-3,9-dioxatricyclo[4.4.0.0²,⁴]dec-7-en-10-yl]oxy}oxan-2-yl]methyl 3-phenylprop-2-enoate (NP0214423)

MOL for NP0214423 ([(6s)-3,4,5-trihydroxy-6-{[(1s,2s,6r)-5-hydroxy-2-(hydroxymethyl)-3,9-dioxatricyclo[4.4.0.0²,⁴]dec-7-en-10-yl]oxy}oxan-2-yl]methyl 3-phenylprop-2-enoate)

3D MOL for NP0214423 ([(6s)-3,4,5-trihydroxy-6-{[(1s,2s,6r)-5-hydroxy-2-(hydroxymethyl)-3,9-dioxatricyclo[4.4.0.0²,⁴]dec-7-en-10-yl]oxy}oxan-2-yl]methyl 3-phenylprop-2-enoate)

3D SDF for NP0214423 ([(6s)-3,4,5-trihydroxy-6-{[(1s,2s,6r)-5-hydroxy-2-(hydroxymethyl)-3,9-dioxatricyclo[4.4.0.0²,⁴]dec-7-en-10-yl]oxy}oxan-2-yl]methyl 3-phenylprop-2-enoate)

3D-SDF for NP0214423 ([(6s)-3,4,5-trihydroxy-6-{[(1s,2s,6r)-5-hydroxy-2-(hydroxymethyl)-3,9-dioxatricyclo[4.4.0.0²,⁴]dec-7-en-10-yl]oxy}oxan-2-yl]methyl 3-phenylprop-2-enoate)

PDB for NP0214423 ([(6s)-3,4,5-trihydroxy-6-{[(1s,2s,6r)-5-hydroxy-2-(hydroxymethyl)-3,9-dioxatricyclo[4.4.0.0²,⁴]dec-7-en-10-yl]oxy}oxan-2-yl]methyl 3-phenylprop-2-enoate)

3D PDB for NP0214423 ([(6s)-3,4,5-trihydroxy-6-{[(1s,2s,6r)-5-hydroxy-2-(hydroxymethyl)-3,9-dioxatricyclo[4.4.0.0²,⁴]dec-7-en-10-yl]oxy}oxan-2-yl]methyl 3-phenylprop-2-enoate)

SMILES for NP0214423 ([(6s)-3,4,5-trihydroxy-6-{[(1s,2s,6r)-5-hydroxy-2-(hydroxymethyl)-3,9-dioxatricyclo[4.4.0.0²,⁴]dec-7-en-10-yl]oxy}oxan-2-yl]methyl 3-phenylprop-2-enoate)

INCHI for NP0214423 ([(6s)-3,4,5-trihydroxy-6-{[(1s,2s,6r)-5-hydroxy-2-(hydroxymethyl)-3,9-dioxatricyclo[4.4.0.0²,⁴]dec-7-en-10-yl]oxy}oxan-2-yl]methyl 3-phenylprop-2-enoate)

Structure for NP0214423 ([(6s)-3,4,5-trihydroxy-6-{[(1s,2s,6r)-5-hydroxy-2-(hydroxymethyl)-3,9-dioxatricyclo[4.4.0.0²,⁴]dec-7-en-10-yl]oxy}oxan-2-yl]methyl 3-phenylprop-2-enoate)

3D Structure for NP0214423 ([(6s)-3,4,5-trihydroxy-6-{[(1s,2s,6r)-5-hydroxy-2-(hydroxymethyl)-3,9-dioxatricyclo[4.4.0.0²,⁴]dec-7-en-10-yl]oxy}oxan-2-yl]methyl 3-phenylprop-2-enoate)