NP-MRD: Showing NP-Card for songaricalarin B (NP0043262)

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Record Information

Version

2.0

Created at

2021-06-21 00:43:13 UTC

Updated at

2021-06-30 00:18:51 UTC

NP-MRD ID

NP0043262

Secondary Accession Numbers

None

Natural Product Identification

Common Name

songaricalarin B

Provided By

JEOL Database JEOL Logo

Description

songaricalarin B is found in Ligularia songarica. It was first documented in 2013 (Wang, Q., et al.).

Structure

MOL 3D MOL SDF 3D SDF PDB SMILES InChI


  Mrv1652306212102433D          

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M  END

     RDKit          3D

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M  END


  Mrv1652306212102433D          

 69 71  0  0  0  0            999 V2000
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M  END
> <DATABASE_ID>
NP0043262

> <DATABASE_NAME>
NP-MRD

> <SMILES>
[H]O[C@@]1([H])[C@@]([H])(OC(=O)C(\[H])=C(/C([H])([H])[H])C([H])([H])C([H])([H])[H])C(=C([H])[H])[C@]2([H])C([H])([H])[C@]([H])(OC(=O)C([H])([H])[H])[C@@]([H])([C@]([H])(OC(=O)C([H])([H])[H])C([H])([H])[H])[C@@]2([H])[C@]1([H])[C@@]1(OC1([H])[H])C([H])([H])[H]

> <INCHI_IDENTIFIER>
InChI=1S/C25H36O8/c1-8-12(2)9-19(28)33-24-13(3)17-10-18(32-16(6)27)20(14(4)31-15(5)26)21(17)22(23(24)29)25(7)11-30-25/h9,14,17-18,20-24,29H,3,8,10-11H2,1-2,4-7H3/b12-9+/t14-,17+,18+,20-,21+,22+,23-,24+,25-/m1/s1

> <INCHI_KEY>
QDBZIKDKBOCSPO-ADBVQTPJSA-N

> <FORMULA>
C25H36O8

> <MOLECULAR_WEIGHT>
464.555

> <EXACT_MASS>
464.241018119

> <JCHEM_ACCEPTOR_COUNT>
5

> <JCHEM_ATOM_COUNT>
69

> <JCHEM_AVERAGE_POLARIZABILITY>
49.71921161210015

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(1R,2S,3aR,5S,6R,7S,7aS)-2-(acetyloxy)-1-[(1R)-1-(acetyloxy)ethyl]-6-hydroxy-4-methylidene-7-[(2S)-2-methyloxiran-2-yl]-octahydro-1H-inden-5-yl (2E)-3-methylpent-2-enoate

> <ALOGPS_LOGP>
1.90

> <JCHEM_LOGP>
2.0250227286666664

> <ALOGPS_LOGS>
-3.90

> <JCHEM_MDDR_LIKE_RULE>
1

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA_STRONGEST_ACIDIC>
13.754927353154457

> <JCHEM_PKA_STRONGEST_BASIC>
-3.343394775730239

> <JCHEM_POLAR_SURFACE_AREA>
111.66000000000003

> <JCHEM_REFRACTIVITY>
119.1457

> <JCHEM_ROTATABLE_BOND_COUNT>
10

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
5.79e-02 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(1R,2S,3aR,5S,6R,7S,7aS)-2-(acetyloxy)-1-[(1R)-1-(acetyloxy)ethyl]-6-hydroxy-4-methylidene-7-[(2S)-2-methyloxiran-2-yl]-octahydroinden-5-yl (2E)-3-methylpent-2-enoate

> <JCHEM_VEBER_RULE>
0

$$$$

     RDKit          3D

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 29 31  2  0
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M  END

HEADER    PROTEIN                                 21-JUN-21   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   21-JUN-21         0                                  
HETATM    1  C   UNK     0       2.547  -0.656  -1.585  0.00  0.00           C+0
HETATM    2  C   UNK     0       1.256  -0.767  -1.227  0.00  0.00           C+0
HETATM    3  C   UNK     0       0.835  -0.884   0.227  0.00  0.00           C+0
HETATM    4  O   UNK     0       0.279  -2.206   0.392  0.00  0.00           O+0
HETATM    5  C   UNK     0       0.331  -2.703   1.653  0.00  0.00           C+0
HETATM    6  O   UNK     0       0.799  -2.131   2.623  0.00  0.00           O+0
HETATM    7  C   UNK     0      -0.310  -4.038   1.638  0.00  0.00           C+0
HETATM    8  C   UNK     0      -0.232  -4.969   2.609  0.00  0.00           C+0
HETATM    9  C   UNK     0       0.600  -4.842   3.858  0.00  0.00           C+0
HETATM   10  C   UNK     0      -0.997  -6.270   2.471  0.00  0.00           C+0
HETATM   11  C   UNK     0      -2.130  -6.389   3.481  0.00  0.00           C+0
HETATM   12  C   UNK     0      -0.217   0.204   0.586  0.00  0.00           C+0
HETATM   13  O   UNK     0      -0.699   0.055   1.928  0.00  0.00           O+0
HETATM   14  C   UNK     0      -1.436   0.204  -0.391  0.00  0.00           C+0
HETATM   15  C   UNK     0      -2.431   1.298   0.009  0.00  0.00           C+0
HETATM   16  C   UNK     0      -3.602   0.871   0.848  0.00  0.00           C+0
HETATM   17  C   UNK     0      -1.999   2.755   0.059  0.00  0.00           C+0
HETATM   18  O   UNK     0      -2.788   2.239  -1.015  0.00  0.00           O+0
HETATM   19  C   UNK     0      -0.932   0.300  -1.852  0.00  0.00           C+0
HETATM   20  C   UNK     0      -1.948   0.198  -3.027  0.00  0.00           C+0
HETATM   21  C   UNK     0      -3.085  -0.834  -2.824  0.00  0.00           C+0
HETATM   22  C   UNK     0      -4.146  -0.754  -3.920  0.00  0.00           C+0
HETATM   23  O   UNK     0      -2.551  -2.171  -2.822  0.00  0.00           O+0
HETATM   24  C   UNK     0      -3.175  -3.081  -2.026  0.00  0.00           C+0
HETATM   25  C   UNK     0      -2.510  -4.416  -2.169  0.00  0.00           C+0
HETATM   26  O   UNK     0      -4.128  -2.862  -1.294  0.00  0.00           O+0
HETATM   27  C   UNK     0      -1.032  -0.113  -4.242  0.00  0.00           C+0
HETATM   28  O   UNK     0      -0.748   1.109  -4.959  0.00  0.00           O+0
HETATM   29  C   UNK     0      -1.634   1.468  -5.926  0.00  0.00           C+0
HETATM   30  C   UNK     0      -1.212   2.763  -6.549  0.00  0.00           C+0
HETATM   31  O   UNK     0      -2.629   0.838  -6.251  0.00  0.00           O+0
HETATM   32  C   UNK     0       0.318  -0.598  -3.679  0.00  0.00           C+0
HETATM   33  C   UNK     0       0.089  -0.802  -2.183  0.00  0.00           C+0
HETATM   34  H   UNK     0       2.861  -0.587  -2.621  0.00  0.00           H+0
HETATM   35  H   UNK     0       3.342  -0.646  -0.844  0.00  0.00           H+0
HETATM   36  H   UNK     0       1.710  -0.772   0.881  0.00  0.00           H+0
HETATM   37  H   UNK     0      -0.916  -4.227   0.757  0.00  0.00           H+0
HETATM   38  H   UNK     0      -0.019  -4.506   4.696  0.00  0.00           H+0
HETATM   39  H   UNK     0       1.441  -4.155   3.743  0.00  0.00           H+0
HETATM   40  H   UNK     0       1.039  -5.811   4.123  0.00  0.00           H+0
HETATM   41  H   UNK     0      -0.305  -7.113   2.591  0.00  0.00           H+0
HETATM   42  H   UNK     0      -1.419  -6.366   1.463  0.00  0.00           H+0
HETATM   43  H   UNK     0      -2.838  -5.559   3.380  0.00  0.00           H+0
HETATM   44  H   UNK     0      -1.754  -6.396   4.508  0.00  0.00           H+0
HETATM   45  H   UNK     0      -2.679  -7.323   3.321  0.00  0.00           H+0
HETATM   46  H   UNK     0       0.282   1.180   0.545  0.00  0.00           H+0
HETATM   47  H   UNK     0       0.005  -0.353   2.474  0.00  0.00           H+0
HETATM   48  H   UNK     0      -1.948  -0.759  -0.262  0.00  0.00           H+0
HETATM   49  H   UNK     0      -3.270   0.513   1.826  0.00  0.00           H+0
HETATM   50  H   UNK     0      -4.156   0.065   0.358  0.00  0.00           H+0
HETATM   51  H   UNK     0      -4.301   1.698   1.017  0.00  0.00           H+0
HETATM   52  H   UNK     0      -2.483   3.414   0.770  0.00  0.00           H+0
HETATM   53  H   UNK     0      -0.975   3.024  -0.163  0.00  0.00           H+0
HETATM   54  H   UNK     0      -0.424   1.272  -1.959  0.00  0.00           H+0
HETATM   55  H   UNK     0      -2.417   1.179  -3.167  0.00  0.00           H+0
HETATM   56  H   UNK     0      -3.582  -0.615  -1.874  0.00  0.00           H+0
HETATM   57  H   UNK     0      -4.995  -1.400  -3.672  0.00  0.00           H+0
HETATM   58  H   UNK     0      -3.763  -1.115  -4.879  0.00  0.00           H+0
HETATM   59  H   UNK     0      -4.521   0.267  -4.041  0.00  0.00           H+0
HETATM   60  H   UNK     0      -1.452  -4.333  -1.907  0.00  0.00           H+0
HETATM   61  H   UNK     0      -2.626  -4.779  -3.193  0.00  0.00           H+0
HETATM   62  H   UNK     0      -2.980  -5.130  -1.487  0.00  0.00           H+0
HETATM   63  H   UNK     0      -1.443  -0.864  -4.925  0.00  0.00           H+0
HETATM   64  H   UNK     0      -1.932   3.045  -7.323  0.00  0.00           H+0
HETATM   65  H   UNK     0      -1.192   3.550  -5.790  0.00  0.00           H+0
HETATM   66  H   UNK     0      -0.229   2.649  -7.012  0.00  0.00           H+0
HETATM   67  H   UNK     0       1.106   0.138  -3.878  0.00  0.00           H+0
HETATM   68  H   UNK     0       0.623  -1.538  -4.153  0.00  0.00           H+0
HETATM   69  H   UNK     0      -0.367  -1.790  -2.057  0.00  0.00           H+0
CONECT    1    2   34   35                                                  
CONECT    2   33    1    3                                                  
CONECT    3   12    4    2   36                                             
CONECT    4    3    5                                                       
CONECT    5    4    7    6                                                  
CONECT    6    5                                                            
CONECT    7    5    8   37                                                  
CONECT    8    7   10    9                                                  
CONECT    9    8   38   39   40                                             
CONECT   10    8   11   41   42                                             
CONECT   11   10   43   44   45                                             
CONECT   12   14    3   13   46                                             
CONECT   13   12   47                                                       
CONECT   14   19   15   12   48                                             
CONECT   15   14   16   18   17                                             
CONECT   16   15   49   50   51                                             
CONECT   17   15   18   52   53                                             
CONECT   18   15   17                                                       
CONECT   19   14   54   20   33                                             
CONECT   20   21   27   19   55                                             
CONECT   21   20   23   22   56                                             
CONECT   22   21   57   58   59                                             
CONECT   23   21   24                                                       
CONECT   24   23   26   25                                                  
CONECT   25   24   60   61   62                                             
CONECT   26   24                                                            
CONECT   27   32   20   28   63                                             
CONECT   28   27   29                                                       
CONECT   29   31   30   28                                                  
CONECT   30   29   64   65   66                                             
CONECT   31   29                                                            
CONECT   32   33   27   67   68                                             
CONECT   33    2   32   19   69                                             
CONECT   34    1                                                            
CONECT   35    1                                                            
CONECT   36    3                                                            
CONECT   37    7                                                            
CONECT   38    9                                                            
CONECT   39    9                                                            
CONECT   40    9                                                            
CONECT   41   10                                                            
CONECT   42   10                                                            
CONECT   43   11                                                            
CONECT   44   11                                                            
CONECT   45   11                                                            
CONECT   46   12                                                            
CONECT   47   13                                                            
CONECT   48   14                                                            
CONECT   49   16                                                            
CONECT   50   16                                                            
CONECT   51   16                                                            
CONECT   52   17                                                            
CONECT   53   17                                                            
CONECT   54   19                                                            
CONECT   55   20                                                            
CONECT   56   21                                                            
CONECT   57   22                                                            
CONECT   58   22                                                            
CONECT   59   22                                                            
CONECT   60   25                                                            
CONECT   61   25                                                            
CONECT   62   25                                                            
CONECT   63   27                                                            
CONECT   64   30                                                            
CONECT   65   30                                                            
CONECT   66   30                                                            
CONECT   67   32                                                            
CONECT   68   32                                                            
CONECT   69   33                                                            
MASTER        0    0    0    0    0    0    0    0   69    0  142    0
END

RDKit          3D

69 71  0  0  0  0  0  0  0  0999 V2000
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M  END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₂₅H₃₆O₈

Average Mass

464.5550 Da

Monoisotopic Mass

464.24102 Da

IUPAC Name

(1R,2S,3aR,5S,6R,7S,7aS)-2-(acetyloxy)-1-[(1R)-1-(acetyloxy)ethyl]-6-hydroxy-4-methylidene-7-[(2S)-2-methyloxiran-2-yl]-octahydro-1H-inden-5-yl (2E)-3-methylpent-2-enoate

Traditional Name

(1R,2S,3aR,5S,6R,7S,7aS)-2-(acetyloxy)-1-[(1R)-1-(acetyloxy)ethyl]-6-hydroxy-4-methylidene-7-[(2S)-2-methyloxiran-2-yl]-octahydroinden-5-yl (2E)-3-methylpent-2-enoate

CAS Registry Number

Not Available

SMILES

[H]O[C@@]1([H])[C@@]([H])(OC(=O)C(\[H])=C(/C([H])([H])[H])C([H])([H])C([H])([H])[H])C(=C([H])[H])[C@]2([H])C([H])([H])[C@]([H])(OC(=O)C([H])([H])[H])[C@@]([H])([C@]([H])(OC(=O)C([H])([H])[H])C([H])([H])[H])[C@@]2([H])[C@]1([H])[C@@]1(OC1([H])[H])C([H])([H])[H]

InChI Identifier

InChI=1S/C25H36O8/c1-8-12(2)9-19(28)33-24-13(3)17-10-18(32-16(6)27)20(14(4)31-15(5)26)21(17)22(23(24)29)25(7)11-30-25/h9,14,17-18,20-24,29H,3,8,10-11H2,1-2,4-7H3/b12-9+/t14-,17+,18+,20-,21+,22+,23-,24+,25-/m1/s1

InChI Key

QDBZIKDKBOCSPO-ADBVQTPJSA-N

Experimental Spectra

Spectrum Type	Description	Depositor Email	Depositor Organization	Depositor	Deposition Date	View
1D NMR	¹³C NMR Spectrum (1D, 400 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 100 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 200 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 300 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 500 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 600 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 700 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 800 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 900 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 1000 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum

Predicted Spectra

Not Available

Chemical Shift Submissions

Not Available

Species

Species of Origin

Species Name	Source	Reference
Vickifunkia songarica	JEOL database	Wang, Q., et al, J. Nat. Prod. 76, 305 (2013)

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	1.9	ALOGPS
logP	2.03	ChemAxon
logS	-3.9	ALOGPS
pKa (Strongest Acidic)	13.75	ChemAxon
pKa (Strongest Basic)	-3.3	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	5	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	111.66 Å²	ChemAxon
Rotatable Bond Count	10	ChemAxon
Refractivity	119.15 m³·mol⁻¹	ChemAxon
Polarizability	49.72 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	Yes	ChemAxon

External Links

Not Available

References

General References

Wang, Q., et al. (2013). Wang, Q., et al, J. Nat. Prod. 76, 305 (2013). J. Nat. Prod..

Showing NP-Card for songaricalarin B (NP0043262)

MOL for NP0043262 (songaricalarin B)

3D MOL for NP0043262 (songaricalarin B)

3D SDF for NP0043262 (songaricalarin B)

3D-SDF for NP0043262 (songaricalarin B)

PDB for NP0043262 (songaricalarin B)

3D PDB for NP0043262 (songaricalarin B)

SMILES for NP0043262 (songaricalarin B)

INCHI for NP0043262 (songaricalarin B)

Structure for NP0043262 (songaricalarin B)

3D Structure for NP0043262 (songaricalarin B)