NP-MRD: Showing NP-Card for scilliphaeoside (NP0231079)

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Record Information

Version

2.0

Created at

2022-09-06 11:45:38 UTC

Updated at

2022-09-06 11:45:38 UTC

NP-MRD ID

NP0231079

Secondary Accession Numbers

None

Natural Product Identification

Common Name

scilliphaeoside

Description

Scillipheoside belongs to the class of organic compounds known as bufanolides and derivatives. These are steroid lactones containing a pyran-2-one moiety linked to the C17 atom of a cyclopenta[a]phenanthrene derivative. scilliphaeoside is found in Drimia maritima. Based on a literature review very few articles have been published on Scillipheoside.

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1652309062213452D          

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M  END

     RDKit          3D

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M  END


  Mrv1652309062213452D          

 39 44  0  0  1  0            999 V2000
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   -0.6168   -0.6798    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.3365    0.0961    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1486   -0.0491    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9608   -0.1943    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8017   -2.5221    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.9895   -2.3768    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0820   -3.2980    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
   -2.5501   -3.9287    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.8941   -3.4432    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   -4.1744   -4.2191    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  2  1  1  6  0  0  0
  2  3  1  0  0  0  0
  3  4  1  0  0  0  0
  4  5  1  1  0  0  0
  6  5  1  1  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  1  0  0  0  0
 11 10  1  6  0  0  0
 11 12  1  0  0  0  0
 12 13  1  1  0  0  0
 13 14  1  0  0  0  0
 14 15  1  1  0  0  0
 14 16  1  0  0  0  0
 16 17  1  1  0  0  0
 16 18  1  0  0  0  0
 18 19  1  1  0  0  0
 19 20  1  0  0  0  0
 20 21  2  0  0  0  0
 21 22  1  0  0  0  0
 22 23  2  0  0  0  0
 22 24  1  0  0  0  0
 24 25  1  0  0  0  0
 19 25  2  0  0  0  0
 18 26  1  0  0  0  0
 26 27  1  0  0  0  0
 27 28  1  0  0  0  0
 11 28  1  0  0  0  0
 16 28  1  0  0  0  0
 28 29  1  1  0  0  0
 12 30  1  0  0  0  0
  8 30  1  0  0  0  0
 30 31  1  1  0  0  0
 30 32  1  0  0  0  0
 32 33  1  0  0  0  0
  6 33  1  0  0  0  0
  4 34  1  0  0  0  0
 34 35  1  6  0  0  0
 34 36  1  0  0  0  0
 36 37  1  6  0  0  0
 36 38  1  0  0  0  0
  2 38  1  0  0  0  0
 38 39  1  1  0  0  0
M  END
> <DATABASE_ID>
NP0231079

> <DATABASE_NAME>
NP-MRD

> <SMILES>
C[C@@H]1O[C@@H](O[C@H]2CC[C@]3(C)[C@H]4C[C@@H](O)[C@]5(C)[C@H](CC[C@]5(O)[C@@H]4CCC3=C2)C2=COC(=O)C=C2)[C@H](O)[C@H](O)[C@H]1O

> <INCHI_IDENTIFIER>
InChI=1S/C30H42O9/c1-15-24(33)25(34)26(35)27(38-15)39-18-8-10-28(2)17(12-18)5-6-20-21(28)13-22(31)29(3)19(9-11-30(20,29)36)16-4-7-23(32)37-14-16/h4,7,12,14-15,18-22,24-27,31,33-36H,5-6,8-11,13H2,1-3H3/t15-,18-,19+,20+,21-,22+,24-,25+,26+,27-,28-,29-,30-/m0/s1

> <INCHI_KEY>
ZBAPFMPUNXTWQQ-PVLLBMPJSA-N

> <FORMULA>
C30H42O9

> <MOLECULAR_WEIGHT>
546.657

> <EXACT_MASS>
546.282882932

> <JCHEM_ACCEPTOR_COUNT>
8

> <JCHEM_ATOM_COUNT>
81

> <JCHEM_AVERAGE_POLARIZABILITY>
58.787628708668464

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
5

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
5-[(1S,2R,5S,10R,11S,14S,15S,16R)-11,16-dihydroxy-2,15-dimethyl-5-{[(2R,3R,4R,5R,6S)-3,4,5-trihydroxy-6-methyloxan-2-yl]oxy}tetracyclo[8.7.0.0^{2,7}.0^{11,15}]heptadec-6-en-14-yl]-2H-pyran-2-one

> <JCHEM_LOGP>
1.0723527363333325

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
6

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
13.200000182715357

> <JCHEM_PKA_STRONGEST_ACIDIC>
12.216116182888804

> <JCHEM_PKA_STRONGEST_BASIC>
-2.9765520485033283

> <JCHEM_POLAR_SURFACE_AREA>
145.91

> <JCHEM_REFRACTIVITY>
141.5698

> <JCHEM_ROTATABLE_BOND_COUNT>
3

> <JCHEM_RULE_OF_FIVE>
0

> <JCHEM_TRADITIONAL_IUPAC>
5-[(1S,2R,5S,10R,11S,14S,15S,16R)-11,16-dihydroxy-2,15-dimethyl-5-{[(2R,3R,4R,5R,6S)-3,4,5-trihydroxy-6-methyloxan-2-yl]oxy}tetracyclo[8.7.0.0^{2,7}.0^{11,15}]heptadec-6-en-14-yl]pyran-2-one

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 06-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   06-SEP-22         0                                  
HETATM    1  C   UNK     0      -9.778  -5.521   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      -8.262  -5.250   0.000  0.00  0.00           C+0
HETATM    3  O   UNK     0      -7.738  -3.802   0.000  0.00  0.00           O+0
HETATM    4  C   UNK     0      -6.222  -3.531   0.000  0.00  0.00           C+0
HETATM    5  O   UNK     0      -5.699  -2.082   0.000  0.00  0.00           O+0
HETATM    6  C   UNK     0      -4.183  -1.811   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0      -3.191  -2.988   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0      -1.675  -2.717   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0      -0.682  -3.895   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       0.834  -3.624   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       1.357  -2.175   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       0.365  -0.998   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       0.888   0.451   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       2.404   0.722   0.000  0.00  0.00           C+0
HETATM   15  O   UNK     0       2.927   2.170   0.000  0.00  0.00           O+0
HETATM   16  C   UNK     0       3.396  -0.456   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       4.068   0.930   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       4.936  -0.506   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       5.881   0.710   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0       5.301   2.137   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0       6.246   3.352   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0       7.771   3.142   0.000  0.00  0.00           C+0
HETATM   23  O   UNK     0       8.716   4.357   0.000  0.00  0.00           O+0
HETATM   24  O   UNK     0       8.352   1.715   0.000  0.00  0.00           O+0
HETATM   25  C   UNK     0       7.406   0.499   0.000  0.00  0.00           C+0
HETATM   26  C   UNK     0       5.364  -1.985   0.000  0.00  0.00           C+0
HETATM   27  C   UNK     0       4.089  -2.849   0.000  0.00  0.00           C+0
HETATM   28  C   UNK     0       2.873  -1.904   0.000  0.00  0.00           C+0
HETATM   29  O   UNK     0       2.504  -3.399   0.000  0.00  0.00           O+0
HETATM   30  C   UNK     0      -1.151  -1.269   0.000  0.00  0.00           C+0
HETATM   31  C   UNK     0      -0.628   0.179   0.000  0.00  0.00           C+0
HETATM   32  C   UNK     0      -2.144  -0.092   0.000  0.00  0.00           C+0
HETATM   33  C   UNK     0      -3.660  -0.363   0.000  0.00  0.00           C+0
HETATM   34  C   UNK     0      -5.230  -4.708   0.000  0.00  0.00           C+0
HETATM   35  O   UNK     0      -3.714  -4.437   0.000  0.00  0.00           O+0
HETATM   36  C   UNK     0      -5.753  -6.156   0.000  0.00  0.00           C+0
HETATM   37  O   UNK     0      -4.760  -7.334   0.000  0.00  0.00           O+0
HETATM   38  C   UNK     0      -7.269  -6.427   0.000  0.00  0.00           C+0
HETATM   39  O   UNK     0      -7.792  -7.876   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3   38                                                  
CONECT    3    2    4                                                       
CONECT    4    3    5   34                                                  
CONECT    5    4    6                                                       
CONECT    6    5    7   33                                                  
CONECT    7    6    8                                                       
CONECT    8    7    9   30                                                  
CONECT    9    8   10                                                       
CONECT   10    9   11                                                       
CONECT   11   10   12   28                                                  
CONECT   12   11   13   30                                                  
CONECT   13   12   14                                                       
CONECT   14   13   15   16                                                  
CONECT   15   14                                                            
CONECT   16   14   17   18   28                                             
CONECT   17   16                                                            
CONECT   18   16   19   26                                                  
CONECT   19   18   20   25                                                  
CONECT   20   19   21                                                       
CONECT   21   20   22                                                       
CONECT   22   21   23   24                                                  
CONECT   23   22                                                            
CONECT   24   22   25                                                       
CONECT   25   24   19                                                       
CONECT   26   18   27                                                       
CONECT   27   26   28                                                       
CONECT   28   27   11   16   29                                             
CONECT   29   28                                                            
CONECT   30   12    8   31   32                                             
CONECT   31   30                                                            
CONECT   32   30   33                                                       
CONECT   33   32    6                                                       
CONECT   34    4   35   36                                                  
CONECT   35   34                                                            
CONECT   36   34   37   38                                                  
CONECT   37   36                                                            
CONECT   38   36    2   39                                                  
CONECT   39   38                                                            
MASTER        0    0    0    0    0    0    0    0   39    0   88    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₃₀H₄₂O₉

Average Mass

546.6570 Da

Monoisotopic Mass

546.28288 Da

IUPAC Name

5-[(1S,2R,5S,10R,11S,14S,15S,16R)-11,16-dihydroxy-2,15-dimethyl-5-{[(2R,3R,4R,5R,6S)-3,4,5-trihydroxy-6-methyloxan-2-yl]oxy}tetracyclo[8.7.0.0^{2,7}.0^{11,15}]heptadec-6-en-14-yl]-2H-pyran-2-one

Traditional Name

5-[(1S,2R,5S,10R,11S,14S,15S,16R)-11,16-dihydroxy-2,15-dimethyl-5-{[(2R,3R,4R,5R,6S)-3,4,5-trihydroxy-6-methyloxan-2-yl]oxy}tetracyclo[8.7.0.0^{2,7}.0^{11,15}]heptadec-6-en-14-yl]pyran-2-one

CAS Registry Number

Not Available

SMILES

C[C@@H]1O[C@@H](O[C@H]2CC[C@]3(C)[C@H]4C[C@@H](O)[C@]5(C)[C@H](CC[C@]5(O)[C@@H]4CCC3=C2)C2=COC(=O)C=C2)[C@H](O)[C@H](O)[C@H]1O

InChI Identifier

InChI=1S/C30H42O9/c1-15-24(33)25(34)26(35)27(38-15)39-18-8-10-28(2)17(12-18)5-6-20-21(28)13-22(31)29(3)19(9-11-30(20,29)36)16-4-7-23(32)37-14-16/h4,7,12,14-15,18-22,24-27,31,33-36H,5-6,8-11,13H2,1-3H3/t15-,18-,19+,20+,21-,22+,24-,25+,26+,27-,28-,29-,30-/m0/s1

InChI Key

ZBAPFMPUNXTWQQ-PVLLBMPJSA-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
Drimia maritima	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as bufanolides and derivatives. These are steroid lactones containing a pyran-2-one moiety linked to the C17 atom of a cyclopenta[a]phenanthrene derivative.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Steroids and steroid derivatives

Sub Class

Steroid lactones

Direct Parent

Bufanolides and derivatives

Alternative Parents

Substituents

Bufanolide-skeleton
Steroidal glycoside
12-hydroxysteroid
14-hydroxysteroid
Hydroxysteroid
Delta-4-steroid
Hexose monosaccharide
Glycosyl compound
O-glycosyl compound
Pyranone
Monosaccharide
Pyran
Oxane
Cyclic alcohol
Heteroaromatic compound
Tertiary alcohol
Lactone
Secondary alcohol
Organoheterocyclic compound
Oxacycle
Acetal
Polyol
Alcohol
Hydrocarbon derivative
Organic oxide
Organic oxygen compound
Organooxygen compound
Aromatic heteropolycyclic compound

Molecular Framework

Aromatic 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	1.07	ChemAxon
pKa (Strongest Acidic)	12.22	ChemAxon
pKa (Strongest Basic)	-3	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	8	ChemAxon
Hydrogen Donor Count	5	ChemAxon
Polar Surface Area	145.91 Å²	ChemAxon
Rotatable Bond Count	3	ChemAxon
Refractivity	141.57 m³·mol⁻¹	ChemAxon
Polarizability	58.79 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

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FoodDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

19958575

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

12315402

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for scilliphaeoside (NP0231079)

MOL for NP0231079 (scilliphaeoside)

3D MOL for NP0231079 (scilliphaeoside)

3D SDF for NP0231079 (scilliphaeoside)

3D-SDF for NP0231079 (scilliphaeoside)

PDB for NP0231079 (scilliphaeoside)

3D PDB for NP0231079 (scilliphaeoside)

SMILES for NP0231079 (scilliphaeoside)

INCHI for NP0231079 (scilliphaeoside)

Structure for NP0231079 (scilliphaeoside)

3D Structure for NP0231079 (scilliphaeoside)