NP-MRD: Showing NP-Card for (1s,2r,3'r,3as,5's,5ar,6s,7s,9as,11as)-2,7-dihydroxy-6-(hydroxymethyl)-3',3a,6,9a,11a-pentamethyl-5'-propanoyl-4,5,5a,7,8,9,10,11-octahydro-2h-spiro[cyclopenta[a]phenanthrene-1,2'-oxolan]-3-one (NP0240933)

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Record Information

Version

2.0

Created at

2022-09-07 00:52:24 UTC

Updated at

2022-09-07 00:52:24 UTC

NP-MRD ID

NP0240933

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(1s,2r,3'r,3as,5's,5ar,6s,7s,9as,11as)-2,7-dihydroxy-6-(hydroxymethyl)-3',3a,6,9a,11a-pentamethyl-5'-propanoyl-4,5,5a,7,8,9,10,11-octahydro-2h-spiro[cyclopenta[a]phenanthrene-1,2'-oxolan]-3-one

Description

(2S,2'S,3R,5S,5'S,6'S,7'R,11'S,13'R,15'S)-5',13'-dihydroxy-6'-(hydroxymethyl)-2',3,6',11',15'-pentamethyl-5-propanoylspiro[oxolane-2,14'-tetracyclo[8.7.0.0²,⁷.0¹¹,¹⁵]Heptadecan]-1'(10')-en-12'-one belongs to the class of organic compounds known as triterpenoids. These are terpene molecules containing six isoprene units. (1s,2r,3'r,3as,5's,5ar,6s,7s,9as,11as)-2,7-dihydroxy-6-(hydroxymethyl)-3',3a,6,9a,11a-pentamethyl-5'-propanoyl-4,5,5a,7,8,9,10,11-octahydro-2h-spiro[cyclopenta[a]phenanthrene-1,2'-oxolan]-3-one is found in Eucomis punctata. Based on a literature review very few articles have been published on (2S,2'S,3R,5S,5'S,6'S,7'R,11'S,13'R,15'S)-5',13'-dihydroxy-6'-(hydroxymethyl)-2',3,6',11',15'-pentamethyl-5-propanoylspiro[oxolane-2,14'-tetracyclo[8.7.0.0²,⁷.0¹¹,¹⁵]Heptadecan]-1'(10')-en-12'-one.

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1652309072202522D          

 35 39  0  0  1  0            999 V2000
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M  END

     RDKit          3D

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M  END


  Mrv1652309072202522D          

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    0.3460   -0.3256    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1090    0.3626    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.9325    0.3127    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.2595    1.1007    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.3533    1.9203    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5314    1.3354    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7236    2.1378    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.0830    1.1506    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.4515    1.8887    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2750    1.9387    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  2  0  0  0  0
  5  3  1  6  0  0  0
  5  6  1  0  0  0  0
  6  7  1  0  0  0  0
  7  8  1  1  0  0  0
  7  9  1  0  0  0  0
  9 10  1  1  0  0  0
  5 10  1  0  0  0  0
  9 11  1  0  0  0  0
 11 12  1  6  0  0  0
 11 13  1  0  0  0  0
 13 14  2  0  0  0  0
 13 15  1  0  0  0  0
 15 16  1  1  0  0  0
 15 17  1  0  0  0  0
 17 18  2  0  0  0  0
 18 19  1  0  0  0  0
 19 20  1  0  0  0  0
 20 21  1  0  0  0  0
 15 21  1  0  0  0  0
  9 21  1  0  0  0  0
 21 22  1  6  0  0  0
 18 23  1  0  0  0  0
 23 24  1  6  0  0  0
 23 25  1  0  0  0  0
 25 26  1  0  0  0  0
 26 27  1  0  0  0  0
 27 28  1  6  0  0  0
 27 29  1  0  0  0  0
 29 30  1  1  0  0  0
 29 31  1  6  0  0  0
 31 32  1  0  0  0  0
 29 33  1  0  0  0  0
 23 33  1  0  0  0  0
 33 34  1  6  0  0  0
 34 35  1  0  0  0  0
 17 35  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0240933

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CCC(=O)[C@@H]1C[C@@H](C)[C@@]2(O1)[C@@H](O)C(=O)[C@@]1(C)C3=C(CC[C@]21C)[C@@]1(C)CC[C@H](O)[C@](C)(CO)[C@@H]1CC3

> <INCHI_IDENTIFIER>
InChI=1S/C29H44O6/c1-7-19(31)20-14-16(2)29(35-20)24(34)23(33)28(6)18-8-9-21-25(3,17(18)10-13-27(28,29)5)12-11-22(32)26(21,4)15-30/h16,20-22,24,30,32,34H,7-15H2,1-6H3/t16-,20+,21-,22+,24+,25-,26-,27+,28-,29-/m1/s1

> <INCHI_KEY>
KWZWSZIGIKJZCY-XPRZMMGKSA-N

> <FORMULA>
C29H44O6

> <MOLECULAR_WEIGHT>
488.665

> <EXACT_MASS>
488.313789137

> <JCHEM_ACCEPTOR_COUNT>
6

> <JCHEM_ATOM_COUNT>
79

> <JCHEM_AVERAGE_POLARIZABILITY>
55.5711291364445

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(2S,2'S,3R,5S,5'S,6'S,7'R,11'S,13'R,15'S)-5',13'-dihydroxy-6'-(hydroxymethyl)-2',3,6',11',15'-pentamethyl-5-propanoylspiro[oxolane-2,14'-tetracyclo[8.7.0.0^{2,7}.0^{11,15}]heptadecan]-1'(10')-en-12'-one

> <JCHEM_LOGP>
3.3480012786666657

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
5

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
14.48693725819928

> <JCHEM_PKA_STRONGEST_ACIDIC>
12.2126899217461

> <JCHEM_PKA_STRONGEST_BASIC>
-2.785682913953086

> <JCHEM_POLAR_SURFACE_AREA>
104.06

> <JCHEM_REFRACTIVITY>
132.8728

> <JCHEM_ROTATABLE_BOND_COUNT>
3

> <JCHEM_RULE_OF_FIVE>
1

> <JCHEM_TRADITIONAL_IUPAC>
(2S,2'S,3R,5S,5'S,6'S,7'R,11'S,13'R,15'S)-5',13'-dihydroxy-6'-(hydroxymethyl)-2',3,6',11',15'-pentamethyl-5-propanoylspiro[oxolane-2,14'-tetracyclo[8.7.0.0^{2,7}.0^{11,15}]heptadecan]-1'(10')-en-12'-one

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 07-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   07-SEP-22         0                                  
HETATM    1  C   UNK     0      15.087  -0.823   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      13.549  -0.755   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0      12.839   0.612   0.000  0.00  0.00           C+0
HETATM    4  O   UNK     0      13.667   1.910   0.000  0.00  0.00           O+0
HETATM    5  C   UNK     0      11.300   0.680   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0      10.341  -0.525   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       9.043   0.178   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       7.614  -0.834   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       8.967   1.553   0.000  0.00  0.00           C+0
HETATM   10  O   UNK     0      10.451   1.964   0.000  0.00  0.00           O+0
HETATM   11  C   UNK     0       9.035   3.092   0.000  0.00  0.00           C+0
HETATM   12  O   UNK     0      10.319   3.941   0.000  0.00  0.00           O+0
HETATM   13  C   UNK     0       7.592   3.632   0.000  0.00  0.00           C+0
HETATM   14  O   UNK     0       7.182   5.116   0.000  0.00  0.00           O+0
HETATM   15  C   UNK     0       6.633   2.427   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       5.923   3.794   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       5.096   2.334   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       4.408   0.956   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       5.257  -0.328   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0       6.794  -0.235   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0       7.482   1.143   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0       8.461  -0.046   0.000  0.00  0.00           C+0
HETATM   23  C   UNK     0       2.871   0.863   0.000  0.00  0.00           C+0
HETATM   24  C   UNK     0       3.720  -0.421   0.000  0.00  0.00           C+0
HETATM   25  C   UNK     0       2.183  -0.515   0.000  0.00  0.00           C+0
HETATM   26  C   UNK     0       0.646  -0.608   0.000  0.00  0.00           C+0
HETATM   27  C   UNK     0      -0.203   0.677   0.000  0.00  0.00           C+0
HETATM   28  O   UNK     0      -1.741   0.584   0.000  0.00  0.00           O+0
HETATM   29  C   UNK     0       0.484   2.055   0.000  0.00  0.00           C+0
HETATM   30  C   UNK     0       0.660   3.585   0.000  0.00  0.00           C+0
HETATM   31  C   UNK     0      -0.992   2.493   0.000  0.00  0.00           C+0
HETATM   32  O   UNK     0      -1.351   3.990   0.000  0.00  0.00           O+0
HETATM   33  C   UNK     0       2.022   2.148   0.000  0.00  0.00           C+0
HETATM   34  C   UNK     0       2.709   3.526   0.000  0.00  0.00           C+0
HETATM   35  C   UNK     0       4.247   3.619   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3                                                       
CONECT    3    2    4    5                                                  
CONECT    4    3                                                            
CONECT    5    3    6   10                                                  
CONECT    6    5    7                                                       
CONECT    7    6    8    9                                                  
CONECT    8    7                                                            
CONECT    9    7   10   11   21                                             
CONECT   10    9    5                                                       
CONECT   11    9   12   13                                                  
CONECT   12   11                                                            
CONECT   13   11   14   15                                                  
CONECT   14   13                                                            
CONECT   15   13   16   17   21                                             
CONECT   16   15                                                            
CONECT   17   15   18   35                                                  
CONECT   18   17   19   23                                                  
CONECT   19   18   20                                                       
CONECT   20   19   21                                                       
CONECT   21   20   15    9   22                                             
CONECT   22   21                                                            
CONECT   23   18   24   25   33                                             
CONECT   24   23                                                            
CONECT   25   23   26                                                       
CONECT   26   25   27                                                       
CONECT   27   26   28   29                                                  
CONECT   28   27                                                            
CONECT   29   27   30   31   33                                             
CONECT   30   29                                                            
CONECT   31   29   32                                                       
CONECT   32   31                                                            
CONECT   33   29   23   34                                                  
CONECT   34   33   35                                                       
CONECT   35   34   17                                                       
MASTER        0    0    0    0    0    0    0    0   35    0   78    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₂₉H₄₄O₆

Average Mass

488.6650 Da

Monoisotopic Mass

488.31379 Da

IUPAC Name

Not Available

Traditional Name

Not Available

CAS Registry Number

Not Available

SMILES

CCC(=O)[C@@H]1C[C@@H](C)[C@@]2(O1)[C@@H](O)C(=O)[C@@]1(C)C3=C(CC[C@]21C)[C@@]1(C)CC[C@H](O)[C@](C)(CO)[C@@H]1CC3

InChI Identifier

InChI=1S/C29H44O6/c1-7-19(31)20-14-16(2)29(35-20)24(34)23(33)28(6)18-8-9-21-25(3,17(18)10-13-27(28,29)5)12-11-22(32)26(21,4)15-30/h16,20-22,24,30,32,34H,7-15H2,1-6H3/t16-,20+,21-,22+,24+,25-,26-,27+,28-,29-/m1/s1

InChI Key

KWZWSZIGIKJZCY-XPRZMMGKSA-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
Eucomis punctata	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as triterpenoids. These are terpene molecules containing six isoprene units.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Prenol lipids

Sub Class

Triterpenoids

Direct Parent

Triterpenoids

Alternative Parents

Substituents

Triterpenoid
3-hydroxysteroid
14-alpha-methylsteroid
Hydroxysteroid
15-oxosteroid
Oxosteroid
3-beta-hydroxysteroid
16-hydroxysteroid
16-beta-hydroxysteroid
Steroid
Cyclic alcohol
Tetrahydrofuran
Ketone
Secondary alcohol
Organoheterocyclic compound
Oxacycle
Ether
Dialkyl ether
Organooxygen compound
Organic oxygen compound
Hydrocarbon derivative
Organic oxide
Carbonyl group
Primary alcohol
Alcohol
Aliphatic heteropolycyclic compound

Molecular Framework

Aliphatic 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

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

Not Available

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

163015919

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for (1s,2r,3'r,3as,5's,5ar,6s,7s,9as,11as)-2,7-dihydroxy-6-(hydroxymethyl)-3',3a,6,9a,11a-pentamethyl-5'-propanoyl-4,5,5a,7,8,9,10,11-octahydro-2h-spiro[cyclopenta[a]phenanthrene-1,2'-oxolan]-3-one (NP0240933)

MOL for NP0240933 ((1s,2r,3'r,3as,5's,5ar,6s,7s,9as,11as)-2,7-dihydroxy-6-(hydroxymethyl)-3',3a,6,9a,11a-pentamethyl-5'-propanoyl-4,5,5a,7,8,9,10,11-octahydro-2h-spiro[cyclopenta[a]phenanthrene-1,2'-oxolan]-3-one)

3D MOL for NP0240933 ((1s,2r,3'r,3as,5's,5ar,6s,7s,9as,11as)-2,7-dihydroxy-6-(hydroxymethyl)-3',3a,6,9a,11a-pentamethyl-5'-propanoyl-4,5,5a,7,8,9,10,11-octahydro-2h-spiro[cyclopenta[a]phenanthrene-1,2'-oxolan]-3-one)

3D SDF for NP0240933 ((1s,2r,3'r,3as,5's,5ar,6s,7s,9as,11as)-2,7-dihydroxy-6-(hydroxymethyl)-3',3a,6,9a,11a-pentamethyl-5'-propanoyl-4,5,5a,7,8,9,10,11-octahydro-2h-spiro[cyclopenta[a]phenanthrene-1,2'-oxolan]-3-one)

3D-SDF for NP0240933 ((1s,2r,3'r,3as,5's,5ar,6s,7s,9as,11as)-2,7-dihydroxy-6-(hydroxymethyl)-3',3a,6,9a,11a-pentamethyl-5'-propanoyl-4,5,5a,7,8,9,10,11-octahydro-2h-spiro[cyclopenta[a]phenanthrene-1,2'-oxolan]-3-one)

PDB for NP0240933 ((1s,2r,3'r,3as,5's,5ar,6s,7s,9as,11as)-2,7-dihydroxy-6-(hydroxymethyl)-3',3a,6,9a,11a-pentamethyl-5'-propanoyl-4,5,5a,7,8,9,10,11-octahydro-2h-spiro[cyclopenta[a]phenanthrene-1,2'-oxolan]-3-one)

3D PDB for NP0240933 ((1s,2r,3'r,3as,5's,5ar,6s,7s,9as,11as)-2,7-dihydroxy-6-(hydroxymethyl)-3',3a,6,9a,11a-pentamethyl-5'-propanoyl-4,5,5a,7,8,9,10,11-octahydro-2h-spiro[cyclopenta[a]phenanthrene-1,2'-oxolan]-3-one)

SMILES for NP0240933 ((1s,2r,3'r,3as,5's,5ar,6s,7s,9as,11as)-2,7-dihydroxy-6-(hydroxymethyl)-3',3a,6,9a,11a-pentamethyl-5'-propanoyl-4,5,5a,7,8,9,10,11-octahydro-2h-spiro[cyclopenta[a]phenanthrene-1,2'-oxolan]-3-one)

INCHI for NP0240933 ((1s,2r,3'r,3as,5's,5ar,6s,7s,9as,11as)-2,7-dihydroxy-6-(hydroxymethyl)-3',3a,6,9a,11a-pentamethyl-5'-propanoyl-4,5,5a,7,8,9,10,11-octahydro-2h-spiro[cyclopenta[a]phenanthrene-1,2'-oxolan]-3-one)

Structure for NP0240933 ((1s,2r,3'r,3as,5's,5ar,6s,7s,9as,11as)-2,7-dihydroxy-6-(hydroxymethyl)-3',3a,6,9a,11a-pentamethyl-5'-propanoyl-4,5,5a,7,8,9,10,11-octahydro-2h-spiro[cyclopenta[a]phenanthrene-1,2'-oxolan]-3-one)

3D Structure for NP0240933 ((1s,2r,3'r,3as,5's,5ar,6s,7s,9as,11as)-2,7-dihydroxy-6-(hydroxymethyl)-3',3a,6,9a,11a-pentamethyl-5'-propanoyl-4,5,5a,7,8,9,10,11-octahydro-2h-spiro[cyclopenta[a]phenanthrene-1,2'-oxolan]-3-one)