NP-MRD: Showing NP-Card for (3s,3as,5s,5ar,5br,7as,11as,11br,13ar,13bs)-3-(2-hydroxypropan-2-yl)-5a,5b,8,8,11a,13b-hexamethyl-hexadecahydrocyclopenta[a]chrysen-5-yl acetate (NP0185421)

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Record Information

Version

2.0

Created at

2022-09-04 00:48:59 UTC

Updated at

2022-09-04 00:49:00 UTC

NP-MRD ID

NP0185421

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(3s,3as,5s,5ar,5br,7as,11as,11br,13ar,13bs)-3-(2-hydroxypropan-2-yl)-5a,5b,8,8,11a,13b-hexamethyl-hexadecahydrocyclopenta[a]chrysen-5-yl acetate

Description

Dolichorrhizin belongs to the class of organic compounds known as hopanoids. These are terpenoids containing hopane skeleton(A'-Neogammacerane), a pentacyclic structure with four cyclohexane rings and one cyclopentane ring (and often, a side chain emerging from C30). (3s,3as,5s,5ar,5br,7as,11as,11br,13ar,13bs)-3-(2-hydroxypropan-2-yl)-5a,5b,8,8,11a,13b-hexamethyl-hexadecahydrocyclopenta[a]chrysen-5-yl acetate is found in Peltigera aphthosa, Peltigera dolichorrhiza and Peltigera polydactylon. Based on a literature review very few articles have been published on Dolichorrhizin.

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1652309042202492D          

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M  END

     RDKit          3D

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M  END


  Mrv1652309042202492D          

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    3.9615   -4.3853    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    4.7864   -4.3979    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    4.3848   -3.6772    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.2097   -3.6898    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.0346   -3.7023    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.4362   -4.4230    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.0129   -5.1311    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.7838   -5.4250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.8573   -5.9413    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.1880   -5.1186    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    4.7647   -5.8267    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9398   -5.8141    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5382   -5.0935    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.1149   -5.8016    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.7133   -5.0809    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.6146   -5.9000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  0  0  0
  2  3  2  0  0  0  0
  2  4  1  0  0  0  0
  5  4  1  1  0  0  0
  5  6  1  0  0  0  0
  7  6  1  1  0  0  0
  7  8  1  0  0  0  0
  8  9  1  1  0  0  0
  9 10  1  0  0  0  0
  9 11  1  0  0  0  0
  9 12  1  0  0  0  0
  8 13  1  0  0  0  0
 13 14  1  0  0  0  0
 14 15  1  0  0  0  0
  7 15  1  0  0  0  0
 15 16  1  1  0  0  0
 15 17  1  0  0  0  0
 17 18  1  1  0  0  0
 18 19  1  0  0  0  0
 20 19  1  6  0  0  0
 20 21  1  0  0  0  0
 21 22  1  6  0  0  0
 21 23  1  0  0  0  0
 23 24  1  0  0  0  0
 24 25  1  0  0  0  0
 25 26  1  0  0  0  0
 26 27  1  0  0  0  0
 26 28  1  0  0  0  0
 26 29  1  0  0  0  0
 21 29  1  0  0  0  0
 29 30  1  6  0  0  0
 30 31  1  0  0  0  0
 31 32  1  0  0  0  0
 20 32  1  0  0  0  0
 32 33  1  6  0  0  0
 32 34  1  0  0  0  0
  5 34  1  0  0  0  0
 17 34  1  0  0  0  0
 34 35  1  1  0  0  0
M  END
> <DATABASE_ID>
NP0185421

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CC(=O)O[C@H]1C[C@H]2[C@H](CC[C@]2(C)[C@H]2CC[C@@H]3[C@@]4(C)CCCC(C)(C)[C@@H]4CC[C@@]3(C)[C@]12C)C(C)(C)O

> <INCHI_IDENTIFIER>
InChI=1S/C32H54O3/c1-20(33)35-26-19-22-21(28(4,5)34)13-17-29(22,6)25-12-11-24-30(7)16-10-15-27(2,3)23(30)14-18-31(24,8)32(25,26)9/h21-26,34H,10-19H2,1-9H3/t21-,22-,23-,24+,25+,26-,29-,30-,31+,32-/m0/s1

> <INCHI_KEY>
RABGCIVYLSICGM-OSGMSVDOSA-N

> <FORMULA>
C32H54O3

> <MOLECULAR_WEIGHT>
486.781

> <EXACT_MASS>
486.407295599

> <JCHEM_ACCEPTOR_COUNT>
2

> <JCHEM_ATOM_COUNT>
89

> <JCHEM_AVERAGE_POLARIZABILITY>
59.63071766154644

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(1R,2R,3S,5S,6S,9S,10R,13R,14S,19S)-6-(2-hydroxypropan-2-yl)-1,2,9,14,18,18-hexamethylpentacyclo[11.8.0.0^{2,10}.0^{5,9}.0^{14,19}]henicosan-3-yl acetate

> <JCHEM_LOGP>
6.843656747333332

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
5

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA_STRONGEST_ACIDIC>
19.47743430620276

> <JCHEM_PKA_STRONGEST_BASIC>
-0.8403699364142051

> <JCHEM_POLAR_SURFACE_AREA>
46.53

> <JCHEM_REFRACTIVITY>
142.0414

> <JCHEM_ROTATABLE_BOND_COUNT>
3

> <JCHEM_RULE_OF_FIVE>
0

> <JCHEM_TRADITIONAL_IUPAC>
(1R,2R,3S,5S,6S,9S,10R,13R,14S,19S)-6-(2-hydroxypropan-2-yl)-1,2,9,14,18,18-hexamethylpentacyclo[11.8.0.0^{2,10}.0^{5,9}.0^{14,19}]henicosan-3-yl acetate

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 04-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   04-SEP-22         0                                  
HETATM    1  C   UNK     0       2.694 -13.450   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       4.234 -13.473   0.000  0.00  0.00           C+0
HETATM    3  O   UNK     0       4.984 -14.818   0.000  0.00  0.00           O+0
HETATM    4  O   UNK     0       5.024 -12.151   0.000  0.00  0.00           O+0
HETATM    5  C   UNK     0       4.275 -10.806   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       2.735 -10.783   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       1.985  -9.438   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       0.484  -9.094   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0      -0.676 -10.107   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0      -1.836 -11.120   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       0.337 -11.267   0.000  0.00  0.00           C+0
HETATM   12  O   UNK     0      -1.689  -8.947   0.000  0.00  0.00           O+0
HETATM   13  C   UNK     0       0.346  -7.561   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       1.762  -6.956   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       2.775  -8.116   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       3.423  -6.719   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       4.315  -8.139   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       5.105  -6.817   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       6.645  -6.841   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0       7.395  -8.186   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0       8.935  -8.209   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0       8.185  -6.864   0.000  0.00  0.00           C+0
HETATM   23  C   UNK     0       9.725  -6.888   0.000  0.00  0.00           C+0
HETATM   24  C   UNK     0      11.265  -6.911   0.000  0.00  0.00           C+0
HETATM   25  C   UNK     0      12.014  -8.256   0.000  0.00  0.00           C+0
HETATM   26  C   UNK     0      11.224  -9.578   0.000  0.00  0.00           C+0
HETATM   27  C   UNK     0      12.663 -10.127   0.000  0.00  0.00           C+0
HETATM   28  C   UNK     0      10.934 -11.090   0.000  0.00  0.00           C+0
HETATM   29  C   UNK     0       9.684  -9.555   0.000  0.00  0.00           C+0
HETATM   30  C   UNK     0       8.894 -10.876   0.000  0.00  0.00           C+0
HETATM   31  C   UNK     0       7.354 -10.853   0.000  0.00  0.00           C+0
HETATM   32  C   UNK     0       6.605  -9.508   0.000  0.00  0.00           C+0
HETATM   33  C   UNK     0       5.814 -10.830   0.000  0.00  0.00           C+0
HETATM   34  C   UNK     0       5.065  -9.484   0.000  0.00  0.00           C+0
HETATM   35  C   UNK     0       4.881 -11.013   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3    4                                                  
CONECT    3    2                                                            
CONECT    4    2    5                                                       
CONECT    5    4    6   34                                                  
CONECT    6    5    7                                                       
CONECT    7    6    8   15                                                  
CONECT    8    7    9   13                                                  
CONECT    9    8   10   11   12                                             
CONECT   10    9                                                            
CONECT   11    9                                                            
CONECT   12    9                                                            
CONECT   13    8   14                                                       
CONECT   14   13   15                                                       
CONECT   15   14    7   16   17                                             
CONECT   16   15                                                            
CONECT   17   15   18   34                                                  
CONECT   18   17   19                                                       
CONECT   19   18   20                                                       
CONECT   20   19   21   32                                                  
CONECT   21   20   22   23   29                                             
CONECT   22   21                                                            
CONECT   23   21   24                                                       
CONECT   24   23   25                                                       
CONECT   25   24   26                                                       
CONECT   26   25   27   28   29                                             
CONECT   27   26                                                            
CONECT   28   26                                                            
CONECT   29   26   21   30                                                  
CONECT   30   29   31                                                       
CONECT   31   30   32                                                       
CONECT   32   31   20   33   34                                             
CONECT   33   32                                                            
CONECT   34   32    5   17   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

C₃₂H₅₄O₃

Average Mass

486.7810 Da

Monoisotopic Mass

486.40730 Da

IUPAC Name

(1R,2R,3S,5S,6S,9S,10R,13R,14S,19S)-6-(2-hydroxypropan-2-yl)-1,2,9,14,18,18-hexamethylpentacyclo[11.8.0.0^{2,10}.0^{5,9}.0^{14,19}]henicosan-3-yl acetate

Traditional Name

(1R,2R,3S,5S,6S,9S,10R,13R,14S,19S)-6-(2-hydroxypropan-2-yl)-1,2,9,14,18,18-hexamethylpentacyclo[11.8.0.0^{2,10}.0^{5,9}.0^{14,19}]henicosan-3-yl acetate

CAS Registry Number

Not Available

SMILES

CC(=O)O[C@H]1C[C@H]2[C@H](CC[C@]2(C)[C@H]2CC[C@@H]3[C@@]4(C)CCCC(C)(C)[C@@H]4CC[C@@]3(C)[C@]12C)C(C)(C)O

InChI Identifier

InChI=1S/C32H54O3/c1-20(33)35-26-19-22-21(28(4,5)34)13-17-29(22,6)25-12-11-24-30(7)16-10-15-27(2,3)23(30)14-18-31(24,8)32(25,26)9/h21-26,34H,10-19H2,1-9H3/t21-,22-,23-,24+,25+,26-,29-,30-,31+,32-/m0/s1

InChI Key

RABGCIVYLSICGM-OSGMSVDOSA-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
Peltigera aphthosa	LOTUS Database	35616633
Peltigera dolichorrhiza	LOTUS Database	35616633
Peltigera polydactylon	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as hopanoids. These are terpenoids containing hopane skeleton(A'-Neogammacerane), a pentacyclic structure with four cyclohexane rings and one cyclopentane ring (and often, a side chain emerging from C30).

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Prenol lipids

Sub Class

Hopanoids

Direct Parent

Hopanoids

Alternative Parents

Substituents

Hopane-skeleton
Triterpenoid
20-hydroxysteroid
Steroid ester
Hydroxysteroid
Steroid
Tertiary alcohol
Carboxylic acid ester
Monocarboxylic acid or derivatives
Carboxylic acid derivative
Hydrocarbon derivative
Organic oxide
Organic oxygen compound
Alcohol
Carbonyl group
Organooxygen compound
Aliphatic homopolycyclic compound

Molecular Framework

Aliphatic homopolycyclic 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	6.84	ChemAxon
pKa (Strongest Acidic)	19.48	ChemAxon
pKa (Strongest Basic)	-0.84	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	2	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	46.53 Å²	ChemAxon
Rotatable Bond Count	3	ChemAxon
Refractivity	142.04 m³·mol⁻¹	ChemAxon
Polarizability	59.63 Å³	ChemAxon
Number of Rings	5	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

10197945

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

14259795

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for (3s,3as,5s,5ar,5br,7as,11as,11br,13ar,13bs)-3-(2-hydroxypropan-2-yl)-5a,5b,8,8,11a,13b-hexamethyl-hexadecahydrocyclopenta[a]chrysen-5-yl acetate (NP0185421)

MOL for NP0185421 ((3s,3as,5s,5ar,5br,7as,11as,11br,13ar,13bs)-3-(2-hydroxypropan-2-yl)-5a,5b,8,8,11a,13b-hexamethyl-hexadecahydrocyclopenta[a]chrysen-5-yl acetate)

3D MOL for NP0185421 ((3s,3as,5s,5ar,5br,7as,11as,11br,13ar,13bs)-3-(2-hydroxypropan-2-yl)-5a,5b,8,8,11a,13b-hexamethyl-hexadecahydrocyclopenta[a]chrysen-5-yl acetate)

3D SDF for NP0185421 ((3s,3as,5s,5ar,5br,7as,11as,11br,13ar,13bs)-3-(2-hydroxypropan-2-yl)-5a,5b,8,8,11a,13b-hexamethyl-hexadecahydrocyclopenta[a]chrysen-5-yl acetate)

3D-SDF for NP0185421 ((3s,3as,5s,5ar,5br,7as,11as,11br,13ar,13bs)-3-(2-hydroxypropan-2-yl)-5a,5b,8,8,11a,13b-hexamethyl-hexadecahydrocyclopenta[a]chrysen-5-yl acetate)

PDB for NP0185421 ((3s,3as,5s,5ar,5br,7as,11as,11br,13ar,13bs)-3-(2-hydroxypropan-2-yl)-5a,5b,8,8,11a,13b-hexamethyl-hexadecahydrocyclopenta[a]chrysen-5-yl acetate)

3D PDB for NP0185421 ((3s,3as,5s,5ar,5br,7as,11as,11br,13ar,13bs)-3-(2-hydroxypropan-2-yl)-5a,5b,8,8,11a,13b-hexamethyl-hexadecahydrocyclopenta[a]chrysen-5-yl acetate)

SMILES for NP0185421 ((3s,3as,5s,5ar,5br,7as,11as,11br,13ar,13bs)-3-(2-hydroxypropan-2-yl)-5a,5b,8,8,11a,13b-hexamethyl-hexadecahydrocyclopenta[a]chrysen-5-yl acetate)

INCHI for NP0185421 ((3s,3as,5s,5ar,5br,7as,11as,11br,13ar,13bs)-3-(2-hydroxypropan-2-yl)-5a,5b,8,8,11a,13b-hexamethyl-hexadecahydrocyclopenta[a]chrysen-5-yl acetate)

Structure for NP0185421 ((3s,3as,5s,5ar,5br,7as,11as,11br,13ar,13bs)-3-(2-hydroxypropan-2-yl)-5a,5b,8,8,11a,13b-hexamethyl-hexadecahydrocyclopenta[a]chrysen-5-yl acetate)

3D Structure for NP0185421 ((3s,3as,5s,5ar,5br,7as,11as,11br,13ar,13bs)-3-(2-hydroxypropan-2-yl)-5a,5b,8,8,11a,13b-hexamethyl-hexadecahydrocyclopenta[a]chrysen-5-yl acetate)