NP-MRD: Showing NP-Card for 9-(hydroxymethyl)-4,5,9,13,21-pentamethyl-19-oxahexacyclo[19.2.1.0¹,¹⁸.0⁴,¹⁷.0⁵,¹⁴.0⁸,¹³]tetracos-16-ene-10,11,20-triol (NP0287856)

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Record Information

Version

2.0

Created at

2022-09-09 17:18:11 UTC

Updated at

2022-09-09 17:18:11 UTC

NP-MRD ID

NP0287856

Secondary Accession Numbers

None

Natural Product Identification

Common Name

9-(hydroxymethyl)-4,5,9,13,21-pentamethyl-19-oxahexacyclo[19.2.1.0¹,¹⁸.0⁴,¹⁷.0⁵,¹⁴.0⁸,¹³]tetracos-16-ene-10,11,20-triol

Description

9-(Hydroxymethyl)-4,5,9,13,21-pentamethyl-19-oxahexacyclo[19.2.1.0¹,¹⁸.0⁴,¹⁷.0⁵,¹⁴.0⁸,¹³]Tetracos-16-ene-10,11,20-triol belongs to the class of organic compounds known as 12-hydroxysteroids. These are steroids carrying a hydroxyl group at the 12-position of the steroid backbone. 9-(Hydroxymethyl)-4,5,9,13,21-pentamethyl-19-oxahexacyclo[19.2.1.0¹,¹⁸.0⁴,¹⁷.0⁵,¹⁴.0⁸,¹³]Tetracos-16-ene-10,11,20-triol is an extremely weak basic (essentially neutral) compound (based on its pKa).

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1533004171501072D          

 34 39  0  0  0  0            999 V2000
    0.5781    1.1688    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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M  END

     RDKit          3D

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M  END


  Mrv1533004171501072D          

 34 39  0  0  0  0            999 V2000
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    1.8274    1.4130    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5273    2.1815    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.8644    0.2801    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  1  0  0  0  0
  4  5  1  0  0  0  0
  5  6  1  0  0  0  0
  6  7  1  0  0  0  0
  7  8  1  0  0  0  0
  8  9  1  0  0  0  0
  8 10  1  0  0  0  0
 10 11  2  0  0  0  0
 11 12  1  0  0  0  0
 12 13  1  0  0  0  0
 13 14  1  0  0  0  0
 14 15  1  0  0  0  0
 14 16  1  0  0  0  0
 16 17  1  0  0  0  0
 17 18  1  0  0  0  0
 17 19  1  0  0  0  0
 19 20  1  0  0  0  0
 19 21  1  0  0  0  0
 21 22  1  0  0  0  0
 21 23  1  0  0  0  0
 23 24  1  0  0  0  0
 21 25  1  0  0  0  0
 14 25  1  0  0  0  0
 25 26  1  0  0  0  0
 26 27  1  0  0  0  0
 27 28  1  0  0  0  0
  8 28  1  0  0  0  0
 13 28  1  0  0  0  0
 28 29  1  0  0  0  0
 10 30  1  0  0  0  0
  5 30  1  0  0  0  0
 30 31  1  0  0  0  0
 31 32  1  0  0  0  0
  2 32  1  0  0  0  0
 32 33  1  0  0  0  0
  5 34  1  0  0  0  0
  2 34  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0287856

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CC12CCC3(C1)CCC1(C)C(=CCC4C5(C)CC(O)C(O)C(C)(CO)C5CCC14C)C3OC2O

> <INCHI_IDENTIFIER>
InChI=1S/C29H46O5/c1-24-10-12-29(15-24)13-11-27(4)17(22(29)34-23(24)33)6-7-20-25(2)14-18(31)21(32)26(3,16-30)19(25)8-9-28(20,27)5/h6,18-23,30-33H,7-16H2,1-5H3

> <INCHI_KEY>
XLAUZSZKRPMISA-UHFFFAOYSA-N

> <FORMULA>
C29H46O5

> <MOLECULAR_WEIGHT>
474.682

> <EXACT_MASS>
474.334524581

> <JCHEM_ACCEPTOR_COUNT>
5

> <JCHEM_ATOM_COUNT>
80

> <JCHEM_AVERAGE_POLARIZABILITY>
55.13020390221364

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
4

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
9-(hydroxymethyl)-4,5,9,13,21-pentamethyl-19-oxahexacyclo[19.2.1.0¹,¹⁸.0⁴,¹⁷.0⁵,¹⁴.0⁸,¹³]tetracos-16-ene-10,11,20-triol

> <ALOGPS_LOGP>
3.43

> <JCHEM_LOGP>
3.202251841333333

> <ALOGPS_LOGS>
-4.38

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
6

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
13.56397901245725

> <JCHEM_PKA_STRONGEST_ACIDIC>
11.942662215189118

> <JCHEM_PKA_STRONGEST_BASIC>
-2.787482617442926

> <JCHEM_POLAR_SURFACE_AREA>
90.15

> <JCHEM_REFRACTIVITY>
131.1509

> <JCHEM_ROTATABLE_BOND_COUNT>
1

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
1.98e-02 g/l

> <JCHEM_TRADITIONAL_IUPAC>
9-(hydroxymethyl)-4,5,9,13,21-pentamethyl-19-oxahexacyclo[19.2.1.0¹,¹⁸.0⁴,¹⁷.0⁵,¹⁴.0⁸,¹³]tetracos-16-ene-10,11,20-triol

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 17-APR-15   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   17-APR-15         0                                  
HETATM    1  C   UNK     0       1.079   2.182   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       2.393   1.378   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       1.738  -0.098   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       2.953  -1.187   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       4.447  -0.422   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       5.208  -1.821   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       6.758  -1.977   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       7.657  -0.717   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       8.288  -2.121   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       7.032   0.691   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       7.939   1.936   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       9.471   1.773   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0      10.095   0.365   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0      11.626   0.202   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0      11.002   1.609   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0      12.533   1.446   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0      14.065   1.283   0.000  0.00  0.00           C+0
HETATM   18  O   UNK     0      14.971   2.528   0.000  0.00  0.00           O+0
HETATM   19  C   UNK     0      14.689  -0.124   0.000  0.00  0.00           C+0
HETATM   20  O   UNK     0      16.220  -0.287   0.000  0.00  0.00           O+0
HETATM   21  C   UNK     0      13.782  -1.369   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0      13.356  -2.849   0.000  0.00  0.00           C+0
HETATM   23  C   UNK     0      15.165  -2.046   0.000  0.00  0.00           C+0
HETATM   24  O   UNK     0      15.271  -3.582   0.000  0.00  0.00           O+0
HETATM   25  C   UNK     0      12.251  -1.206   0.000  0.00  0.00           C+0
HETATM   26  C   UNK     0      11.344  -2.451   0.000  0.00  0.00           C+0
HETATM   27  C   UNK     0       9.813  -2.288   0.000  0.00  0.00           C+0
HETATM   28  C   UNK     0       9.188  -0.880   0.000  0.00  0.00           C+0
HETATM   29  C   UNK     0       9.186  -2.420   0.000  0.00  0.00           C+0
HETATM   30  C   UNK     0       5.481   0.859   0.000  0.00  0.00           C+0
HETATM   31  O   UNK     0       4.991   2.405   0.000  0.00  0.00           O+0
HETATM   32  C   UNK     0       3.411   2.638   0.000  0.00  0.00           C+0
HETATM   33  O   UNK     0       2.851   4.072   0.000  0.00  0.00           O+0
HETATM   34  C   UNK     0       3.480   0.523   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3   32   34                                             
CONECT    3    2    4                                                       
CONECT    4    3    5                                                       
CONECT    5    4    6   30   34                                             
CONECT    6    5    7                                                       
CONECT    7    6    8                                                       
CONECT    8    7    9   10   28                                             
CONECT    9    8                                                            
CONECT   10    8   11   30                                                  
CONECT   11   10   12                                                       
CONECT   12   11   13                                                       
CONECT   13   12   14   28                                                  
CONECT   14   13   15   16   25                                             
CONECT   15   14                                                            
CONECT   16   14   17                                                       
CONECT   17   16   18   19                                                  
CONECT   18   17                                                            
CONECT   19   17   20   21                                                  
CONECT   20   19                                                            
CONECT   21   19   22   23   25                                             
CONECT   22   21                                                            
CONECT   23   21   24                                                       
CONECT   24   23                                                            
CONECT   25   21   14   26                                                  
CONECT   26   25   27                                                       
CONECT   27   26   28                                                       
CONECT   28   27    8   13   29                                             
CONECT   29   28                                                            
CONECT   30   10    5   31                                                  
CONECT   31   30   32                                                       
CONECT   32   31    2   33                                                  
CONECT   33   32                                                            
CONECT   34    5    2                                                       
MASTER        0    0    0    0    0    0    0    0   34    0   78    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₂₉H₄₆O₅

Average Mass

474.6820 Da

Monoisotopic Mass

474.33452 Da

IUPAC Name

9-(hydroxymethyl)-4,5,9,13,21-pentamethyl-19-oxahexacyclo[19.2.1.0¹,¹⁸.0⁴,¹⁷.0⁵,¹⁴.0⁸,¹³]tetracos-16-ene-10,11,20-triol

Traditional Name

9-(hydroxymethyl)-4,5,9,13,21-pentamethyl-19-oxahexacyclo[19.2.1.0¹,¹⁸.0⁴,¹⁷.0⁵,¹⁴.0⁸,¹³]tetracos-16-ene-10,11,20-triol

CAS Registry Number

Not Available

SMILES

CC12CCC3(C1)CCC1(C)C(=CCC4C5(C)CC(O)C(O)C(C)(CO)C5CCC14C)C3OC2O

InChI Identifier

InChI=1S/C29H46O5/c1-24-10-12-29(15-24)13-11-27(4)17(22(29)34-23(24)33)6-7-20-25(2)14-18(31)21(32)26(3,16-30)19(25)8-9-28(20,27)5/h6,18-23,30-33H,7-16H2,1-5H3

InChI Key

XLAUZSZKRPMISA-UHFFFAOYSA-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

Not Available

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as 12-hydroxysteroids. These are steroids carrying a hydroxyl group at the 12-position of the steroid backbone.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Steroids and steroid derivatives

Sub Class

Hydroxysteroids

Direct Parent

12-hydroxysteroids

Alternative Parents

Substituents

12-hydroxysteroid
Naphthopyran
Naphthalene
Oxepane
Pyran
Oxane
Cyclic alcohol
Secondary alcohol
Hemiacetal
Polyol
Oxacycle
Organoheterocyclic compound
Primary alcohol
Alcohol
Organooxygen compound
Hydrocarbon derivative
Organic oxygen compound
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
logP	3.43	ALOGPS
logP	3.2	ChemAxon
logS	-4.4	ALOGPS
pKa (Strongest Acidic)	11.94	ChemAxon
pKa (Strongest Basic)	-2.8	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	5	ChemAxon
Hydrogen Donor Count	4	ChemAxon
Polar Surface Area	90.15 Å²	ChemAxon
Rotatable Bond Count	1	ChemAxon
Refractivity	131.15 m³·mol⁻¹	ChemAxon
Polarizability	55.13 Å³	ChemAxon
Number of Rings	6	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	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

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

Not Available

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for 9-(hydroxymethyl)-4,5,9,13,21-pentamethyl-19-oxahexacyclo[19.2.1.0¹,¹⁸.0⁴,¹⁷.0⁵,¹⁴.0⁸,¹³]tetracos-16-ene-10,11,20-triol (NP0287856)

MOL for NP0287856 (9-(hydroxymethyl)-4,5,9,13,21-pentamethyl-19-oxahexacyclo[19.2.1.0¹,¹⁸.0⁴,¹⁷.0⁵,¹⁴.0⁸,¹³]tetracos-16-ene-10,11,20-triol)

3D MOL for NP0287856 (9-(hydroxymethyl)-4,5,9,13,21-pentamethyl-19-oxahexacyclo[19.2.1.0¹,¹⁸.0⁴,¹⁷.0⁵,¹⁴.0⁸,¹³]tetracos-16-ene-10,11,20-triol)

3D SDF for NP0287856 (9-(hydroxymethyl)-4,5,9,13,21-pentamethyl-19-oxahexacyclo[19.2.1.0¹,¹⁸.0⁴,¹⁷.0⁵,¹⁴.0⁸,¹³]tetracos-16-ene-10,11,20-triol)

3D-SDF for NP0287856 (9-(hydroxymethyl)-4,5,9,13,21-pentamethyl-19-oxahexacyclo[19.2.1.0¹,¹⁸.0⁴,¹⁷.0⁵,¹⁴.0⁸,¹³]tetracos-16-ene-10,11,20-triol)

PDB for NP0287856 (9-(hydroxymethyl)-4,5,9,13,21-pentamethyl-19-oxahexacyclo[19.2.1.0¹,¹⁸.0⁴,¹⁷.0⁵,¹⁴.0⁸,¹³]tetracos-16-ene-10,11,20-triol)

3D PDB for NP0287856 (9-(hydroxymethyl)-4,5,9,13,21-pentamethyl-19-oxahexacyclo[19.2.1.0¹,¹⁸.0⁴,¹⁷.0⁵,¹⁴.0⁸,¹³]tetracos-16-ene-10,11,20-triol)

SMILES for NP0287856 (9-(hydroxymethyl)-4,5,9,13,21-pentamethyl-19-oxahexacyclo[19.2.1.0¹,¹⁸.0⁴,¹⁷.0⁵,¹⁴.0⁸,¹³]tetracos-16-ene-10,11,20-triol)

INCHI for NP0287856 (9-(hydroxymethyl)-4,5,9,13,21-pentamethyl-19-oxahexacyclo[19.2.1.0¹,¹⁸.0⁴,¹⁷.0⁵,¹⁴.0⁸,¹³]tetracos-16-ene-10,11,20-triol)

Structure for NP0287856 (9-(hydroxymethyl)-4,5,9,13,21-pentamethyl-19-oxahexacyclo[19.2.1.0¹,¹⁸.0⁴,¹⁷.0⁵,¹⁴.0⁸,¹³]tetracos-16-ene-10,11,20-triol)

3D Structure for NP0287856 (9-(hydroxymethyl)-4,5,9,13,21-pentamethyl-19-oxahexacyclo[19.2.1.0¹,¹⁸.0⁴,¹⁷.0⁵,¹⁴.0⁸,¹³]tetracos-16-ene-10,11,20-triol)