NP-MRD: Showing NP-Card for 3,5-dihydroxy-4-{[2-hydroxy-2-methyl-5-(prop-1-en-2-yl)cyclopentyl]methyl}-6-methyl-6-(3-methylbut-2-en-1-yl)-2-(2-methylbutanoyl)cyclohexa-2,4-dien-1-one (NP0212141)

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Record Information

Version

2.0

Created at

2022-09-05 10:42:17 UTC

Updated at

2022-09-05 10:42:17 UTC

NP-MRD ID

NP0212141

Secondary Accession Numbers

None

Natural Product Identification

Common Name

3,5-dihydroxy-4-{[2-hydroxy-2-methyl-5-(prop-1-en-2-yl)cyclopentyl]methyl}-6-methyl-6-(3-methylbut-2-en-1-yl)-2-(2-methylbutanoyl)cyclohexa-2,4-dien-1-one

Description

3,5-Dihydroxy-4-{[2-hydroxy-2-methyl-5-(prop-1-en-2-yl)cyclopentyl]methyl}-6-methyl-6-(3-methylbut-2-en-1-yl)-2-(2-methylbutanoyl)cyclohexa-2,4-dien-1-one belongs to the class of organic compounds known as monocyclic monoterpenoids. These are monoterpenoids containing 1 ring in the isoprene chain. 3,5-dihydroxy-4-{[2-hydroxy-2-methyl-5-(prop-1-en-2-yl)cyclopentyl]methyl}-6-methyl-6-(3-methylbut-2-en-1-yl)-2-(2-methylbutanoyl)cyclohexa-2,4-dien-1-one is found in Cratoxylum cochinchinense and Hypericum chinense. 3,5-Dihydroxy-4-{[2-hydroxy-2-methyl-5-(prop-1-en-2-yl)cyclopentyl]methyl}-6-methyl-6-(3-methylbut-2-en-1-yl)-2-(2-methylbutanoyl)cyclohexa-2,4-dien-1-one is an extremely weak basic (essentially neutral) compound (based on its pKa).

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1533004251510222D          

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M  END

     RDKit          3D

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M  END


  Mrv1533004251510222D          

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M  END
> <DATABASE_ID>
NP0212141

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CCC(C)C(=O)C1=C(O)C(CC2C(CCC2(C)O)C(C)=C)=C(O)C(C)(CC=C(C)C)C1=O

> <INCHI_IDENTIFIER>
InChI=1S/C27H40O5/c1-9-17(6)22(28)21-23(29)19(14-20-18(16(4)5)11-13-27(20,8)32)24(30)26(7,25(21)31)12-10-15(2)3/h10,17-18,20,29-30,32H,4,9,11-14H2,1-3,5-8H3

> <INCHI_KEY>
SEHZNEFMBPPMQP-UHFFFAOYSA-N

> <FORMULA>
C27H40O5

> <MOLECULAR_WEIGHT>
444.612

> <EXACT_MASS>
444.287574388

> <JCHEM_ACCEPTOR_COUNT>
5

> <JCHEM_ATOM_COUNT>
72

> <JCHEM_AVERAGE_POLARIZABILITY>
49.424859499952916

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
3,5-dihydroxy-4-{[2-hydroxy-2-methyl-5-(prop-1-en-2-yl)cyclopentyl]methyl}-6-methyl-6-(3-methylbut-2-en-1-yl)-2-(2-methylbutanoyl)cyclohexa-2,4-dien-1-one

> <ALOGPS_LOGP>
3.85

> <JCHEM_LOGP>
5.189209934666668

> <ALOGPS_LOGS>
-4.38

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
2

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-1

> <JCHEM_PKA>
8.155440167411776

> <JCHEM_PKA_STRONGEST_ACIDIC>
4.55439355324131

> <JCHEM_PKA_STRONGEST_BASIC>
-0.67016825293444

> <JCHEM_POLAR_SURFACE_AREA>
94.83

> <JCHEM_REFRACTIVITY>
131.08559999999997

> <JCHEM_ROTATABLE_BOND_COUNT>
8

> <JCHEM_RULE_OF_FIVE>
0

> <ALOGPS_SOLUBILITY>
1.84e-02 g/l

> <JCHEM_TRADITIONAL_IUPAC>
3,5-dihydroxy-4-{[2-hydroxy-2-methyl-5-(prop-1-en-2-yl)cyclopentyl]methyl}-6-methyl-6-(3-methylbut-2-en-1-yl)-2-(2-methylbutanoyl)cyclohexa-2,4-dien-1-one

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 25-APR-15   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   25-APR-15         0                                  
HETATM    1  C   UNK     0      -2.692  -5.766   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      -1.228  -5.290   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0      -0.907  -3.784   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      -2.052  -2.753   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       0.557  -3.308   0.000  0.00  0.00           C+0
HETATM    6  O   UNK     0       1.702  -4.338   0.000  0.00  0.00           O+0
HETATM    7  C   UNK     0       0.877  -1.802   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0      -0.267  -0.771   0.000  0.00  0.00           C+0
HETATM    9  O   UNK     0      -1.513  -1.676   0.000  0.00  0.00           O+0
HETATM   10  C   UNK     0       0.053   0.735   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       1.518   1.211   0.000  0.00  0.00           C+0
HETATM   12  O   UNK     0       1.838   2.717   0.000  0.00  0.00           O+0
HETATM   13  C   UNK     0       2.662   0.181   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       4.090  -0.396   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       3.478   1.487   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       5.017   1.433   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       5.833   2.739   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       7.372   2.685   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       5.110   4.099   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0       2.342  -1.326   0.000  0.00  0.00           C+0
HETATM   21  O   UNK     0       3.486  -2.356   0.000  0.00  0.00           O+0
HETATM   22  C   UNK     0      -1.091   1.766   0.000  0.00  0.00           C+0
HETATM   23  C   UNK     0      -2.556   1.290   0.000  0.00  0.00           C+0
HETATM   24  C   UNK     0      -3.032  -0.175   0.000  0.00  0.00           C+0
HETATM   25  C   UNK     0      -4.572  -0.175   0.000  0.00  0.00           C+0
HETATM   26  C   UNK     0      -5.048   1.290   0.000  0.00  0.00           C+0
HETATM   27  C   UNK     0      -3.802   2.195   0.000  0.00  0.00           C+0
HETATM   28  C   UNK     0      -4.558   3.537   0.000  0.00  0.00           C+0
HETATM   29  O   UNK     0      -3.046   3.537   0.000  0.00  0.00           O+0
HETATM   30  C   UNK     0      -2.127  -1.421   0.000  0.00  0.00           C+0
HETATM   31  C   UNK     0      -2.753  -2.828   0.000  0.00  0.00           C+0
HETATM   32  C   UNK     0      -1.096  -2.565   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    7                                                  
CONECT    6    5                                                            
CONECT    7    5    8   20                                                  
CONECT    8    7    9   10                                                  
CONECT    9    8                                                            
CONECT   10    8   11   22                                                  
CONECT   11   10   12   13                                                  
CONECT   12   11                                                            
CONECT   13   11   14   15   20                                             
CONECT   14   13                                                            
CONECT   15   13   16                                                       
CONECT   16   15   17                                                       
CONECT   17   16   18   19                                                  
CONECT   18   17                                                            
CONECT   19   17                                                            
CONECT   20   13    7   21                                                  
CONECT   21   20                                                            
CONECT   22   10   23                                                       
CONECT   23   22   24   27                                                  
CONECT   24   23   25   30                                                  
CONECT   25   24   26                                                       
CONECT   26   25   27                                                       
CONECT   27   26   23   28   29                                             
CONECT   28   27                                                            
CONECT   29   27                                                            
CONECT   30   24   31   32                                                  
CONECT   31   30                                                            
CONECT   32   30                                                            
MASTER        0    0    0    0    0    0    0    0   32    0   66    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₂₇H₄₀O₅

Average Mass

444.6120 Da

Monoisotopic Mass

444.28757 Da

IUPAC Name

3,5-dihydroxy-4-{[2-hydroxy-2-methyl-5-(prop-1-en-2-yl)cyclopentyl]methyl}-6-methyl-6-(3-methylbut-2-en-1-yl)-2-(2-methylbutanoyl)cyclohexa-2,4-dien-1-one

Traditional Name

3,5-dihydroxy-4-{[2-hydroxy-2-methyl-5-(prop-1-en-2-yl)cyclopentyl]methyl}-6-methyl-6-(3-methylbut-2-en-1-yl)-2-(2-methylbutanoyl)cyclohexa-2,4-dien-1-one

CAS Registry Number

Not Available

SMILES

CCC(C)C(=O)C1=C(O)C(CC2C(CCC2(C)O)C(C)=C)=C(O)C(C)(CC=C(C)C)C1=O

InChI Identifier

InChI=1S/C27H40O5/c1-9-17(6)22(28)21-23(29)19(14-20-18(16(4)5)11-13-27(20,8)32)24(30)26(7,25(21)31)12-10-15(2)3/h10,17-18,20,29-30,32H,4,9,11-14H2,1-3,5-8H3

InChI Key

SEHZNEFMBPPMQP-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

Species Name	Source	Reference
Cratoxylum cochinchinense	LOTUS Database	35616633
Hypericum chinense	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as monocyclic monoterpenoids. These are monoterpenoids containing 1 ring in the isoprene chain.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Prenol lipids

Sub Class

Monoterpenoids

Direct Parent

Monocyclic monoterpenoids

Alternative Parents

Substituents

Monocyclic monoterpenoid
Cyclopentanol
Vinylogous acid
Tertiary alcohol
Cyclic alcohol
Cyclic ketone
Ketone
Enol
Organic oxygen compound
Organic oxide
Hydrocarbon derivative
Organooxygen compound
Carbonyl group
Alcohol
Aliphatic homomonocyclic compound

Molecular Framework

Aliphatic homomonocyclic 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	3.85	ALOGPS
logP	5.19	ChemAxon
logS	-4.4	ALOGPS
pKa (Strongest Acidic)	4.55	ChemAxon
pKa (Strongest Basic)	-0.67	ChemAxon
Physiological Charge	-1	ChemAxon
Hydrogen Acceptor Count	5	ChemAxon
Hydrogen Donor Count	3	ChemAxon
Polar Surface Area	94.83 Å²	ChemAxon
Rotatable Bond Count	8	ChemAxon
Refractivity	131.09 m³·mol⁻¹	ChemAxon
Polarizability	49.42 Å³	ChemAxon
Number of Rings	2	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

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

44272986

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for 3,5-dihydroxy-4-{[2-hydroxy-2-methyl-5-(prop-1-en-2-yl)cyclopentyl]methyl}-6-methyl-6-(3-methylbut-2-en-1-yl)-2-(2-methylbutanoyl)cyclohexa-2,4-dien-1-one (NP0212141)

MOL for NP0212141 (3,5-dihydroxy-4-{[2-hydroxy-2-methyl-5-(prop-1-en-2-yl)cyclopentyl]methyl}-6-methyl-6-(3-methylbut-2-en-1-yl)-2-(2-methylbutanoyl)cyclohexa-2,4-dien-1-one)

3D MOL for NP0212141 (3,5-dihydroxy-4-{[2-hydroxy-2-methyl-5-(prop-1-en-2-yl)cyclopentyl]methyl}-6-methyl-6-(3-methylbut-2-en-1-yl)-2-(2-methylbutanoyl)cyclohexa-2,4-dien-1-one)

3D SDF for NP0212141 (3,5-dihydroxy-4-{[2-hydroxy-2-methyl-5-(prop-1-en-2-yl)cyclopentyl]methyl}-6-methyl-6-(3-methylbut-2-en-1-yl)-2-(2-methylbutanoyl)cyclohexa-2,4-dien-1-one)

3D-SDF for NP0212141 (3,5-dihydroxy-4-{[2-hydroxy-2-methyl-5-(prop-1-en-2-yl)cyclopentyl]methyl}-6-methyl-6-(3-methylbut-2-en-1-yl)-2-(2-methylbutanoyl)cyclohexa-2,4-dien-1-one)

PDB for NP0212141 (3,5-dihydroxy-4-{[2-hydroxy-2-methyl-5-(prop-1-en-2-yl)cyclopentyl]methyl}-6-methyl-6-(3-methylbut-2-en-1-yl)-2-(2-methylbutanoyl)cyclohexa-2,4-dien-1-one)

3D PDB for NP0212141 (3,5-dihydroxy-4-{[2-hydroxy-2-methyl-5-(prop-1-en-2-yl)cyclopentyl]methyl}-6-methyl-6-(3-methylbut-2-en-1-yl)-2-(2-methylbutanoyl)cyclohexa-2,4-dien-1-one)

SMILES for NP0212141 (3,5-dihydroxy-4-{[2-hydroxy-2-methyl-5-(prop-1-en-2-yl)cyclopentyl]methyl}-6-methyl-6-(3-methylbut-2-en-1-yl)-2-(2-methylbutanoyl)cyclohexa-2,4-dien-1-one)

INCHI for NP0212141 (3,5-dihydroxy-4-{[2-hydroxy-2-methyl-5-(prop-1-en-2-yl)cyclopentyl]methyl}-6-methyl-6-(3-methylbut-2-en-1-yl)-2-(2-methylbutanoyl)cyclohexa-2,4-dien-1-one)

Structure for NP0212141 (3,5-dihydroxy-4-{[2-hydroxy-2-methyl-5-(prop-1-en-2-yl)cyclopentyl]methyl}-6-methyl-6-(3-methylbut-2-en-1-yl)-2-(2-methylbutanoyl)cyclohexa-2,4-dien-1-one)

3D Structure for NP0212141 (3,5-dihydroxy-4-{[2-hydroxy-2-methyl-5-(prop-1-en-2-yl)cyclopentyl]methyl}-6-methyl-6-(3-methylbut-2-en-1-yl)-2-(2-methylbutanoyl)cyclohexa-2,4-dien-1-one)