NP-MRD: Showing NP-Card for (2as,4as,7as,7br)-3-(hydroxymethyl)-6,6,7b-trimethyl-1h,2h,4ah,5h,7h,7ah-cyclobuta[e]inden-2a-ol (NP0173406)

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Record Information

Version

2.0

Created at

2022-09-03 10:32:10 UTC

Updated at

2022-09-03 10:32:10 UTC

NP-MRD ID

NP0173406

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(2as,4as,7as,7br)-3-(hydroxymethyl)-6,6,7b-trimethyl-1h,2h,4ah,5h,7h,7ah-cyclobuta[e]inden-2a-ol

Description

Echinocidin A belongs to the class of organic compounds known as illudanes and illudins. These are sesquiterpenoids containing either the illudane moiety (based on a 3,6,6,7b-tetramethyl-decahydro-1H-cyclobuta[e]indene ring system), the illudin moiety (2',2',4',6'-tetramethyl-octahydrospiro[cyclopropane-1,5'-indene]), or a derivative thereof. (2as,4as,7as,7br)-3-(hydroxymethyl)-6,6,7b-trimethyl-1h,2h,4ah,5h,7h,7ah-cyclobuta[e]inden-2a-ol is found in Echinodontium tsugicola. Based on a literature review very few articles have been published on Echinocidin A.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 41 43  0  0  0  0  0  0  0  0999 V2000
   -3.5953   -0.9963    0.5027 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6104   -0.0450   -0.1055 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3426    1.0043   -0.9124 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6076   -0.7797   -0.9968 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3058   -0.0144   -0.8888 C   0  0  1  0  0  0  0  0  0  0  0  0
   -0.5985    1.1234    0.0205 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.5365    1.7011    0.6983 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6804    1.0826    0.8612 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8335    1.7569    1.5885 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.8779    1.8153    0.6672 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.8881   -0.2724    0.3528 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.3274   -1.0956    1.4026 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.8734   -0.3896   -0.7934 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.8208   -1.0850   -1.5911 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8270   -0.8817   -0.4602 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.4357   -2.2469    0.0743 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6800    0.5740    0.9166 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1391   -1.9534    0.8196 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3484   -1.2402   -0.2674 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0942   -0.4876    1.3356 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8670    1.1742   -1.8864 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3799    0.6363   -1.1173 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4426    1.9329   -0.3130 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5465   -1.8053   -0.5789 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9987   -0.7962   -2.0342 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1094    0.4238   -1.9104 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1017    1.9456   -0.5730 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.4263    2.7270    1.1016 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.0859    1.1598    2.4877 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.5622    2.7770    1.8636 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.0541    2.7477    0.3894 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.2046   -0.7319    1.7162 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.7357   -1.0549   -0.5950 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.2427    0.5717   -1.2036 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.0474   -2.1301   -1.8403 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5710   -0.4522   -2.4898 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1303   -2.9471   -0.7367 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.3976   -2.6949    0.4676 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2406   -2.2157    0.9289 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3577   -0.2051    1.6006 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1925    1.3675    1.4985 H   0  0  0  0  0  0  0  0  0  0  0  0
 15 16  1  1
 15 14  1  0
 14 13  1  0
 13 11  1  0
 11 12  1  1
 11  8  1  0
  8  9  1  0
  9 10  1  0
  8  7  2  0
  7  6  1  0
  6 17  1  0
 17  2  1  0
  2  1  1  0
  2  3  1  0
  2  4  1  0
  4  5  1  0
 11 15  1  0
  5  6  1  0
  5 15  1  0
 16 37  1  0
 16 38  1  0
 16 39  1  0
 14 35  1  0
 14 36  1  0
 13 33  1  0
 13 34  1  0
 12 32  1  0
  9 29  1  0
  9 30  1  0
 10 31  1  0
  7 28  1  0
  6 27  1  6
 17 40  1  0
 17 41  1  0
  1 18  1  0
  1 19  1  0
  1 20  1  0
  3 21  1  0
  3 22  1  0
  3 23  1  0
  4 24  1  0
  4 25  1  0
  5 26  1  6
M  END


  Mrv1652309032212322D          

 17 19  0  0  1  0            999 V2000
    4.8336    1.5152    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.5497    0.7406    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.3497    0.5391    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.8090    1.1039    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2346    0.5118    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    3.6202   -0.2176    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.1815   -0.9162    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.3570   -0.8855    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9182   -1.5842    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.3039   -2.3135    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.9714   -0.1562    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.3667   -0.7175    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.2727    0.2826    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.7115    0.9812    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4102    0.5424    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.6532    1.3308    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.4330   -0.0762    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
  2  4  1  0  0  0  0
  5  4  1  1  0  0  0
  5  6  1  0  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
  8 11  1  0  0  0  0
 11 12  1  1  0  0  0
 11 13  1  0  0  0  0
 13 14  1  0  0  0  0
 14 15  1  0  0  0  0
  5 15  1  0  0  0  0
 11 15  1  0  0  0  0
 15 16  1  1  0  0  0
  6 17  1  1  0  0  0
  2 17  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0173406

> <DATABASE_NAME>
NP-MRD

> <SMILES>
C[C@]12CC[C@@]1(O)C(CO)=C[C@@H]1CC(C)(C)C[C@H]21

> <INCHI_IDENTIFIER>
InChI=1S/C15H24O2/c1-13(2)7-10-6-11(9-16)15(17)5-4-14(15,3)12(10)8-13/h6,10,12,16-17H,4-5,7-9H2,1-3H3/t10-,12+,14-,15-/m1/s1

> <INCHI_KEY>
GYJKRLXBILQJJZ-DZGBDDFRSA-N

> <FORMULA>
C15H24O2

> <MOLECULAR_WEIGHT>
236.355

> <EXACT_MASS>
236.177630013

> <JCHEM_ACCEPTOR_COUNT>
2

> <JCHEM_ATOM_COUNT>
41

> <JCHEM_AVERAGE_POLARIZABILITY>
27.72569761377261

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(2aS,4aS,7aS,7bR)-3-(hydroxymethyl)-6,6,7b-trimethyl-1H,2H,2aH,4aH,5H,6H,7H,7aH,7bH-cyclobuta[e]inden-2a-ol

> <ALOGPS_LOGP>
2.33

> <JCHEM_LOGP>
1.8169947246666656

> <ALOGPS_LOGS>
-2.94

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
15.192794290724102

> <JCHEM_PKA_STRONGEST_ACIDIC>
13.834263165301394

> <JCHEM_PKA_STRONGEST_BASIC>
-2.7642601758331597

> <JCHEM_POLAR_SURFACE_AREA>
40.46

> <JCHEM_REFRACTIVITY>
68.8432

> <JCHEM_ROTATABLE_BOND_COUNT>
1

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
2.71e-01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(2aS,4aS,7aS,7bR)-3-(hydroxymethyl)-6,6,7b-trimethyl-1H,2H,4aH,5H,7H,7aH-cyclobuta[e]inden-2a-ol

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 03-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   03-SEP-22         0                                  
HETATM    1  C   UNK     0       9.023   2.828   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       8.493   1.382   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       9.986   1.006   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       7.110   2.061   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       6.038   0.955   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       6.758  -0.406   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       5.939  -1.710   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       4.400  -1.653   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       3.581  -2.957   0.000  0.00  0.00           C+0
HETATM   10  O   UNK     0       4.301  -4.318   0.000  0.00  0.00           O+0
HETATM   11  C   UNK     0       3.680  -0.292   0.000  0.00  0.00           C+0
HETATM   12  O   UNK     0       2.551  -1.339   0.000  0.00  0.00           O+0
HETATM   13  C   UNK     0       2.376   0.527   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       3.195   1.832   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       4.499   1.013   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       4.953   2.484   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       8.275  -0.142   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3    4   17                                             
CONECT    3    2                                                            
CONECT    4    2    5                                                       
CONECT    5    4    6   15                                                  
CONECT    6    5    7   17                                                  
CONECT    7    6    8                                                       
CONECT    8    7    9   11                                                  
CONECT    9    8   10                                                       
CONECT   10    9                                                            
CONECT   11    8   12   13   15                                             
CONECT   12   11                                                            
CONECT   13   11   14                                                       
CONECT   14   13   15                                                       
CONECT   15   14    5   11   16                                             
CONECT   16   15                                                            
CONECT   17    6    2                                                       
MASTER        0    0    0    0    0    0    0    0   17    0   38    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₅H₂₄O₂

Average Mass

236.3550 Da

Monoisotopic Mass

236.17763 Da

IUPAC Name

(2aS,4aS,7aS,7bR)-3-(hydroxymethyl)-6,6,7b-trimethyl-1H,2H,2aH,4aH,5H,6H,7H,7aH,7bH-cyclobuta[e]inden-2a-ol

Traditional Name

(2aS,4aS,7aS,7bR)-3-(hydroxymethyl)-6,6,7b-trimethyl-1H,2H,4aH,5H,7H,7aH-cyclobuta[e]inden-2a-ol

CAS Registry Number

Not Available

SMILES

C[C@]12CC[C@@]1(O)C(CO)=C[C@@H]1CC(C)(C)C[C@H]21

InChI Identifier

InChI=1S/C15H24O2/c1-13(2)7-10-6-11(9-16)15(17)5-4-14(15,3)12(10)8-13/h6,10,12,16-17H,4-5,7-9H2,1-3H3/t10-,12+,14-,15-/m1/s1

InChI Key

GYJKRLXBILQJJZ-DZGBDDFRSA-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
Echinodontium tsugicola	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as illudanes and illudins. These are sesquiterpenoids containing either the illudane moiety (based on a 3,6,6,7b-tetramethyl-decahydro-1H-cyclobuta[e]indene ring system), the illudin moiety (2',2',4',6'-tetramethyl-octahydrospiro[cyclopropane-1,5'-indene]), or a derivative thereof.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Prenol lipids

Sub Class

Sesquiterpenoids

Direct Parent

Illudanes and illudins

Alternative Parents

Substituents

Illudane sesquiterpenoid
Tertiary alcohol
Cyclobutanol
Organic oxygen compound
Hydrocarbon derivative
Primary alcohol
Organooxygen compound
Alcohol
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	2.33	ALOGPS
logP	1.82	ChemAxon
logS	-2.9	ALOGPS
pKa (Strongest Acidic)	13.83	ChemAxon
pKa (Strongest Basic)	-2.8	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	2	ChemAxon
Hydrogen Donor Count	2	ChemAxon
Polar Surface Area	40.46 Å²	ChemAxon
Rotatable Bond Count	1	ChemAxon
Refractivity	68.84 m³·mol⁻¹	ChemAxon
Polarizability	27.73 Å³	ChemAxon
Number of Rings	3	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	Yes	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

9633863

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

11459022

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for (2as,4as,7as,7br)-3-(hydroxymethyl)-6,6,7b-trimethyl-1h,2h,4ah,5h,7h,7ah-cyclobuta[e]inden-2a-ol (NP0173406)

MOL for NP0173406 ((2as,4as,7as,7br)-3-(hydroxymethyl)-6,6,7b-trimethyl-1h,2h,4ah,5h,7h,7ah-cyclobuta[e]inden-2a-ol)

3D MOL for NP0173406 ((2as,4as,7as,7br)-3-(hydroxymethyl)-6,6,7b-trimethyl-1h,2h,4ah,5h,7h,7ah-cyclobuta[e]inden-2a-ol)

3D SDF for NP0173406 ((2as,4as,7as,7br)-3-(hydroxymethyl)-6,6,7b-trimethyl-1h,2h,4ah,5h,7h,7ah-cyclobuta[e]inden-2a-ol)

3D-SDF for NP0173406 ((2as,4as,7as,7br)-3-(hydroxymethyl)-6,6,7b-trimethyl-1h,2h,4ah,5h,7h,7ah-cyclobuta[e]inden-2a-ol)

PDB for NP0173406 ((2as,4as,7as,7br)-3-(hydroxymethyl)-6,6,7b-trimethyl-1h,2h,4ah,5h,7h,7ah-cyclobuta[e]inden-2a-ol)

3D PDB for NP0173406 ((2as,4as,7as,7br)-3-(hydroxymethyl)-6,6,7b-trimethyl-1h,2h,4ah,5h,7h,7ah-cyclobuta[e]inden-2a-ol)

SMILES for NP0173406 ((2as,4as,7as,7br)-3-(hydroxymethyl)-6,6,7b-trimethyl-1h,2h,4ah,5h,7h,7ah-cyclobuta[e]inden-2a-ol)

INCHI for NP0173406 ((2as,4as,7as,7br)-3-(hydroxymethyl)-6,6,7b-trimethyl-1h,2h,4ah,5h,7h,7ah-cyclobuta[e]inden-2a-ol)

Structure for NP0173406 ((2as,4as,7as,7br)-3-(hydroxymethyl)-6,6,7b-trimethyl-1h,2h,4ah,5h,7h,7ah-cyclobuta[e]inden-2a-ol)

3D Structure for NP0173406 ((2as,4as,7as,7br)-3-(hydroxymethyl)-6,6,7b-trimethyl-1h,2h,4ah,5h,7h,7ah-cyclobuta[e]inden-2a-ol)