NP-MRD: Showing NP-Card for 5-neo-Cedranol (NP0083820)

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Record Information

Version

2.0

Created at

2022-04-29 04:44:46 UTC

Updated at

2022-04-29 04:44:46 UTC

NP-MRD ID

NP0083820

Secondary Accession Numbers

None

Natural Product Identification

Common Name

5-neo-Cedranol

Description

13567-44-7 Belongs to the class of organic compounds known as cedrane and isocedrane sesquiterpenoids. These are sesquiternoids with a structure based on the cedrane or the isocedrane skeleton. Cedrane is a tricyclic molecules a 3,6,8,8-tetramethyl-1H-3a,7-methano-azulene moiety. Isocedrane is a rearranged cedrane arising from the migration of methyl group moved from the 6-position to the 4-position. 5-neo-Cedranol is found in Xylopia sericea . Based on a literature review very few articles have been published on 13567-44-7.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 42 44  0  0  0  0  0  0  0  0999 V2000
   -3.2953    0.9861   -0.1764 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8294    0.6264   -0.4347 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.0703    1.8455   -0.8376 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.3503    2.9662   -0.0628 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.3919    1.5550   -0.9672 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8175    0.4827    0.0166 C   0  0  1  0  0  0  0  0  0  0  0  0
   -0.0398    0.6419    1.2415 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3017   -0.0940    0.7562 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.6311   -1.4201    0.3510 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.5814   -2.3695   -0.2818 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1175   -2.0849    1.6023 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4422   -0.8965   -0.5402 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.6754   -1.6954   -0.6275 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.7664   -0.6255   -0.6984 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2718    0.4284    0.2707 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.9861    1.7458    0.0869 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4715    1.1123    0.9050 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5851    1.8917   -0.7223 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9560    0.1652   -0.5395 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8621   -0.0259   -1.3569 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4321    2.1227   -1.8737 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1576    2.7936    0.4628 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.0331    2.4629   -0.8835 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.5930    1.1419   -1.9794 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.3858    0.1375    2.1415 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2436    1.6697    1.5311 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0162   -0.2352    1.5698 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3426   -1.9553   -0.9229 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1218   -2.9185    0.5439 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9923   -3.1506   -0.8014 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8695   -1.8874    2.4210 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.8952   -1.8185    1.8827 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1356   -3.2083    1.4845 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.0214   -0.7790   -1.5756 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.9157   -2.3496    0.2010 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7079   -2.3311   -1.5588 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.7448   -1.0214   -0.4087 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.7664   -0.1419   -1.7083 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.4618    0.0994    1.3164 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.4483    2.5106    0.6641 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.0092    1.6288    0.5004 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.0691    1.9944   -0.9918 H   0  0  0  0  0  0  0  0  0  0  0  0
 12 13  1  0
 13 14  1  0
 14 15  1  0
 15 16  1  0
 15  6  1  0
  6  7  1  0
  7  8  1  0
  8  2  1  0
  2  1  1  0
  2  3  1  0
  3  4  1  0
  3  5  1  0
  8  9  1  0
  9 10  1  6
  9 11  1  0
  6 12  1  0
  6  5  1  6
  9 12  1  0
 12 34  1  6
 13 35  1  0
 13 36  1  0
 14 37  1  0
 14 38  1  0
 15 39  1  1
 16 40  1  0
 16 41  1  0
 16 42  1  0
  7 25  1  0
  7 26  1  0
  8 27  1  1
  2 20  1  6
  1 17  1  0
  1 18  1  0
  1 19  1  0
  3 21  1  6
  4 22  1  0
  5 23  1  0
  5 24  1  0
 10 28  1  0
 10 29  1  0
 10 30  1  0
 11 31  1  0
 11 32  1  0
 11 33  1  0
M  END


  Mrv1652304292206442D          

 17 19  0  0  1  0            999 V2000
    1.4845    1.5091    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3448    0.6960    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.6018    0.3347    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7161   -0.4916    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9408    0.0911    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.5272   -0.3917    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5461   -0.6802    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.1613   -1.4100    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.2026   -1.2881    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5727   -1.8209    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6549   -1.9781    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.0005   -0.8942    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.5803   -0.2266    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    4.3852   -0.4076    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.3467    0.6092    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    3.8991    1.2219    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.5084    0.7523    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
  2  1  1  1  0  0  0
  2  3  1  0  0  0  0
  3  4  1  0  0  0  0
  2  5  1  0  0  0  0
  5  6  1  6  0  0  0
  5  7  1  0  0  0  0
  4  7  1  0  0  0  0
  7  8  1  1  0  0  0
  7  9  1  0  0  0  0
  9 10  1  0  0  0  0
  9 11  1  0  0  0  0
  9 12  1  0  0  0  0
 12  6  1  6  0  0  0
 12 13  1  0  0  0  0
 13 14  1  6  0  0  0
 13 15  1  0  0  0  0
 15 16  1  6  0  0  0
 15 17  1  0  0  0  0
  5 17  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0083820

> <DATABASE_NAME>
NP-MRD

> <SMILES>
[H][C@@]12CC[C@@H](C)[C@]11C[C@@H]([C@@H](C)[C@@H](O)C1)C2(C)C

> <INCHI_IDENTIFIER>
InChI=1S/C15H26O/c1-9-5-6-13-14(3,4)11-7-15(9,13)8-12(16)10(11)2/h9-13,16H,5-8H2,1-4H3/t9-,10-,11+,12+,13+,15-/m1/s1

> <INCHI_KEY>
AEJKOZRRMKOBQS-ITTXBHIMSA-N

> <FORMULA>
C15H26O

> <MOLECULAR_WEIGHT>
222.372

> <EXACT_MASS>
222.198365457

> <JCHEM_ACCEPTOR_COUNT>
1

> <JCHEM_ATOM_COUNT>
42

> <JCHEM_AVERAGE_POLARIZABILITY>
27.182919283066553

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(1R,2R,5S,7S,8R,9S)-2,6,6,8-tetramethyltricyclo[5.3.1.0^{1,5}]undecan-9-ol

> <ALOGPS_LOGP>
3.48

> <JCHEM_LOGP>
3.197972870666667

> <ALOGPS_LOGS>
-4.43

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA_STRONGEST_ACIDIC>
19.496305605052914

> <JCHEM_PKA_STRONGEST_BASIC>
-0.8321159283498555

> <JCHEM_POLAR_SURFACE_AREA>
20.23

> <JCHEM_REFRACTIVITY>
66.4369

> <JCHEM_ROTATABLE_BOND_COUNT>
0

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
8.25e-03 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(1R,2R,5S,7S,8R,9S)-2,6,6,8-tetramethyltricyclo[5.3.1.0^{1,5}]undecan-9-ol

> <JCHEM_VEBER_RULE>
1

$$$$

HEADER    PROTEIN                                 29-APR-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   29-APR-22         0                                  
HETATM    1  C   UNK     0       2.771   2.817   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       2.510   1.299   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       1.123   0.625   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       1.337  -0.918   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       3.623   0.170   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       4.717  -0.731   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       2.886  -1.270   0.000  0.00  0.00           C+0
HETATM    8  H   UNK     0       2.168  -2.632   0.000  0.00  0.00           H+0
HETATM    9  C   UNK     0       4.111  -2.405   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       2.936  -3.399   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       4.956  -3.692   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       5.601  -1.669   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       6.683  -0.423   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       8.186  -0.761   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       6.247   1.137   0.000  0.00  0.00           C+0
HETATM   16  O   UNK     0       7.278   2.281   0.000  0.00  0.00           O+0
HETATM   17  C   UNK     0       4.682   1.404   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3    5                                                  
CONECT    3    2    4                                                       
CONECT    4    3    7                                                       
CONECT    5    2    6    7   17                                             
CONECT    6    5   12                                                       
CONECT    7    5    4    8    9                                             
CONECT    8    7                                                            
CONECT    9    7   10   11   12                                             
CONECT   10    9                                                            
CONECT   11    9                                                            
CONECT   12    9    6   13                                                  
CONECT   13   12   14   15                                                  
CONECT   14   13                                                            
CONECT   15   13   16   17                                                  
CONECT   16   15                                                            
CONECT   17   15    5                                                       
MASTER        0    0    0    0    0    0    0    0   17    0   38    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₅H₂₆O

Average Mass

222.3720 Da

Monoisotopic Mass

222.19837 Da

IUPAC Name

(1R,2R,5S,7S,8R,9S)-2,6,6,8-tetramethyltricyclo[5.3.1.0^{1,5}]undecan-9-ol

Traditional Name

(1R,2R,5S,7S,8R,9S)-2,6,6,8-tetramethyltricyclo[5.3.1.0^{1,5}]undecan-9-ol

CAS Registry Number

Not Available

SMILES

[H][C@@]12CC[C@@H](C)[C@]11C[C@@H]([C@@H](C)[C@@H](O)C1)C2(C)C

InChI Identifier

InChI=1S/C15H26O/c1-9-5-6-13-14(3,4)11-7-15(9,13)8-12(16)10(11)2/h9-13,16H,5-8H2,1-4H3/t9-,10-,11+,12+,13+,15-/m1/s1

InChI Key

AEJKOZRRMKOBQS-ITTXBHIMSA-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, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 252 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 50 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 75 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 101 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 126 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 151 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 176 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 201 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 226 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, D₂O, 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
Xylopia sericea	Plant	KNApSAcK

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as cedrane and isocedrane sesquiterpenoids. These are sesquiternoids with a structure based on the cedrane or the isocedrane skeleton. Cedrane is a tricyclic molecules a 3,6,8,8-tetramethyl-1H-3a,7-methano-azulene moiety. Isocedrane is a rearranged cedrane arising from the migration of methyl group moved from the 6-position to the 4-position.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Prenol lipids

Sub Class

Sesquiterpenoids

Direct Parent

Cedrane and isocedrane sesquiterpenoids

Alternative Parents

Substituents

Cedrane sesquiterpenoid
Cyclic alcohol
Secondary alcohol
Organic oxygen compound
Hydrocarbon derivative
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	3.48	ALOGPS
logP	3.2	ChemAxon
logS	-4.4	ALOGPS
pKa (Strongest Acidic)	19.5	ChemAxon
pKa (Strongest Basic)	-0.83	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	1	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	20.23 Å²	ChemAxon
Rotatable Bond Count	0	ChemAxon
Refractivity	66.44 m³·mol⁻¹	ChemAxon
Polarizability	27.18 Å³	ChemAxon
Number of Rings	3	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	Yes	ChemAxon
Veber's Rule	Yes	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

C00052745

Chemspider ID

10309772

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

21723995

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Not Available

Showing NP-Card for 5-neo-Cedranol (NP0083820)

MOL for NP0083820 (5-neo-Cedranol)

3D MOL for NP0083820 (5-neo-Cedranol)

3D SDF for NP0083820 (5-neo-Cedranol)

3D-SDF for NP0083820 (5-neo-Cedranol)

PDB for NP0083820 (5-neo-Cedranol)

3D PDB for NP0083820 (5-neo-Cedranol)

SMILES for NP0083820 (5-neo-Cedranol)

INCHI for NP0083820 (5-neo-Cedranol)

Structure for NP0083820 (5-neo-Cedranol)

3D Structure for NP0083820 (5-neo-Cedranol)