NP-MRD: Showing NP-Card for (2s,6r,8s,9s)-4,8-dibromo-9-chloro-2,5,5,9-tetramethylspiro[5.5]undec-3-en-1-one (NP0256364)

Jump To Section:

Identification Spectra BioTaxonomy ChemoTaxonomy Physical properties Links References XML

Record Information

Version

2.0

Created at

2022-09-07 21:09:55 UTC

Updated at

2022-09-07 21:09:56 UTC

NP-MRD ID

NP0256364

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(2s,6r,8s,9s)-4,8-dibromo-9-chloro-2,5,5,9-tetramethylspiro[5.5]undec-3-en-1-one

Description

CHEBI:138817 Belongs to the class of organic compounds known as cyclohexenones. Cyclohexenones are compounds containing a cylohexenone moiety, which is a six-membered aliphatic ring that carries a ketone and has one endocyclic double bond. (2s,6r,8s,9s)-4,8-dibromo-9-chloro-2,5,5,9-tetramethylspiro[5.5]undec-3-en-1-one is found in Laurencia pacifica. Based on a literature review very few articles have been published on CHEBI:138817.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 40 41  0  0  0  0  0  0  0  0999 V2000
   -2.7976    2.3542   -0.4950 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8107    1.7448    0.4912 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.4698    0.5692    1.1002 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2043   -0.6619    0.7113 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1200   -2.0923    1.5734 Br  0  0  0  0  0  0  0  0  0  0  0  0
   -1.2363   -0.9857   -0.3548 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8055   -2.4335   -0.1552 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9373   -0.8382   -1.6735 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0485   -0.0537   -0.2248 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.5839   -0.3660    1.1309 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6468    0.6826    1.3363 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.7268    0.4857    0.3411 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.8770   -0.2440    1.0480 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.3817    2.1065   -0.0764 Cl  0  0  0  0  0  0  0  0  0  0  0  0
    2.3767   -0.2865   -0.8659 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.9209   -2.1468   -0.6933 Br  0  0  0  0  0  0  0  0  0  0  0  0
    0.9545   -0.2091   -1.3118 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5772    1.3310   -0.1857 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0689    2.2133   -0.7690 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5758    1.9853   -1.5148 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7795    3.4618   -0.4500 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.8241    2.0353   -0.2269 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6280    2.4709    1.3184 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2030    0.7730    1.9035 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1091   -2.7540   -0.9379 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4771   -2.6137    0.8719 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7425   -3.0440   -0.3121 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0961   -1.8514   -2.0935 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9496   -0.3828   -1.5579 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3699   -0.2355   -2.4054 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.1064   -1.3486    1.1010 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2051   -0.3160    1.8872 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.1999    1.7171    1.2718 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.0426    0.6125    2.3762 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.4623    0.4416    1.6765 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.5150   -1.1344    1.5638 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.5599   -0.5864    0.2274 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.0043    0.1163   -1.7158 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.7214   -1.1407   -1.8740 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.8179    0.6237   -2.0365 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  3  4  2  0
  4  5  1  0
  4  6  1  0
  6  7  1  0
  6  8  1  0
  6  9  1  0
  9 10  1  0
 10 11  1  0
 11 12  1  0
 12 13  1  0
 12 14  1  6
 12 15  1  0
 15 16  1  0
 15 17  1  0
  9 18  1  1
 18 19  2  0
 18  2  1  0
 17  9  1  0
  1 20  1  0
  1 21  1  0
  1 22  1  0
  2 23  1  1
  3 24  1  0
  7 25  1  0
  7 26  1  0
  7 27  1  0
  8 28  1  0
  8 29  1  0
  8 30  1  0
 10 31  1  0
 10 32  1  0
 11 33  1  0
 11 34  1  0
 13 35  1  0
 13 36  1  0
 13 37  1  0
 15 38  1  6
 17 39  1  0
 17 40  1  0
M  END


  Mrv1652309072223092D          

 19 20  0  0  1  0            999 V2000
   -0.1105   -1.0164    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3020   -0.3020    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   -0.1105    0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3020    1.1270    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1105    1.8414    0.0000 Br  0  0  0  0  0  0  0  0  0  0  0  0
    1.1270    1.1270    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.9837    1.9394    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9022    1.4091    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5395    0.4125    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.9520    1.1270    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.7770    1.1270    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1895    0.4125    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.8215    0.9428    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.8215   -0.1178    0.0000 Cl  0  0  0  0  0  0  0  0  0  0  0  0
    2.7770   -0.3020    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    3.1895   -1.0164    0.0000 Br  0  0  0  0  0  0  0  0  0  0  0  0
    1.9520   -0.3020    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1270   -0.3020    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5395   -1.0164    0.0000 O   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  2  0  0  0  0
  4  5  1  0  0  0  0
  4  6  1  0  0  0  0
  6  7  1  0  0  0  0
  6  8  1  0  0  0  0
  6  9  1  0  0  0  0
  9 10  1  6  0  0  0
 10 11  1  0  0  0  0
 11 12  1  0  0  0  0
 12 13  1  1  0  0  0
 12 14  1  6  0  0  0
 12 15  1  0  0  0  0
 15 16  1  1  0  0  0
 15 17  1  0  0  0  0
  9 17  1  0  0  0  0
  9 18  1  0  0  0  0
  2 18  1  0  0  0  0
 18 19  2  0  0  0  0
M  END
> <DATABASE_ID>
NP0256364

> <DATABASE_NAME>
NP-MRD

> <SMILES>
C[C@H]1C=C(Br)C(C)(C)[C@]2(CC[C@](C)(Cl)[C@@H](Br)C2)C1=O

> <INCHI_IDENTIFIER>
InChI=1S/C15H21Br2ClO/c1-9-7-10(16)13(2,3)15(12(9)19)6-5-14(4,18)11(17)8-15/h7,9,11H,5-6,8H2,1-4H3/t9-,11-,14-,15-/m0/s1

> <INCHI_KEY>
HMWLZIQJSYGFHO-YIVQXAGMSA-N

> <FORMULA>
C15H21Br2ClO

> <MOLECULAR_WEIGHT>
412.59

> <EXACT_MASS>
409.964769

> <JCHEM_ACCEPTOR_COUNT>
1

> <JCHEM_ATOM_COUNT>
40

> <JCHEM_AVERAGE_POLARIZABILITY>
35.1643956697802

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
0

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(2S,6R,8S,9S)-4,8-dibromo-9-chloro-2,5,5,9-tetramethylspiro[5.5]undec-3-en-1-one

> <JCHEM_LOGP>
5.340410332333332

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
2

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA_STRONGEST_ACIDIC>
15.232928346113866

> <JCHEM_PKA_STRONGEST_BASIC>
-7.629634700561569

> <JCHEM_POLAR_SURFACE_AREA>
17.07

> <JCHEM_REFRACTIVITY>
88.32739999999997

> <JCHEM_ROTATABLE_BOND_COUNT>
0

> <JCHEM_RULE_OF_FIVE>
0

> <JCHEM_TRADITIONAL_IUPAC>
(2S,6R,8S,9S)-4,8-dibromo-9-chloro-2,5,5,9-tetramethylspiro[5.5]undec-3-en-1-one

> <JCHEM_VEBER_RULE>
1

$$$$

HEADER    PROTEIN                                 07-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   07-SEP-22         0                                  
HETATM    1  C   UNK     0      -0.206  -1.897   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       0.564  -0.564   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0      -0.206   0.770   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       0.564   2.104   0.000  0.00  0.00           C+0
HETATM    5 Br   UNK     0      -0.206   3.437   0.000  0.00  0.00          Br+0
HETATM    6  C   UNK     0       2.104   2.104   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       1.836   3.620   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       3.551   2.630   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       2.874   0.770   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       3.644   2.104   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       5.184   2.104   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       5.954   0.770   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       7.133   1.760   0.000  0.00  0.00           C+0
HETATM   14 Cl   UNK     0       7.133  -0.220   0.000  0.00  0.00          Cl+0
HETATM   15  C   UNK     0       5.184  -0.564   0.000  0.00  0.00           C+0
HETATM   16 Br   UNK     0       5.954  -1.897   0.000  0.00  0.00          Br+0
HETATM   17  C   UNK     0       3.644  -0.564   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       2.104  -0.564   0.000  0.00  0.00           C+0
HETATM   19  O   UNK     0       2.874  -1.897   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3   18                                                  
CONECT    3    2    4                                                       
CONECT    4    3    5    6                                                  
CONECT    5    4                                                            
CONECT    6    4    7    8    9                                             
CONECT    7    6                                                            
CONECT    8    6                                                            
CONECT    9    6   10   17   18                                             
CONECT   10    9   11                                                       
CONECT   11   10   12                                                       
CONECT   12   11   13   14   15                                             
CONECT   13   12                                                            
CONECT   14   12                                                            
CONECT   15   12   16   17                                                  
CONECT   16   15                                                            
CONECT   17   15    9                                                       
CONECT   18    9    2   19                                                  
CONECT   19   18                                                            
MASTER        0    0    0    0    0    0    0    0   19    0   40    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₅H₂₁Br₂ClO

Average Mass

412.5900 Da

Monoisotopic Mass

409.96477 Da

IUPAC Name

(2S,6R,8S,9S)-4,8-dibromo-9-chloro-2,5,5,9-tetramethylspiro[5.5]undec-3-en-1-one

Traditional Name

(2S,6R,8S,9S)-4,8-dibromo-9-chloro-2,5,5,9-tetramethylspiro[5.5]undec-3-en-1-one

CAS Registry Number

Not Available

SMILES

C[C@H]1C=C(Br)C(C)(C)[C@]2(CC[C@](C)(Cl)[C@@H](Br)C2)C1=O

InChI Identifier

InChI=1S/C15H21Br2ClO/c1-9-7-10(16)13(2,3)15(12(9)19)6-5-14(4,18)11(17)8-15/h7,9,11H,5-6,8H2,1-4H3/t9-,11-,14-,15-/m0/s1

InChI Key

HMWLZIQJSYGFHO-YIVQXAGMSA-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
Laurencia pacifica	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as cyclohexenones. Cyclohexenones are compounds containing a cylohexenone moiety, which is a six-membered aliphatic ring that carries a ketone and has one endocyclic double bond.

Kingdom

Organic compounds

Super Class

Organic oxygen compounds

Class

Organooxygen compounds

Sub Class

Carbonyl compounds

Direct Parent

Cyclohexenones

Alternative Parents

Substituents

Cyclohexenone
Bromoalkene
Haloalkene
Vinyl halide
Vinyl bromide
Organic oxide
Hydrocarbon derivative
Organochloride
Organobromide
Organohalogen compound
Alkyl halide
Alkyl chloride
Alkyl bromide
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	5.34	ChemAxon
pKa (Strongest Acidic)	15.23	ChemAxon
pKa (Strongest Basic)	-7.6	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	1	ChemAxon
Hydrogen Donor Count	0	ChemAxon
Polar Surface Area	17.07 Å²	ChemAxon
Rotatable Bond Count	0	ChemAxon
Refractivity	88.33 m³·mol⁻¹	ChemAxon
Polarizability	35.16 Å³	ChemAxon
Number of Rings	2	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	No	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

Not Available

Chemspider ID

10266595

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

21634304

PDB ID

Not Available

ChEBI ID

138817

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for (2s,6r,8s,9s)-4,8-dibromo-9-chloro-2,5,5,9-tetramethylspiro[5.5]undec-3-en-1-one (NP0256364)

MOL for NP0256364 ((2s,6r,8s,9s)-4,8-dibromo-9-chloro-2,5,5,9-tetramethylspiro[5.5]undec-3-en-1-one)

3D MOL for NP0256364 ((2s,6r,8s,9s)-4,8-dibromo-9-chloro-2,5,5,9-tetramethylspiro[5.5]undec-3-en-1-one)

3D SDF for NP0256364 ((2s,6r,8s,9s)-4,8-dibromo-9-chloro-2,5,5,9-tetramethylspiro[5.5]undec-3-en-1-one)

3D-SDF for NP0256364 ((2s,6r,8s,9s)-4,8-dibromo-9-chloro-2,5,5,9-tetramethylspiro[5.5]undec-3-en-1-one)

PDB for NP0256364 ((2s,6r,8s,9s)-4,8-dibromo-9-chloro-2,5,5,9-tetramethylspiro[5.5]undec-3-en-1-one)

3D PDB for NP0256364 ((2s,6r,8s,9s)-4,8-dibromo-9-chloro-2,5,5,9-tetramethylspiro[5.5]undec-3-en-1-one)

SMILES for NP0256364 ((2s,6r,8s,9s)-4,8-dibromo-9-chloro-2,5,5,9-tetramethylspiro[5.5]undec-3-en-1-one)

INCHI for NP0256364 ((2s,6r,8s,9s)-4,8-dibromo-9-chloro-2,5,5,9-tetramethylspiro[5.5]undec-3-en-1-one)

Structure for NP0256364 ((2s,6r,8s,9s)-4,8-dibromo-9-chloro-2,5,5,9-tetramethylspiro[5.5]undec-3-en-1-one)

3D Structure for NP0256364 ((2s,6r,8s,9s)-4,8-dibromo-9-chloro-2,5,5,9-tetramethylspiro[5.5]undec-3-en-1-one)