NP-MRD: Showing NP-Card for Nidifidiene (NP0064590)

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Record Information

Version

2.0

Created at

2022-04-28 08:47:28 UTC

Updated at

2022-04-28 08:47:28 UTC

NP-MRD ID

NP0064590

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Nidifidiene

Description

(6S)-8alpha-Bromo-9beta-chloro-1,1,9-trimethyl-5-methylenespiro[5.5]Undec-2-ene belongs to the class of organic compounds known as chamigranes. These are sesquiterpenoids characterized by a 1,1,5,9-tetramethylspiro[5,5]undecane skeleton, formally obtained by linking the C1-C6 and C6-C11 of farnesane together. They are predominantly isolated from algae. Nidifidiene is found in Laurencia nidifica. Based on a literature review very few articles have been published on (6S)-8alpha-Bromo-9beta-chloro-1,1,9-trimethyl-5-methylenespiro[5.5]Undec-2-ene.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 39 40  0  0  0  0  0  0  0  0999 V2000
   -0.2872    0.9956   -2.3834 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8048    0.8478   -1.1793 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9508    1.7516   -0.7885 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1152    0.8018   -0.6253 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8621   -0.3261    0.0028 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5424   -0.6911    0.5362 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.5273   -2.2101    0.6191 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5618   -0.2289    2.0053 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3534   -0.1432   -0.1753 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.5039    0.6564    0.8203 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5507    1.4002    0.0263 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.5089    0.3991   -0.5144 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.6647    0.1981    0.4844 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2956    1.1769   -1.9346 Cl  0  0  0  0  0  0  0  0  0  0  0  0
    1.9665   -0.9221   -0.9033 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.9818   -2.3626   -0.0063 Br  0  0  0  0  0  0  0  0  0  0  0  0
    0.5176   -1.1637   -0.8086 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.5319    0.3765   -2.7248 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6716    1.7461   -3.0670 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2242    2.4255   -1.6106 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8002    2.2407    0.1713 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.1092    1.0581   -1.0166 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7274   -1.0006    0.1074 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5235   -2.4745    1.0871 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5679   -2.6887   -0.3810 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7769   -2.6054    1.2988 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9207    0.8157    2.0886 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6388   -0.4521    2.5328 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3966   -0.8426    2.4583 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1104    1.3849    1.3506 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.0558   -0.0120    1.5058 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.1328    2.0968   -0.7230 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.1111    2.0180    0.7915 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.3154   -0.3545    1.3745 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.4700   -0.4109    0.0241 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.0806    1.1573    0.8151 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.2721   -1.0941   -1.9871 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1150   -1.3865   -1.8438 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.3981   -2.1774   -0.3037 H   0  0  0  0  0  0  0  0  0  0  0  0
 13 12  1  0
 12 14  1  6
 12 11  1  0
 11 10  1  0
  9 10  1  1
  9 17  1  0
 17 15  1  0
 15 16  1  0
  9  2  1  0
  2  1  2  3
  2  3  1  0
  3  4  1  0
  4  5  2  0
  5  6  1  0
  6  7  1  1
  6  8  1  0
 15 12  1  0
  6  9  1  0
 13 34  1  0
 13 35  1  0
 13 36  1  0
 11 32  1  0
 11 33  1  0
 10 30  1  0
 10 31  1  0
 17 38  1  0
 17 39  1  0
 15 37  1  6
  1 18  1  0
  1 19  1  0
  3 20  1  0
  3 21  1  0
  4 22  1  0
  5 23  1  0
  7 24  1  0
  7 25  1  0
  7 26  1  0
  8 27  1  0
  8 28  1  0
  8 29  1  0
M  END


  Mrv1652304282210472D          

 17 18  0  0  1  0            999 V2000
    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 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3020   -0.3020    0.0000 C   0  0  0  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
    1.1270    1.1270    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5395    0.4125    0.0000 C   0  0  2  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
    2.7770   -0.3020    0.0000 C   0  0  2  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
    3.1895   -1.0164    0.0000 Br  0  0  0  0  0  0  0  0  0  0  0  0
    3.9179    0.7998    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9179    0.0252    0.0000 Cl  0  0  0  0  0  0  0  0  0  0  0  0
    1.1558    1.9515    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.8266    1.5642    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0  0  0  0
  1  3  1  0  0  0  0
  3  4  1  0  0  0  0
  4  5  2  0  0  0  0
  5  6  1  0  0  0  0
  6  7  1  0  0  0  0
  7  1  1  6  0  0  0
  7  8  1  0  0  0  0
  8  9  1  0  0  0  0
  9 10  1  0  0  0  0
 10 11  1  0  0  0  0
 11 12  1  0  0  0  0
  7 12  1  0  0  0  0
 11 13  1  1  0  0  0
 10 14  1  1  0  0  0
 10 15  1  6  0  0  0
  6 16  1  0  0  0  0
  6 17  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0064590

> <DATABASE_NAME>
NP-MRD

> <SMILES>
C[C@]1(Cl)CC[C@]2(C[C@@H]1Br)C(=C)CC=CC2(C)C

> <INCHI_IDENTIFIER>
InChI=1S/C15H22BrCl/c1-11-6-5-7-13(2,3)15(11)9-8-14(4,17)12(16)10-15/h5,7,12H,1,6,8-10H2,2-4H3/t12-,14-,15-/m0/s1

> <INCHI_KEY>
MNGJZORQSGCQAN-QEJZJMRPSA-N

> <FORMULA>
C15H22BrCl

> <MOLECULAR_WEIGHT>
317.7

> <EXACT_MASS>
316.059341

> <JCHEM_ACCEPTOR_COUNT>
0

> <JCHEM_ATOM_COUNT>
39

> <JCHEM_AVERAGE_POLARIZABILITY>
30.758799578363643

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
0

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(6S,8S,9S)-8-bromo-9-chloro-1,1,9-trimethyl-5-methylidenespiro[5.5]undec-2-ene

> <ALOGPS_LOGP>
6.08

> <JCHEM_LOGP>
5.002609652666667

> <ALOGPS_LOGS>
-6.36

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
2

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_POLAR_SURFACE_AREA>
0.0

> <JCHEM_REFRACTIVITY>
79.85159999999999

> <JCHEM_ROTATABLE_BOND_COUNT>
0

> <JCHEM_RULE_OF_FIVE>
0

> <ALOGPS_SOLUBILITY>
1.38e-04 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(6S,8S,9S)-8-bromo-9-chloro-1,1,9-trimethyl-5-methylidenespiro[5.5]undec-2-ene

> <JCHEM_VEBER_RULE>
1

$$$$

HEADER    PROTEIN                                 28-APR-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   28-APR-22         0                                  
HETATM    1  C   UNK     0       2.104  -0.564   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       2.874  -1.897   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       0.564  -0.564   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      -0.206   0.770   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       0.564   2.104   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       2.104   2.104   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       2.874   0.770   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       3.644   2.104   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       5.184   2.104   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       5.954   0.770   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       5.184  -0.564   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       3.644  -0.564   0.000  0.00  0.00           C+0
HETATM   13 Br   UNK     0       5.954  -1.897   0.000  0.00  0.00          Br+0
HETATM   14  C   UNK     0       7.313   1.493   0.000  0.00  0.00           C+0
HETATM   15 Cl   UNK     0       7.313   0.047   0.000  0.00  0.00          Cl+0
HETATM   16  C   UNK     0       2.157   3.643   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       3.410   2.920   0.000  0.00  0.00           C+0
CONECT    1    2    3    7                                                  
CONECT    2    1                                                            
CONECT    3    1    4                                                       
CONECT    4    3    5                                                       
CONECT    5    4    6                                                       
CONECT    6    5    7   16   17                                             
CONECT    7    6    1    8   12                                             
CONECT    8    7    9                                                       
CONECT    9    8   10                                                       
CONECT   10    9   11   14   15                                             
CONECT   11   10   12   13                                                  
CONECT   12   11    7                                                       
CONECT   13   11                                                            
CONECT   14   10                                                            
CONECT   15   10                                                            
CONECT   16    6                                                            
CONECT   17    6                                                            
MASTER        0    0    0    0    0    0    0    0   17    0   36    0
END

View in JSmol

Synonyms

Value	Source
(6S)-8a-Bromo-9b-chloro-1,1,9-trimethyl-5-methylenespiro[5.5]undec-2-ene	Generator
(6S)-8Α-bromo-9β-chloro-1,1,9-trimethyl-5-methylenespiro[5.5]undec-2-ene	Generator

Chemical Formula

C₁₅H₂₂BrCl

Average Mass

317.7000 Da

Monoisotopic Mass

316.05934 Da

IUPAC Name

(6S,8S,9S)-8-bromo-9-chloro-1,1,9-trimethyl-5-methylidenespiro[5.5]undec-2-ene

Traditional Name

(6S,8S,9S)-8-bromo-9-chloro-1,1,9-trimethyl-5-methylidenespiro[5.5]undec-2-ene

CAS Registry Number

Not Available

SMILES

C[C@]1(Cl)CC[C@]2(C[C@@H]1Br)C(=C)CC=CC2(C)C

InChI Identifier

InChI=1S/C15H22BrCl/c1-11-6-5-7-13(2,3)15(11)9-8-14(4,17)12(16)10-15/h5,7,12H,1,6,8-10H2,2-4H3/t12-,14-,15-/m0/s1

InChI Key

MNGJZORQSGCQAN-QEJZJMRPSA-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
Laurencia nidifica	-	KNApSAcK

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as chamigranes. These are sesquiterpenoids characterized by a 1,1,5,9-tetramethylspiro[5,5]undecane skeleton, formally obtained by linking the C1-C6 and C6-C11 of farnesane together. They are predominantly isolated from algae.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Prenol lipids

Sub Class

Sesquiterpenoids

Direct Parent

Chamigranes

Alternative Parents

Substituents

Chamigrane sesquiterpenoid
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	6.08	ALOGPS
logP	5	ChemAxon
logS	-6.4	ALOGPS
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	0	ChemAxon
Hydrogen Donor Count	0	ChemAxon
Polar Surface Area	0 Å²	ChemAxon
Rotatable Bond Count	0	ChemAxon
Refractivity	79.85 m³·mol⁻¹	ChemAxon
Polarizability	30.76 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

29212626

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

101821173

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Not Available

Showing NP-Card for Nidifidiene (NP0064590)

MOL for NP0064590 (Nidifidiene)

3D MOL for NP0064590 (Nidifidiene)

3D SDF for NP0064590 (Nidifidiene)

3D-SDF for NP0064590 (Nidifidiene)

PDB for NP0064590 (Nidifidiene)

3D PDB for NP0064590 (Nidifidiene)

SMILES for NP0064590 (Nidifidiene)

INCHI for NP0064590 (Nidifidiene)

Structure for NP0064590 (Nidifidiene)

3D Structure for NP0064590 (Nidifidiene)