NP-MRD: Showing NP-Card for (2r,3r,5s,6s)-3-bromo-2-[(2z)-3-bromopent-2-en-1-yl]-5-chloro-6-[(2e)-pent-2-en-4-yn-1-yl]oxane (NP0252437)

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Record Information

Version

2.0

Created at

2022-09-07 15:57:03 UTC

Updated at

2022-09-07 15:57:04 UTC

NP-MRD ID

NP0252437

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(2r,3r,5s,6s)-3-bromo-2-[(2z)-3-bromopent-2-en-1-yl]-5-chloro-6-[(2e)-pent-2-en-4-yn-1-yl]oxane

Description

Dactylyne belongs to the class of organic compounds known as oxanes. Oxanes are compounds containing an oxane (tetrahydropyran) ring, which is a six-member saturated aliphatic heterocycle with one oxygen atom and five carbon atoms. Based on a literature review very few articles have been published on Dactylyne.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 38 38  0  0  0  0  0  0  0  0999 V2000
   -7.4623    0.8041   -0.5896 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.3996    0.5099   -0.0604 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.1620    0.1416    0.5592 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9911    0.5700    0.0223 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7425    0.1897    0.6603 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7753   -0.6378   -0.1246 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.6739   -0.8693    0.7282 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.5252   -0.5060    0.2013 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.6713   -0.8980    1.1451 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.9364   -0.4743    0.5041 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.8773   -1.3682    0.1796 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5531   -3.2187    0.5632 Br  0  0  0  0  0  0  0  0  0  0  0  0
    5.1530   -1.0126   -0.4577 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.2868    0.4628   -0.7059 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.5819    0.9430   -0.1369 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.6296    2.1227    1.3644 Br  0  0  0  0  0  0  0  0  0  0  0  0
   -0.5950    1.2736   -1.0671 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3475   -0.0073   -1.3898 C   0  0  2  0  0  0  0  0  0  0  0  0
   -2.6891    0.3539   -2.4539 Cl  0  0  0  0  0  0  0  0  0  0  0  0
   -8.3824    1.0452   -1.0564 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.1103   -0.4629    1.4366 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.1128    1.1956   -0.8351 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2524    1.1437    1.0320 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9829   -0.3414    1.6379 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1955   -1.6430   -0.3618 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.7430   -1.0974   -0.7177 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.6621   -1.9948    1.2544 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5373   -0.4410    2.1408 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.1675    0.5514    0.2751 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.0135   -1.4186    0.1250 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.1981   -1.5184   -1.4451 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.2996    0.6321   -1.1459 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.1792    1.0737    0.2080 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.5310    0.7402   -1.4737 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5352    1.1184   -0.7208 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2962    1.9591   -0.5566 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2365    1.7723   -1.9724 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6737   -0.6934   -1.9952 H   0  0  0  0  0  0  0  0  0  0  0  0
 14 13  1  0
 13 11  1  0
 11 12  1  0
 11 10  2  0
 10  9  1  0
  9  8  1  0
  8  7  1  0
  7  6  1  0
  6  5  1  0
  5  4  1  0
  4  3  2  0
  3  2  1  0
  2  1  3  0
  6 18  1  0
 18 19  1  0
 18 17  1  0
 17 15  1  0
 15 16  1  0
 15  8  1  0
 14 32  1  0
 14 33  1  0
 14 34  1  0
 13 30  1  0
 13 31  1  0
 10 29  1  0
  9 27  1  0
  9 28  1  0
  8 26  1  6
  6 25  1  6
  5 23  1  0
  5 24  1  0
  4 22  1  0
  3 21  1  0
  1 20  1  0
 18 38  1  6
 17 36  1  0
 17 37  1  0
 15 35  1  6
M  END


  Mrv1652309072217572D          

 19 19  0  0  1  0            999 V2000
   -1.4289    4.1250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7145    3.7125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    3.3000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145    2.0625    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145    1.2375    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.4289    0.8250    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289   -0.0000    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.1434   -0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8579   -0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5724   -0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5724   -1.2375    0.0000 Br  0  0  0  0  0  0  0  0  0  0  0  0
    4.2868   -0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.2868    0.8250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145   -0.4125    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.7145   -1.2375    0.0000 Br  0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    0.8250    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.7145    1.2375    0.0000 Cl  0  0  0  0  0  0  0  0  0  0  0  0
  1  2  3  0  0  0  0
  2  3  1  0  0  0  0
  3  4  2  0  0  0  0
  4  5  1  0  0  0  0
  6  5  1  6  0  0  0
  6  7  1  0  0  0  0
  7  8  1  0  0  0  0
  8  9  1  6  0  0  0
  9 10  1  0  0  0  0
 10 11  2  0  0  0  0
 11 12  1  0  0  0  0
 11 13  1  0  0  0  0
 13 14  1  0  0  0  0
  8 15  1  0  0  0  0
 15 16  1  6  0  0  0
 15 17  1  0  0  0  0
 17 18  1  0  0  0  0
  6 18  1  0  0  0  0
 18 19  1  6  0  0  0
M  END
> <DATABASE_ID>
NP0252437

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CC\C(Br)=C\C[C@H]1O[C@@H](C\C=C\C#C)[C@@H](Cl)C[C@H]1Br

> <INCHI_IDENTIFIER>
InChI=1S/C15H19Br2ClO/c1-3-5-6-7-15-13(18)10-12(17)14(19-15)9-8-11(16)4-2/h1,5-6,8,12-15H,4,7,9-10H2,2H3/b6-5+,11-8-/t12-,13+,14-,15+/m1/s1

> <INCHI_KEY>
NZHWXNQBZKBACG-MJYPMMBJSA-N

> <FORMULA>
C15H19Br2ClO

> <MOLECULAR_WEIGHT>
410.57

> <EXACT_MASS>
407.949119

> <JCHEM_ACCEPTOR_COUNT>
1

> <JCHEM_ATOM_COUNT>
38

> <JCHEM_AVERAGE_POLARIZABILITY>
35.01608427541857

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
0

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(2R,3R,5S,6S)-3-bromo-2-[(2Z)-3-bromopent-2-en-1-yl]-5-chloro-6-[(2E)-pent-2-en-4-yn-1-yl]oxane

> <JCHEM_LOGP>
4.907165661666667

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
1

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA_STRONGEST_BASIC>
-4.188751236431057

> <JCHEM_POLAR_SURFACE_AREA>
9.23

> <JCHEM_REFRACTIVITY>
90.79399999999998

> <JCHEM_ROTATABLE_BOND_COUNT>
5

> <JCHEM_RULE_OF_FIVE>
1

> <JCHEM_TRADITIONAL_IUPAC>
(2R,3R,5S,6S)-3-bromo-2-[(2Z)-3-bromopent-2-en-1-yl]-5-chloro-6-[(2E)-pent-2-en-4-yn-1-yl]oxane

> <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      -2.667   7.700   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      -1.334   6.930   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       0.000   6.160   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       0.000   4.620   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       1.334   3.850   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       1.334   2.310   0.000  0.00  0.00           C+0
HETATM    7  O   UNK     0       2.667   1.540   0.000  0.00  0.00           O+0
HETATM    8  C   UNK     0       2.667  -0.000   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       4.001  -0.770   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       5.335  -0.000   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       6.668  -0.770   0.000  0.00  0.00           C+0
HETATM   12 Br   UNK     0       6.668  -2.310   0.000  0.00  0.00          Br+0
HETATM   13  C   UNK     0       8.002  -0.000   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       8.002   1.540   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       1.334  -0.770   0.000  0.00  0.00           C+0
HETATM   16 Br   UNK     0       1.334  -2.310   0.000  0.00  0.00          Br+0
HETATM   17  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       0.000   1.540   0.000  0.00  0.00           C+0
HETATM   19 Cl   UNK     0      -1.334   2.310   0.000  0.00  0.00          Cl+0
CONECT    1    2                                                            
CONECT    2    1    3                                                       
CONECT    3    2    4                                                       
CONECT    4    3    5                                                       
CONECT    5    4    6                                                       
CONECT    6    5    7   18                                                  
CONECT    7    6    8                                                       
CONECT    8    7    9   15                                                  
CONECT    9    8   10                                                       
CONECT   10    9   11                                                       
CONECT   11   10   12   13                                                  
CONECT   12   11                                                            
CONECT   13   11   14                                                       
CONECT   14   13                                                            
CONECT   15    8   16   17                                                  
CONECT   16   15                                                            
CONECT   17   15   18                                                       
CONECT   18   17    6   19                                                  
CONECT   19   18                                                            
MASTER        0    0    0    0    0    0    0    0   19    0   38    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₅H₁₉Br₂ClO

Average Mass

410.5700 Da

Monoisotopic Mass

407.94912 Da

IUPAC Name

(2R,3R,5S,6S)-3-bromo-2-[(2Z)-3-bromopent-2-en-1-yl]-5-chloro-6-[(2E)-pent-2-en-4-yn-1-yl]oxane

Traditional Name

(2R,3R,5S,6S)-3-bromo-2-[(2Z)-3-bromopent-2-en-1-yl]-5-chloro-6-[(2E)-pent-2-en-4-yn-1-yl]oxane

CAS Registry Number

Not Available

SMILES

CC\C(Br)=C\C[C@H]1O[C@@H](C\C=C\C#C)[C@@H](Cl)C[C@H]1Br

InChI Identifier

InChI=1S/C15H19Br2ClO/c1-3-5-6-7-15-13(18)10-12(17)14(19-15)9-8-11(16)4-2/h1,5-6,8,12-15H,4,7,9-10H2,2H3/b6-5+,11-8-/t12-,13+,14-,15+/m1/s1

InChI Key

NZHWXNQBZKBACG-MJYPMMBJSA-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

Not Available

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as oxanes. Oxanes are compounds containing an oxane (tetrahydropyran) ring, which is a six-member saturated aliphatic heterocycle with one oxygen atom and five carbon atoms.

Kingdom

Organic compounds

Super Class

Organoheterocyclic compounds

Class

Oxanes

Sub Class

Not Available

Direct Parent

Oxanes

Alternative Parents

Substituents

Oxane
Acetylide
Oxacycle
Bromoalkene
Haloalkene
Vinyl halide
Vinyl bromide
Ether
Dialkyl ether
Organic oxygen compound
Hydrocarbon derivative
Organooxygen compound
Organochloride
Organobromide
Organohalogen compound
Alkyl halide
Alkyl chloride
Alkyl bromide
Aliphatic heteromonocyclic compound

Molecular Framework

Aliphatic heteromonocyclic 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	4.91	ChemAxon
pKa (Strongest Basic)	-4.2	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	1	ChemAxon
Hydrogen Donor Count	0	ChemAxon
Polar Surface Area	9.23 Å²	ChemAxon
Rotatable Bond Count	5	ChemAxon
Refractivity	90.79 m³·mol⁻¹	ChemAxon
Polarizability	35.02 Å³	ChemAxon
Number of Rings	1	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

C00000453

Chemspider ID

4945292

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

6441069

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for (2r,3r,5s,6s)-3-bromo-2-[(2z)-3-bromopent-2-en-1-yl]-5-chloro-6-[(2e)-pent-2-en-4-yn-1-yl]oxane (NP0252437)

MOL for NP0252437 ((2r,3r,5s,6s)-3-bromo-2-[(2z)-3-bromopent-2-en-1-yl]-5-chloro-6-[(2e)-pent-2-en-4-yn-1-yl]oxane)

3D MOL for NP0252437 ((2r,3r,5s,6s)-3-bromo-2-[(2z)-3-bromopent-2-en-1-yl]-5-chloro-6-[(2e)-pent-2-en-4-yn-1-yl]oxane)

3D SDF for NP0252437 ((2r,3r,5s,6s)-3-bromo-2-[(2z)-3-bromopent-2-en-1-yl]-5-chloro-6-[(2e)-pent-2-en-4-yn-1-yl]oxane)

3D-SDF for NP0252437 ((2r,3r,5s,6s)-3-bromo-2-[(2z)-3-bromopent-2-en-1-yl]-5-chloro-6-[(2e)-pent-2-en-4-yn-1-yl]oxane)

PDB for NP0252437 ((2r,3r,5s,6s)-3-bromo-2-[(2z)-3-bromopent-2-en-1-yl]-5-chloro-6-[(2e)-pent-2-en-4-yn-1-yl]oxane)

3D PDB for NP0252437 ((2r,3r,5s,6s)-3-bromo-2-[(2z)-3-bromopent-2-en-1-yl]-5-chloro-6-[(2e)-pent-2-en-4-yn-1-yl]oxane)

SMILES for NP0252437 ((2r,3r,5s,6s)-3-bromo-2-[(2z)-3-bromopent-2-en-1-yl]-5-chloro-6-[(2e)-pent-2-en-4-yn-1-yl]oxane)

INCHI for NP0252437 ((2r,3r,5s,6s)-3-bromo-2-[(2z)-3-bromopent-2-en-1-yl]-5-chloro-6-[(2e)-pent-2-en-4-yn-1-yl]oxane)

Structure for NP0252437 ((2r,3r,5s,6s)-3-bromo-2-[(2z)-3-bromopent-2-en-1-yl]-5-chloro-6-[(2e)-pent-2-en-4-yn-1-yl]oxane)

3D Structure for NP0252437 ((2r,3r,5s,6s)-3-bromo-2-[(2z)-3-bromopent-2-en-1-yl]-5-chloro-6-[(2e)-pent-2-en-4-yn-1-yl]oxane)