NP-MRD: Showing NP-Card for [(3s,6r)-6-[(2s,5s)-5-[(9z,11e)-heptadeca-9,11,16-trien-1-yl]oxolan-2-yl]-1,2-dioxan-3-yl]acetic acid (NP0169351)

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Record Information

Version

2.0

Created at

2022-09-03 05:17:11 UTC

Updated at

2022-09-03 05:17:11 UTC

NP-MRD ID

NP0169351

Secondary Accession Numbers

None

Natural Product Identification

Common Name

[(3s,6r)-6-[(2s,5s)-5-[(9z,11e)-heptadeca-9,11,16-trien-1-yl]oxolan-2-yl]-1,2-dioxan-3-yl]acetic acid

Description

Stolonoxide B belongs to the class of organic compounds known as 1,2-dioxanes. These are organic compounds containing 1,2-dioxane, an aliphatic six-member ring with two oxygen atoms in ring positions 1 and 2. [(3s,6r)-6-[(2s,5s)-5-[(9z,11e)-heptadeca-9,11,16-trien-1-yl]oxolan-2-yl]-1,2-dioxan-3-yl]acetic acid is found in Stolonica socialis. Based on a literature review very few articles have been published on stolonoxide B.

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1652309032207172D          

 32 33  0  0  1  0            999 V2000
   -2.2268   -2.4878    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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   -1.5124   -3.7253    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5124   -4.5503    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7979   -4.9628    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7979   -5.7878    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0834   -6.2003    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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  1  2  2  0  0  0  0
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M  END

     RDKit          3D

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M  END


  Mrv1652309032207172D          

 32 33  0  0  1  0            999 V2000
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M  END
> <DATABASE_ID>
NP0169351

> <DATABASE_NAME>
NP-MRD

> <SMILES>
OC(=O)C[C@@H]1CC[C@@H](OO1)[C@@H]1CC[C@H](CCCCCCCC\C=C/C=C/CCCC=C)O1

> <INCHI_IDENTIFIER>
InChI=1S/C27H44O5/c1-2-3-4-5-6-7-8-9-10-11-12-13-14-15-16-17-23-18-20-25(30-23)26-21-19-24(31-32-26)22-27(28)29/h2,6-9,23-26H,1,3-5,10-22H2,(H,28,29)/b7-6+,9-8-/t23-,24-,25-,26+/m0/s1

> <INCHI_KEY>
CXEJJFRGPIOFCG-RQTATHAISA-N

> <FORMULA>
C27H44O5

> <MOLECULAR_WEIGHT>
448.644

> <EXACT_MASS>
448.318874517

> <JCHEM_ACCEPTOR_COUNT>
5

> <JCHEM_ATOM_COUNT>
76

> <JCHEM_AVERAGE_POLARIZABILITY>
54.407864599292296

> <JCHEM_BIOAVAILABILITY>
0

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
2-[(3S,6R)-6-[(2S,5S)-5-[(9Z,11E)-heptadeca-9,11,16-trien-1-yl]oxolan-2-yl]-1,2-dioxan-3-yl]acetic acid

> <ALOGPS_LOGP>
7.14

> <JCHEM_LOGP>
7.547431805999999

> <ALOGPS_LOGS>
-7.07

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
2

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-1

> <JCHEM_PKA_STRONGEST_ACIDIC>
4.087493066105701

> <JCHEM_PKA_STRONGEST_BASIC>
-4.097712856971087

> <JCHEM_POLAR_SURFACE_AREA>
64.99000000000001

> <JCHEM_REFRACTIVITY>
130.24899999999994

> <JCHEM_ROTATABLE_BOND_COUNT>
17

> <JCHEM_RULE_OF_FIVE>
0

> <ALOGPS_SOLUBILITY>
3.79e-05 g/l

> <JCHEM_TRADITIONAL_IUPAC>
[(3S,6R)-6-[(2S,5S)-5-[(9Z,11E)-heptadeca-9,11,16-trien-1-yl]oxolan-2-yl]-1,2-dioxan-3-yl]acetic acid

> <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      -4.157  -4.644   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      -4.157  -6.184   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0      -2.823  -6.954   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      -2.823  -8.494   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      -1.489  -9.264   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0      -1.489 -10.804   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0      -0.156 -11.574   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0      -0.156 -13.114   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       1.178 -13.884   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       2.512 -13.114   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       3.845 -13.884   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       5.179 -13.114   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       6.513 -13.884   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       7.846 -13.114   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       9.180 -13.884   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0      10.514 -13.114   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0      11.847 -13.884   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0      13.181 -13.114   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0      13.342 -11.582   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0      14.848 -11.262   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0      15.618 -12.596   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0      17.150 -12.757   0.000  0.00  0.00           C+0
HETATM   23  C   UNK     0      18.055 -11.511   0.000  0.00  0.00           C+0
HETATM   24  C   UNK     0      19.587 -11.672   0.000  0.00  0.00           C+0
HETATM   25  C   UNK     0      20.213 -13.079   0.000  0.00  0.00           C+0
HETATM   26  C   UNK     0      21.745 -13.240   0.000  0.00  0.00           C+0
HETATM   27  C   UNK     0      22.371 -14.647   0.000  0.00  0.00           C+0
HETATM   28  O   UNK     0      23.903 -14.808   0.000  0.00  0.00           O+0
HETATM   29  O   UNK     0      21.466 -15.893   0.000  0.00  0.00           O+0
HETATM   30  O   UNK     0      19.308 -14.325   0.000  0.00  0.00           O+0
HETATM   31  O   UNK     0      17.776 -14.164   0.000  0.00  0.00           O+0
HETATM   32  O   UNK     0      14.588 -13.740   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3                                                       
CONECT    3    2    4                                                       
CONECT    4    3    5                                                       
CONECT    5    4    6                                                       
CONECT    6    5    7                                                       
CONECT    7    6    8                                                       
CONECT    8    7    9                                                       
CONECT    9    8   10                                                       
CONECT   10    9   11                                                       
CONECT   11   10   12                                                       
CONECT   12   11   13                                                       
CONECT   13   12   14                                                       
CONECT   14   13   15                                                       
CONECT   15   14   16                                                       
CONECT   16   15   17                                                       
CONECT   17   16   18                                                       
CONECT   18   17   19   32                                                  
CONECT   19   18   20                                                       
CONECT   20   19   21                                                       
CONECT   21   20   22   32                                                  
CONECT   22   21   23   31                                                  
CONECT   23   22   24                                                       
CONECT   24   23   25                                                       
CONECT   25   24   26   30                                                  
CONECT   26   25   27                                                       
CONECT   27   26   28   29                                                  
CONECT   28   27                                                            
CONECT   29   27                                                            
CONECT   30   25   31                                                       
CONECT   31   30   22                                                       
CONECT   32   21   18                                                       
MASTER        0    0    0    0    0    0    0    0   32    0   66    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₂₇H₄₄O₅

Average Mass

448.6440 Da

Monoisotopic Mass

448.31887 Da

IUPAC Name

2-[(3S,6R)-6-[(2S,5S)-5-[(9Z,11E)-heptadeca-9,11,16-trien-1-yl]oxolan-2-yl]-1,2-dioxan-3-yl]acetic acid

Traditional Name

[(3S,6R)-6-[(2S,5S)-5-[(9Z,11E)-heptadeca-9,11,16-trien-1-yl]oxolan-2-yl]-1,2-dioxan-3-yl]acetic acid

CAS Registry Number

Not Available

SMILES

OC(=O)C[C@@H]1CC[C@@H](OO1)[C@@H]1CC[C@H](CCCCCCCC\C=C/C=C/CCCC=C)O1

InChI Identifier

InChI=1S/C27H44O5/c1-2-3-4-5-6-7-8-9-10-11-12-13-14-15-16-17-23-18-20-25(30-23)26-21-19-24(31-32-26)22-27(28)29/h2,6-9,23-26H,1,3-5,10-22H2,(H,28,29)/b7-6+,9-8-/t23-,24-,25-,26+/m0/s1

InChI Key

CXEJJFRGPIOFCG-RQTATHAISA-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
Stolonica socialis	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as 1,2-dioxanes. These are organic compounds containing 1,2-dioxane, an aliphatic six-member ring with two oxygen atoms in ring positions 1 and 2.

Kingdom

Organic compounds

Super Class

Organoheterocyclic compounds

Class

Dioxanes

Sub Class

1,2-dioxanes

Direct Parent

1,2-dioxanes

Alternative Parents

Substituents

Ortho-dioxane
Oxolane
Dialkyl peroxide
Oxacycle
Monocarboxylic acid or derivatives
Ether
Dialkyl ether
Carboxylic acid
Carboxylic acid derivative
Organic oxygen compound
Organic oxide
Hydrocarbon derivative
Organooxygen compound
Carbonyl group
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	7.14	ALOGPS
logP	7.55	ChemAxon
logS	-7.1	ALOGPS
pKa (Strongest Acidic)	4.09	ChemAxon
pKa (Strongest Basic)	-4.1	ChemAxon
Physiological Charge	-1	ChemAxon
Hydrogen Acceptor Count	5	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	64.99 Å²	ChemAxon
Rotatable Bond Count	17	ChemAxon
Refractivity	130.25 m³·mol⁻¹	ChemAxon
Polarizability	54.41 Å³	ChemAxon
Number of Rings	2	ChemAxon
Bioavailability	No	ChemAxon
Rule of Five	No	ChemAxon
Ghose Filter	No	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

25065645

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

71720233

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for [(3s,6r)-6-[(2s,5s)-5-[(9z,11e)-heptadeca-9,11,16-trien-1-yl]oxolan-2-yl]-1,2-dioxan-3-yl]acetic acid (NP0169351)

MOL for NP0169351 ([(3s,6r)-6-[(2s,5s)-5-[(9z,11e)-heptadeca-9,11,16-trien-1-yl]oxolan-2-yl]-1,2-dioxan-3-yl]acetic acid)

3D MOL for NP0169351 ([(3s,6r)-6-[(2s,5s)-5-[(9z,11e)-heptadeca-9,11,16-trien-1-yl]oxolan-2-yl]-1,2-dioxan-3-yl]acetic acid)

3D SDF for NP0169351 ([(3s,6r)-6-[(2s,5s)-5-[(9z,11e)-heptadeca-9,11,16-trien-1-yl]oxolan-2-yl]-1,2-dioxan-3-yl]acetic acid)

3D-SDF for NP0169351 ([(3s,6r)-6-[(2s,5s)-5-[(9z,11e)-heptadeca-9,11,16-trien-1-yl]oxolan-2-yl]-1,2-dioxan-3-yl]acetic acid)

PDB for NP0169351 ([(3s,6r)-6-[(2s,5s)-5-[(9z,11e)-heptadeca-9,11,16-trien-1-yl]oxolan-2-yl]-1,2-dioxan-3-yl]acetic acid)

3D PDB for NP0169351 ([(3s,6r)-6-[(2s,5s)-5-[(9z,11e)-heptadeca-9,11,16-trien-1-yl]oxolan-2-yl]-1,2-dioxan-3-yl]acetic acid)

SMILES for NP0169351 ([(3s,6r)-6-[(2s,5s)-5-[(9z,11e)-heptadeca-9,11,16-trien-1-yl]oxolan-2-yl]-1,2-dioxan-3-yl]acetic acid)

INCHI for NP0169351 ([(3s,6r)-6-[(2s,5s)-5-[(9z,11e)-heptadeca-9,11,16-trien-1-yl]oxolan-2-yl]-1,2-dioxan-3-yl]acetic acid)

Structure for NP0169351 ([(3s,6r)-6-[(2s,5s)-5-[(9z,11e)-heptadeca-9,11,16-trien-1-yl]oxolan-2-yl]-1,2-dioxan-3-yl]acetic acid)

3D Structure for NP0169351 ([(3s,6r)-6-[(2s,5s)-5-[(9z,11e)-heptadeca-9,11,16-trien-1-yl]oxolan-2-yl]-1,2-dioxan-3-yl]acetic acid)