NP-MRD: Showing NP-Card for [(3r,5r)-5-[(2r,6s)-2,6-dimethyl-10-phenyldecyl]-3,5-dimethyl-1,2-dioxolan-3-yl]acetic acid (NP0299593)

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Record Information

Version

2.0

Created at

2022-09-10 11:30:07 UTC

Updated at

2022-09-10 11:30:07 UTC

NP-MRD ID

NP0299593

Secondary Accession Numbers

None

Natural Product Identification

Common Name

[(3r,5r)-5-[(2r,6s)-2,6-dimethyl-10-phenyldecyl]-3,5-dimethyl-1,2-dioxolan-3-yl]acetic acid

Description

Plakinic acid L, also known as plakinate L, belongs to the class of organic compounds known as benzene and substituted derivatives. These are aromatic compounds containing one monocyclic ring system consisting of benzene. [(3r,5r)-5-[(2r,6s)-2,6-dimethyl-10-phenyldecyl]-3,5-dimethyl-1,2-dioxolan-3-yl]acetic acid is found in Xestospongia deweerdtae. Based on a literature review very few articles have been published on Plakinic acid L.

Structure

MOL SDF PDB SMILES InChI


  Mrv1652309102213302D          

 29 30  0  0  1  0            999 V2000
    1.3871   -1.3068    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5853   -2.1076    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.9908   -2.6797    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1982   -2.4508    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000   -1.6500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.5945   -1.0780    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3963   -0.2771    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3963   -0.0483    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5945    0.7525    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    1.3246    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7926    1.0958    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.9908    0.2949    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.3779   -2.3364    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.9724   -1.7644    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7650   -1.9932    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.3595   -1.4212    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    4.1613   -0.6203    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.1521   -1.6500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.3503   -2.4508    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    4.5331   -2.5642    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.1260   -2.1701    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.6328   -2.8211    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    7.2273   -2.2490    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.2638   -3.3525    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.1191   -4.1647    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.7502   -4.6961    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    6.3434   -4.4455    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    6.1702   -3.5042    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.3776   -3.2754    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  2  1  1  6  0  0  0
  2  3  1  0  0  0  0
  3  4  1  0  0  0  0
  4  5  1  0  0  0  0
  5  6  1  0  0  0  0
  6  7  1  0  0  0  0
  7  8  2  0  0  0  0
  8  9  1  0  0  0  0
  9 10  2  0  0  0  0
 10 11  1  0  0  0  0
 11 12  2  0  0  0  0
  7 12  1  0  0  0  0
  2 13  1  0  0  0  0
 13 14  1  0  0  0  0
 14 15  1  0  0  0  0
 15 16  1  0  0  0  0
 16 17  1  1  0  0  0
 16 18  1  0  0  0  0
 19 18  1  6  0  0  0
 19 20  1  1  0  0  0
 19 21  1  0  0  0  0
 21 22  1  0  0  0  0
 22 23  1  1  0  0  0
 22 24  1  6  0  0  0
 24 25  1  0  0  0  0
 25 26  2  0  0  0  0
 25 27  1  0  0  0  0
 22 28  1  0  0  0  0
 28 29  1  0  0  0  0
 19 29  1  0  0  0  0
M  END


  Mrv1652309102213302D          

 29 30  0  0  1  0            999 V2000
    1.3871   -1.3068    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5853   -2.1076    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.9908   -2.6797    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1982   -2.4508    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000   -1.6500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.5945   -1.0780    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3963   -0.2771    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3963   -0.0483    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5945    0.7525    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    1.3246    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7926    1.0958    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.9908    0.2949    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.3779   -2.3364    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.9724   -1.7644    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7650   -1.9932    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.3595   -1.4212    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    4.1613   -0.6203    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.1521   -1.6500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.3503   -2.4508    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    4.5331   -2.5642    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.1260   -2.1701    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.6328   -2.8211    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    7.2273   -2.2490    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.2638   -3.3525    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.1191   -4.1647    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.7502   -4.6961    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    6.3434   -4.4455    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    6.1702   -3.5042    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.3776   -3.2754    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  2  1  1  6  0  0  0
  2  3  1  0  0  0  0
  3  4  1  0  0  0  0
  4  5  1  0  0  0  0
  5  6  1  0  0  0  0
  6  7  1  0  0  0  0
  7  8  2  0  0  0  0
  8  9  1  0  0  0  0
  9 10  2  0  0  0  0
 10 11  1  0  0  0  0
 11 12  2  0  0  0  0
  7 12  1  0  0  0  0
  2 13  1  0  0  0  0
 13 14  1  0  0  0  0
 14 15  1  0  0  0  0
 15 16  1  0  0  0  0
 16 17  1  1  0  0  0
 16 18  1  0  0  0  0
 19 18  1  6  0  0  0
 19 20  1  1  0  0  0
 19 21  1  0  0  0  0
 21 22  1  0  0  0  0
 22 23  1  1  0  0  0
 22 24  1  6  0  0  0
 24 25  1  0  0  0  0
 25 26  2  0  0  0  0
 25 27  1  0  0  0  0
 22 28  1  0  0  0  0
 28 29  1  0  0  0  0
 19 29  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0299593

> <DATABASE_NAME>
NP-MRD

> <SMILES>
C[C@@H](CCCCC1=CC=CC=C1)CCC[C@@H](C)C[C@]1(C)C[C@](C)(CC(O)=O)OO1

> <INCHI_IDENTIFIER>
InChI=1S/C25H40O4/c1-20(11-8-9-16-22-14-6-5-7-15-22)12-10-13-21(2)17-24(3)19-25(4,29-28-24)18-23(26)27/h5-7,14-15,20-21H,8-13,16-19H2,1-4H3,(H,26,27)/t20-,21+,24+,25-/m0/s1

> <INCHI_KEY>
YVFXEWAKTKCCQQ-JMLJLYKJSA-N

> <FORMULA>
C25H40O4

> <MOLECULAR_WEIGHT>
404.591

> <EXACT_MASS>
404.292659768

> <JCHEM_ACCEPTOR_COUNT>
4

> <JCHEM_ATOM_COUNT>
69

> <JCHEM_AVERAGE_POLARIZABILITY>
48.49892376417436

> <JCHEM_BIOAVAILABILITY>
0

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
2-[(3R,5R)-5-[(2R,6S)-2,6-dimethyl-10-phenyldecyl]-3,5-dimethyl-1,2-dioxolan-3-yl]acetic acid

> <JCHEM_LOGP>
7.181127848333332

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
2

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-1

> <JCHEM_PKA_STRONGEST_ACIDIC>
4.518055626434889

> <JCHEM_PKA_STRONGEST_BASIC>
-4.849745043880785

> <JCHEM_POLAR_SURFACE_AREA>
55.760000000000005

> <JCHEM_REFRACTIVITY>
116.26479999999998

> <JCHEM_ROTATABLE_BOND_COUNT>
13

> <JCHEM_RULE_OF_FIVE>
0

> <JCHEM_TRADITIONAL_IUPAC>
[(3R,5R)-5-[(2R,6S)-2,6-dimethyl-10-phenyldecyl]-3,5-dimethyl-1,2-dioxolan-3-yl]acetic acid

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 10-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   10-SEP-22         0                                  
HETATM    1  C   UNK     0       2.589  -2.439   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       2.959  -3.934   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       1.849  -5.002   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       0.370  -4.575   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       0.000  -3.080   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       1.110  -2.012   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       0.740  -0.517   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0      -0.740  -0.090   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0      -1.110   1.405   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       0.000   2.473   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       1.480   2.045   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       1.849   0.551   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       4.439  -4.361   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       5.548  -3.294   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       7.028  -3.721   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       8.138  -2.653   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       7.768  -1.158   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       9.617  -3.080   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       9.987  -4.575   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0       8.462  -4.787   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0      11.435  -4.051   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0      12.381  -5.266   0.000  0.00  0.00           C+0
HETATM   23  C   UNK     0      13.491  -4.198   0.000  0.00  0.00           C+0
HETATM   24  C   UNK     0      13.559  -6.258   0.000  0.00  0.00           C+0
HETATM   25  C   UNK     0      13.289  -7.774   0.000  0.00  0.00           C+0
HETATM   26  O   UNK     0      14.467  -8.766   0.000  0.00  0.00           O+0
HETATM   27  O   UNK     0      11.841  -8.298   0.000  0.00  0.00           O+0
HETATM   28  O   UNK     0      11.518  -6.541   0.000  0.00  0.00           O+0
HETATM   29  O   UNK     0      10.038  -6.114   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3   13                                                  
CONECT    3    2    4                                                       
CONECT    4    3    5                                                       
CONECT    5    4    6                                                       
CONECT    6    5    7                                                       
CONECT    7    6    8   12                                                  
CONECT    8    7    9                                                       
CONECT    9    8   10                                                       
CONECT   10    9   11                                                       
CONECT   11   10   12                                                       
CONECT   12   11    7                                                       
CONECT   13    2   14                                                       
CONECT   14   13   15                                                       
CONECT   15   14   16                                                       
CONECT   16   15   17   18                                                  
CONECT   17   16                                                            
CONECT   18   16   19                                                       
CONECT   19   18   20   21   29                                             
CONECT   20   19                                                            
CONECT   21   19   22                                                       
CONECT   22   21   23   24   28                                             
CONECT   23   22                                                            
CONECT   24   22   25                                                       
CONECT   25   24   26   27                                                  
CONECT   26   25                                                            
CONECT   27   25                                                            
CONECT   28   22   29                                                       
CONECT   29   28   19                                                       
MASTER        0    0    0    0    0    0    0    0   29    0   60    0
END

View in JSmol

Synonyms

Value	Source
Plakinate L	Generator

Chemical Formula

C₂₅H₄₀O₄

Average Mass

404.5910 Da

Monoisotopic Mass

404.29266 Da

IUPAC Name

2-[(3R,5R)-5-[(2R,6S)-2,6-dimethyl-10-phenyldecyl]-3,5-dimethyl-1,2-dioxolan-3-yl]acetic acid

Traditional Name

[(3R,5R)-5-[(2R,6S)-2,6-dimethyl-10-phenyldecyl]-3,5-dimethyl-1,2-dioxolan-3-yl]acetic acid

CAS Registry Number

Not Available

SMILES

C[C@@H](CCCCC1=CC=CC=C1)CCC[C@@H](C)C[C@]1(C)C[C@](C)(CC(O)=O)OO1

InChI Identifier

InChI=1S/C25H40O4/c1-20(11-8-9-16-22-14-6-5-7-15-22)12-10-13-21(2)17-24(3)19-25(4,29-28-24)18-23(26)27/h5-7,14-15,20-21H,8-13,16-19H2,1-4H3,(H,26,27)/t20-,21+,24+,25-/m0/s1

InChI Key

YVFXEWAKTKCCQQ-JMLJLYKJSA-N

Experimental Spectra

Not Available

Predicted Spectra

Not Available

Chemical Shift Submissions

Not Available

Species

Species of Origin

Species Name	Source	Reference
Xestospongia deweerdtae	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as benzene and substituted derivatives. These are aromatic compounds containing one monocyclic ring system consisting of benzene.

Kingdom

Organic compounds

Super Class

Benzenoids

Class

Benzene and substituted derivatives

Sub Class

Not Available

Direct Parent

Benzene and substituted derivatives

Alternative Parents

Substituents

Monocyclic benzene moiety
Ortho-dioxolane
Dialkyl peroxide
Oxacycle
Organoheterocyclic compound
Monocarboxylic acid or derivatives
Carboxylic acid
Carboxylic acid derivative
Organic oxygen compound
Organic oxide
Hydrocarbon derivative
Organooxygen compound
Carbonyl group
Aromatic heteromonocyclic compound

Molecular Framework

Aromatic 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	7.18	ChemAxon
pKa (Strongest Acidic)	4.52	ChemAxon
pKa (Strongest Basic)	-4.8	ChemAxon
Physiological Charge	-1	ChemAxon
Hydrogen Acceptor Count	4	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	55.76 Å²	ChemAxon
Rotatable Bond Count	13	ChemAxon
Refractivity	116.26 m³·mol⁻¹	ChemAxon
Polarizability	48.5 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

27025481

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

46187485

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for [(3r,5r)-5-[(2r,6s)-2,6-dimethyl-10-phenyldecyl]-3,5-dimethyl-1,2-dioxolan-3-yl]acetic acid (NP0299593)

MOL for NP0299593 ([(3r,5r)-5-[(2r,6s)-2,6-dimethyl-10-phenyldecyl]-3,5-dimethyl-1,2-dioxolan-3-yl]acetic acid)

3D MOL for NP0299593 ([(3r,5r)-5-[(2r,6s)-2,6-dimethyl-10-phenyldecyl]-3,5-dimethyl-1,2-dioxolan-3-yl]acetic acid)

3D SDF for NP0299593 ([(3r,5r)-5-[(2r,6s)-2,6-dimethyl-10-phenyldecyl]-3,5-dimethyl-1,2-dioxolan-3-yl]acetic acid)

3D-SDF for NP0299593 ([(3r,5r)-5-[(2r,6s)-2,6-dimethyl-10-phenyldecyl]-3,5-dimethyl-1,2-dioxolan-3-yl]acetic acid)

PDB for NP0299593 ([(3r,5r)-5-[(2r,6s)-2,6-dimethyl-10-phenyldecyl]-3,5-dimethyl-1,2-dioxolan-3-yl]acetic acid)

3D PDB for NP0299593 ([(3r,5r)-5-[(2r,6s)-2,6-dimethyl-10-phenyldecyl]-3,5-dimethyl-1,2-dioxolan-3-yl]acetic acid)

SMILES for NP0299593 ([(3r,5r)-5-[(2r,6s)-2,6-dimethyl-10-phenyldecyl]-3,5-dimethyl-1,2-dioxolan-3-yl]acetic acid)

INCHI for NP0299593 ([(3r,5r)-5-[(2r,6s)-2,6-dimethyl-10-phenyldecyl]-3,5-dimethyl-1,2-dioxolan-3-yl]acetic acid)

Structure for NP0299593 ([(3r,5r)-5-[(2r,6s)-2,6-dimethyl-10-phenyldecyl]-3,5-dimethyl-1,2-dioxolan-3-yl]acetic acid)

3D Structure for NP0299593 ([(3r,5r)-5-[(2r,6s)-2,6-dimethyl-10-phenyldecyl]-3,5-dimethyl-1,2-dioxolan-3-yl]acetic acid)