NP-MRD: Showing NP-Card for (2r)-n-[(2s,3r,4e)-1,3-dihydroxyoctadec-4-en-2-yl]-2-hydroxyhexadecanimidic acid (NP0324698)

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Record Information

Version

2.0

Created at

2022-09-12 04:56:07 UTC

Updated at

2022-09-12 04:56:07 UTC

NP-MRD ID

NP0324698

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(2r)-n-[(2s,3r,4e)-1,3-dihydroxyoctadec-4-en-2-yl]-2-hydroxyhexadecanimidic acid

Description

16:0(2R-OH) Ceramide, N-(2'-(R)-hydroxypalmitoyl)-D-erythro-sphingosine, powder belongs to the class of organic compounds known as secondary alcohols. Secondary alcohols are compounds containing a secondary alcohol functional group, with the general structure HOC(R)(R') (R,R'=alkyl, aryl). (2r)-n-[(2s,3r,4e)-1,3-dihydroxyoctadec-4-en-2-yl]-2-hydroxyhexadecanimidic acid is found in Cortinarius vibratilis. Based on a literature review very few articles have been published on 16:0(2R-OH) Ceramide, N-(2'-(R)-hydroxypalmitoyl)-D-erythro-sphingosine, powder.

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1652309122206562D          

 39 38  0  0  1  0            999 V2000
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M  END

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M  END


  Mrv1652309122206562D          

 39 38  0  0  1  0            999 V2000
   -6.8644    4.2868    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.1499    4.6993    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.4355    4.2868    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.7210    4.6993    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0065    4.2868    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2921    4.6993    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5776    4.2868    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8631    4.6993    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1487    4.2868    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4342    4.6993    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.2803    4.2868    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.9948    4.6993    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.7092    4.2868    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4237    4.6993    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1382    4.2868    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.8526    4.6993    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    3.8526    5.5243    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.5671    4.2868    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    4.5671    3.4618    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.2816    3.0493    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.2816    4.6993    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    5.9961    4.2868    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.9961    3.4618    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    6.7105    4.6993    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    6.7105    5.5243    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    7.4250    4.2868    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    8.1395    4.6993    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    8.8539    4.2868    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    9.5684    4.6993    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   10.2829    4.2868    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   10.9974    4.6993    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   11.7118    4.2868    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   12.4263    4.6993    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   13.1408    4.2868    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   13.8552    4.6993    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   14.5697    4.2868    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   15.2842    4.6993    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   15.9987    4.2868    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   16.7131    4.6993    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  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  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
 12 13  1  0  0  0  0
 13 14  1  0  0  0  0
 14 15  2  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
 18 19  1  0  0  0  0
 19 20  1  0  0  0  0
 18 21  1  1  0  0  0
 21 22  2  0  0  0  0
 22 23  1  4  0  0  0
 22 24  1  0  0  0  0
 24 25  1  6  0  0  0
 24 26  1  0  0  0  0
 26 27  1  0  0  0  0
 27 28  1  0  0  0  0
 28 29  1  0  0  0  0
 29 30  1  0  0  0  0
 30 31  1  0  0  0  0
 31 32  1  0  0  0  0
 32 33  1  0  0  0  0
 33 34  1  0  0  0  0
 34 35  1  0  0  0  0
 35 36  1  0  0  0  0
 36 37  1  0  0  0  0
 37 38  1  0  0  0  0
 38 39  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0324698

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CCCCCCCCCCCCCC[C@@H](O)C(O)=N[C@@H](CO)[C@H](O)\C=C\CCCCCCCCCCCCC

> <INCHI_IDENTIFIER>
InChI=1S/C34H67NO4/c1-3-5-7-9-11-13-15-17-19-20-22-24-26-28-32(37)31(30-36)35-34(39)33(38)29-27-25-23-21-18-16-14-12-10-8-6-4-2/h26,28,31-33,36-38H,3-25,27,29-30H2,1-2H3,(H,35,39)/b28-26+/t31-,32+,33+/m0/s1

> <INCHI_KEY>
YWZGQPJRQXHVQX-GGMPIESISA-N

> <FORMULA>
C34H67NO4

> <MOLECULAR_WEIGHT>
553.913

> <EXACT_MASS>
553.507009641

> <JCHEM_ACCEPTOR_COUNT>
5

> <JCHEM_ATOM_COUNT>
106

> <JCHEM_AVERAGE_POLARIZABILITY>
74.32631364156136

> <JCHEM_BIOAVAILABILITY>
0

> <JCHEM_DONOR_COUNT>
4

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(2R)-N-[(2S,3R,4E)-1,3-dihydroxyoctadec-4-en-2-yl]-2-hydroxyhexadecanimidic acid

> <JCHEM_LOGP>
10.81389335

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
0

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
13.930687926669737

> <JCHEM_PKA_STRONGEST_ACIDIC>
4.274894635931064

> <JCHEM_PKA_STRONGEST_BASIC>
2.0501687021704393

> <JCHEM_POLAR_SURFACE_AREA>
93.28

> <JCHEM_REFRACTIVITY>
167.7896

> <JCHEM_ROTATABLE_BOND_COUNT>
30

> <JCHEM_RULE_OF_FIVE>
0

> <JCHEM_TRADITIONAL_IUPAC>
(2R)-N-[(2S,3R,4E)-1,3-dihydroxyoctadec-4-en-2-yl]-2-hydroxyhexadecanimidic acid

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 12-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   12-SEP-22         0                                  
HETATM    1  C   UNK     0     -12.814   8.002   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0     -11.480   8.772   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0     -10.146   8.002   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      -8.813   8.772   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      -7.479   8.002   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0      -6.145   8.772   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0      -4.812   8.002   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0      -3.478   8.772   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0      -2.144   8.002   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0      -0.810   8.772   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       0.523   8.002   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       1.857   8.772   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       3.191   8.002   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       4.524   8.772   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       5.858   8.002   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       7.192   8.772   0.000  0.00  0.00           C+0
HETATM   17  O   UNK     0       7.192  10.312   0.000  0.00  0.00           O+0
HETATM   18  C   UNK     0       8.525   8.002   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       8.525   6.462   0.000  0.00  0.00           C+0
HETATM   20  O   UNK     0       9.859   5.692   0.000  0.00  0.00           O+0
HETATM   21  N   UNK     0       9.859   8.772   0.000  0.00  0.00           N+0
HETATM   22  C   UNK     0      11.193   8.002   0.000  0.00  0.00           C+0
HETATM   23  O   UNK     0      11.193   6.462   0.000  0.00  0.00           O+0
HETATM   24  C   UNK     0      12.526   8.772   0.000  0.00  0.00           C+0
HETATM   25  O   UNK     0      12.526  10.312   0.000  0.00  0.00           O+0
HETATM   26  C   UNK     0      13.860   8.002   0.000  0.00  0.00           C+0
HETATM   27  C   UNK     0      15.194   8.772   0.000  0.00  0.00           C+0
HETATM   28  C   UNK     0      16.527   8.002   0.000  0.00  0.00           C+0
HETATM   29  C   UNK     0      17.861   8.772   0.000  0.00  0.00           C+0
HETATM   30  C   UNK     0      19.195   8.002   0.000  0.00  0.00           C+0
HETATM   31  C   UNK     0      20.528   8.772   0.000  0.00  0.00           C+0
HETATM   32  C   UNK     0      21.862   8.002   0.000  0.00  0.00           C+0
HETATM   33  C   UNK     0      23.196   8.772   0.000  0.00  0.00           C+0
HETATM   34  C   UNK     0      24.529   8.002   0.000  0.00  0.00           C+0
HETATM   35  C   UNK     0      25.863   8.772   0.000  0.00  0.00           C+0
HETATM   36  C   UNK     0      27.197   8.002   0.000  0.00  0.00           C+0
HETATM   37  C   UNK     0      28.530   8.772   0.000  0.00  0.00           C+0
HETATM   38  C   UNK     0      29.864   8.002   0.000  0.00  0.00           C+0
HETATM   39  C   UNK     0      31.198   8.772   0.000  0.00  0.00           C+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   18                                                  
CONECT   17   16                                                            
CONECT   18   16   19   21                                                  
CONECT   19   18   20                                                       
CONECT   20   19                                                            
CONECT   21   18   22                                                       
CONECT   22   21   23   24                                                  
CONECT   23   22                                                            
CONECT   24   22   25   26                                                  
CONECT   25   24                                                            
CONECT   26   24   27                                                       
CONECT   27   26   28                                                       
CONECT   28   27   29                                                       
CONECT   29   28   30                                                       
CONECT   30   29   31                                                       
CONECT   31   30   32                                                       
CONECT   32   31   33                                                       
CONECT   33   32   34                                                       
CONECT   34   33   35                                                       
CONECT   35   34   36                                                       
CONECT   36   35   37                                                       
CONECT   37   36   38                                                       
CONECT   38   37   39                                                       
CONECT   39   38                                                            
MASTER        0    0    0    0    0    0    0    0   39    0   76    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₃₄H₆₇NO₄

Average Mass

553.9130 Da

Monoisotopic Mass

553.50701 Da

IUPAC Name

(2R)-N-[(2S,3R,4E)-1,3-dihydroxyoctadec-4-en-2-yl]-2-hydroxyhexadecanimidic acid

Traditional Name

(2R)-N-[(2S,3R,4E)-1,3-dihydroxyoctadec-4-en-2-yl]-2-hydroxyhexadecanimidic acid

CAS Registry Number

Not Available

SMILES

CCCCCCCCCCCCCC[C@@H](O)C(O)=N[C@@H](CO)[C@H](O)\C=C\CCCCCCCCCCCCC

InChI Identifier

InChI=1S/C34H67NO4/c1-3-5-7-9-11-13-15-17-19-20-22-24-26-28-32(37)31(30-36)35-34(39)33(38)29-27-25-23-21-18-16-14-12-10-8-6-4-2/h26,28,31-33,36-38H,3-25,27,29-30H2,1-2H3,(H,35,39)/b28-26+/t31-,32+,33+/m0/s1

InChI Key

YWZGQPJRQXHVQX-GGMPIESISA-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
Thaxterogaster vibratilis	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as secondary alcohols. Secondary alcohols are compounds containing a secondary alcohol functional group, with the general structure HOC(R)(R') (R,R'=alkyl, aryl).

Kingdom

Organic compounds

Super Class

Organic oxygen compounds

Class

Organooxygen compounds

Sub Class

Alcohols and polyols

Direct Parent

Secondary alcohols

Alternative Parents

Substituents

Secondary alcohol
Organic 1,3-dipolar compound
Propargyl-type 1,3-dipolar organic compound
Carboximidic acid derivative
Carboximidic acid
Organic nitrogen compound
Organopnictogen compound
Hydrocarbon derivative
Primary alcohol
Organonitrogen compound
Aliphatic acyclic compound

Molecular Framework

Aliphatic acyclic 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	10.81	ChemAxon
pKa (Strongest Acidic)	4.27	ChemAxon
pKa (Strongest Basic)	2.05	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	5	ChemAxon
Hydrogen Donor Count	4	ChemAxon
Polar Surface Area	93.28 Å²	ChemAxon
Rotatable Bond Count	30	ChemAxon
Refractivity	167.79 m³·mol⁻¹	ChemAxon
Polarizability	74.33 Å³	ChemAxon
Number of Rings	0	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

57259424

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

136212728

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for (2r)-n-[(2s,3r,4e)-1,3-dihydroxyoctadec-4-en-2-yl]-2-hydroxyhexadecanimidic acid (NP0324698)

MOL for NP0324698 ((2r)-n-[(2s,3r,4e)-1,3-dihydroxyoctadec-4-en-2-yl]-2-hydroxyhexadecanimidic acid)

3D MOL for NP0324698 ((2r)-n-[(2s,3r,4e)-1,3-dihydroxyoctadec-4-en-2-yl]-2-hydroxyhexadecanimidic acid)

3D SDF for NP0324698 ((2r)-n-[(2s,3r,4e)-1,3-dihydroxyoctadec-4-en-2-yl]-2-hydroxyhexadecanimidic acid)

3D-SDF for NP0324698 ((2r)-n-[(2s,3r,4e)-1,3-dihydroxyoctadec-4-en-2-yl]-2-hydroxyhexadecanimidic acid)

PDB for NP0324698 ((2r)-n-[(2s,3r,4e)-1,3-dihydroxyoctadec-4-en-2-yl]-2-hydroxyhexadecanimidic acid)

3D PDB for NP0324698 ((2r)-n-[(2s,3r,4e)-1,3-dihydroxyoctadec-4-en-2-yl]-2-hydroxyhexadecanimidic acid)

SMILES for NP0324698 ((2r)-n-[(2s,3r,4e)-1,3-dihydroxyoctadec-4-en-2-yl]-2-hydroxyhexadecanimidic acid)

INCHI for NP0324698 ((2r)-n-[(2s,3r,4e)-1,3-dihydroxyoctadec-4-en-2-yl]-2-hydroxyhexadecanimidic acid)

Structure for NP0324698 ((2r)-n-[(2s,3r,4e)-1,3-dihydroxyoctadec-4-en-2-yl]-2-hydroxyhexadecanimidic acid)

3D Structure for NP0324698 ((2r)-n-[(2s,3r,4e)-1,3-dihydroxyoctadec-4-en-2-yl]-2-hydroxyhexadecanimidic acid)