NP-MRD: Showing NP-Card for n-[(2r,3s)-1,3-dihydroxydodecan-2-yl]ethanimidic acid (NP0280770)

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Record Information

Version

2.0

Created at

2022-09-09 06:44:46 UTC

Updated at

2022-09-09 06:44:46 UTC

NP-MRD ID

NP0280770

Secondary Accession Numbers

None

Natural Product Identification

Common Name

n-[(2r,3s)-1,3-dihydroxydodecan-2-yl]ethanimidic acid

Description

(+)-Clavaminol H belongs to the class of organic compounds known as acetamides. These are organic compounds with the general formula RNHC(=O)CH3, where R= organyl group. n-[(2r,3s)-1,3-dihydroxydodecan-2-yl]ethanimidic acid is found in Clavelina oblonga. Based on a literature review very few articles have been published on (+)-Clavaminol H.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 47 46  0  0  0  0  0  0  0  0999 V2000
    5.7203   -0.8599   -0.9773 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.4622   -1.6973   -0.7279 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.3272   -1.1733   -1.5467 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.9690    0.2523   -1.2460 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.5562    0.4896    0.1669 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3343   -0.3491    0.5049 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8930   -0.1294    1.9315 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3073   -0.9832    2.2090 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4820   -0.6922    1.3321 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9567    0.7463    1.4720 C   0  0  2  0  0  0  0  0  0  0  0  0
   -2.3341    1.0124    2.7714 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1354    0.9181    0.5327 C   0  0  1  0  0  0  0  0  0  0  0  0
   -3.6074    2.3762    0.5900 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9489    2.6185    1.9247 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7790    0.6485   -0.8345 N   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6489    0.2235   -1.7061 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2486   -0.0448   -3.1076 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.9578    0.0190   -1.3268 O   0  0  0  0  0  0  0  0  0  0  0  0
    6.5868   -1.4977   -0.7074 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.7496    0.0096   -0.2913 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.8059   -0.5826   -2.0269 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.7095   -2.7126   -1.1126 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.2474   -1.7996    0.3351 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.6284   -1.2197   -2.6140 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.4452   -1.8302   -1.4316 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.0816    0.4983   -1.8913 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.7602    0.9649   -1.5508 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.3494    0.3925    0.9116 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.2044    1.5572    0.2264 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.4731   -0.0186   -0.1455 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4771   -1.4188    0.3146 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.5840    0.9300    2.0879 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7366   -0.4119    2.5765 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5876   -0.8603    3.2794 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0218   -2.0559    1.9999 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3007   -0.8959    0.2648 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3597   -1.3205    1.6043 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1688    1.4448    1.1836 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6077    0.1782    3.2475 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9847    0.2604    0.8087 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.4835    2.4893   -0.0782 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8111    3.0565    0.2839 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6680    2.0206    2.2297 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3955   -1.1221   -3.3754 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2032    0.2446   -3.2989 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9022    0.5257   -3.7931 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.2005   -0.9115   -0.9990 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  3  4  1  0
  4  5  1  0
  5  6  1  0
  6  7  1  0
  7  8  1  0
  8  9  1  0
  9 10  1  0
 10 11  1  0
 10 12  1  0
 12 13  1  0
 13 14  1  0
 12 15  1  0
 15 16  2  0
 16 17  1  0
 16 18  1  0
  1 19  1  0
  1 20  1  0
  1 21  1  0
  2 22  1  0
  2 23  1  0
  3 24  1  0
  3 25  1  0
  4 26  1  0
  4 27  1  0
  5 28  1  0
  5 29  1  0
  6 30  1  0
  6 31  1  0
  7 32  1  0
  7 33  1  0
  8 34  1  0
  8 35  1  0
  9 36  1  0
  9 37  1  0
 10 38  1  6
 11 39  1  0
 12 40  1  1
 13 41  1  0
 13 42  1  0
 14 43  1  0
 17 44  1  0
 17 45  1  0
 17 46  1  0
 18 47  1  0
M  END


  Mrv1652309092208442D          

 18 17  0  0  1  0            999 V2000
    0.6139    5.8901    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2375    6.4302    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0171    6.1602    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6407    6.7003    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4202    6.4302    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.0439    6.9703    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.8234    6.7003    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.4471    7.2404    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.2266    6.9703    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.8503    7.5104    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    6.6944    8.3206    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    7.6298    7.2404    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    7.7857    6.4302    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.1621    5.8901    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    8.2535    7.7805    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    9.0330    7.5104    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    9.6567    8.0505    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    9.1889    6.7003    0.0000 O   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  6  0  0  0
 10 12  1  0  0  0  0
 12 13  1  0  0  0  0
 13 14  1  0  0  0  0
 12 15  1  6  0  0  0
 15 16  2  0  0  0  0
 16 17  1  4  0  0  0
 16 18  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0280770

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CCCCCCCCC[C@H](O)[C@@H](CO)N=C(C)O

> <INCHI_IDENTIFIER>
InChI=1S/C14H29NO3/c1-3-4-5-6-7-8-9-10-14(18)13(11-16)15-12(2)17/h13-14,16,18H,3-11H2,1-2H3,(H,15,17)/t13-,14+/m1/s1

> <INCHI_KEY>
LSHNOWHTVSWJPP-KGLIPLIRSA-N

> <FORMULA>
C14H29NO3

> <MOLECULAR_WEIGHT>
259.39

> <EXACT_MASS>
259.214743798

> <JCHEM_ACCEPTOR_COUNT>
4

> <JCHEM_ATOM_COUNT>
47

> <JCHEM_AVERAGE_POLARIZABILITY>
31.78119953076316

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
N-[(2R,3S)-1,3-dihydroxydodecan-2-yl]ethanimidic acid

> <JCHEM_LOGP>
2.743632985333333

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
0

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
14.406748041558359

> <JCHEM_PKA_STRONGEST_ACIDIC>
6.276670525075841

> <JCHEM_PKA_STRONGEST_BASIC>
3.2111239441751116

> <JCHEM_POLAR_SURFACE_AREA>
73.05

> <JCHEM_REFRACTIVITY>
73.28890000000001

> <JCHEM_ROTATABLE_BOND_COUNT>
11

> <JCHEM_RULE_OF_FIVE>
1

> <JCHEM_TRADITIONAL_IUPAC>
N-[(2R,3S)-1,3-dihydroxydodecan-2-yl]ethanimidic acid

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 09-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   09-SEP-22         0                                  
HETATM    1  C   UNK     0       1.146  10.995   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       2.310  12.003   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       3.765  11.499   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       4.929  12.507   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       6.384  12.003   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       7.549  13.011   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       9.004  12.507   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0      10.168  13.515   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0      11.623  13.011   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0      12.787  14.019   0.000  0.00  0.00           C+0
HETATM   11  O   UNK     0      12.496  15.532   0.000  0.00  0.00           O+0
HETATM   12  C   UNK     0      14.242  13.515   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0      14.533  12.003   0.000  0.00  0.00           C+0
HETATM   14  O   UNK     0      13.369  10.995   0.000  0.00  0.00           O+0
HETATM   15  N   UNK     0      15.406  14.524   0.000  0.00  0.00           N+0
HETATM   16  C   UNK     0      16.862  14.019   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0      18.026  15.028   0.000  0.00  0.00           C+0
HETATM   18  O   UNK     0      17.153  12.507   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   12                                                  
CONECT   11   10                                                            
CONECT   12   10   13   15                                                  
CONECT   13   12   14                                                       
CONECT   14   13                                                            
CONECT   15   12   16                                                       
CONECT   16   15   17   18                                                  
CONECT   17   16                                                            
CONECT   18   16                                                            
MASTER        0    0    0    0    0    0    0    0   18    0   34    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₄H₂₉NO₃

Average Mass

259.3900 Da

Monoisotopic Mass

259.21474 Da

IUPAC Name

N-[(2R,3S)-1,3-dihydroxydodecan-2-yl]ethanimidic acid

Traditional Name

N-[(2R,3S)-1,3-dihydroxydodecan-2-yl]ethanimidic acid

CAS Registry Number

Not Available

SMILES

CCCCCCCCC[C@H](O)[C@@H](CO)N=C(C)O

InChI Identifier

InChI=1S/C14H29NO3/c1-3-4-5-6-7-8-9-10-14(18)13(11-16)15-12(2)17/h13-14,16,18H,3-11H2,1-2H3,(H,15,17)/t13-,14+/m1/s1

InChI Key

LSHNOWHTVSWJPP-KGLIPLIRSA-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
Clavelina oblonga	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as acetamides. These are organic compounds with the general formula RNHC(=O)CH3, where R= organyl group.

Kingdom

Organic compounds

Super Class

Organic acids and derivatives

Class

Carboxylic acids and derivatives

Sub Class

Carboxylic acid derivatives

Direct Parent

Acetamides

Alternative Parents

Substituents

Acetamide
Secondary carboxylic acid amide
Secondary alcohol
Organic nitrogen compound
Organic oxygen compound
Organic oxide
Hydrocarbon derivative
Primary alcohol
Organooxygen compound
Organonitrogen compound
Carbonyl group
Alcohol
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	2.74	ChemAxon
pKa (Strongest Acidic)	6.28	ChemAxon
pKa (Strongest Basic)	3.21	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	4	ChemAxon
Hydrogen Donor Count	3	ChemAxon
Polar Surface Area	73.05 Å²	ChemAxon
Rotatable Bond Count	11	ChemAxon
Refractivity	73.29 m³·mol⁻¹	ChemAxon
Polarizability	31.78 Å³	ChemAxon
Number of Rings	0	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	Yes	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

26233971

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

12618620

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for n-[(2r,3s)-1,3-dihydroxydodecan-2-yl]ethanimidic acid (NP0280770)

MOL for NP0280770 (n-[(2r,3s)-1,3-dihydroxydodecan-2-yl]ethanimidic acid)

3D MOL for NP0280770 (n-[(2r,3s)-1,3-dihydroxydodecan-2-yl]ethanimidic acid)

3D SDF for NP0280770 (n-[(2r,3s)-1,3-dihydroxydodecan-2-yl]ethanimidic acid)

3D-SDF for NP0280770 (n-[(2r,3s)-1,3-dihydroxydodecan-2-yl]ethanimidic acid)

PDB for NP0280770 (n-[(2r,3s)-1,3-dihydroxydodecan-2-yl]ethanimidic acid)

3D PDB for NP0280770 (n-[(2r,3s)-1,3-dihydroxydodecan-2-yl]ethanimidic acid)

SMILES for NP0280770 (n-[(2r,3s)-1,3-dihydroxydodecan-2-yl]ethanimidic acid)

INCHI for NP0280770 (n-[(2r,3s)-1,3-dihydroxydodecan-2-yl]ethanimidic acid)

Structure for NP0280770 (n-[(2r,3s)-1,3-dihydroxydodecan-2-yl]ethanimidic acid)

3D Structure for NP0280770 (n-[(2r,3s)-1,3-dihydroxydodecan-2-yl]ethanimidic acid)