NP-MRD: Showing NP-Card for (2r,3r,4s,6r)-4-(dimethylamino)-6-methyloxane-2,3-diol (NP0296157)

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Record Information

Version

2.0

Created at

2022-09-10 05:34:26 UTC

Updated at

2022-09-10 05:34:27 UTC

NP-MRD ID

NP0296157

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(2r,3r,4s,6r)-4-(dimethylamino)-6-methyloxane-2,3-diol

Description

Beta-D-Desosamine, also known as β-D-desosamine, belongs to the class of organic compounds known as aminosaccharides. These are saccharides containing a sugar unit that bears an amino group. (2r,3r,4s,6r)-4-(dimethylamino)-6-methyloxane-2,3-diol is found in Streptomyces venezuelae. Based on a literature review very few articles have been published on beta-D-Desosamine.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 29 29  0  0  0  0  0  0  0  0999 V2000
    2.8735    1.0119    0.9428 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0131    0.2241   -0.0391 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.7110    0.9297   -0.1638 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4550    0.0597   -0.5221 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.7063    0.6662   -0.4208 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7411    0.2956   -1.2956 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9683    1.5835    0.6060 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3237   -1.2084    0.3145 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.4049   -2.0491    0.1958 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.9698   -1.8245   -0.2054 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.0727   -3.1671    0.0666 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.9724   -1.0671    0.4097 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.7822    1.4176    0.4750 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.3214    1.8871    1.3610 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.1720    0.3954    1.8174 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.5535    0.2365   -1.0075 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.8214    1.6830   -0.9853 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.4327    1.5359    0.7349 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2908   -0.2741   -1.5778 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5395   -0.2293   -0.7169 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1733    1.2001   -1.7581 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3438   -0.3753   -2.0733 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3874    2.5319    0.4822 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0397    1.8942    0.5425 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8245    1.1819    1.6375 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2050   -0.8467    1.3671 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3965   -2.6485    0.9950 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.0849   -1.6282   -1.3015 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.0193   -3.4162    0.1192 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  8  1  0
  8  9  1  0
  8 10  1  0
 10 11  1  0
 10 12  1  0
  4  5  1  0
  5  6  1  0
  5  7  1  0
 12  2  1  0
  1 13  1  0
  1 14  1  0
  1 15  1  0
  2 16  1  6
  3 17  1  0
  3 18  1  0
  4 19  1  6
  8 26  1  1
  9 27  1  0
 10 28  1  6
 11 29  1  0
  6 20  1  0
  6 21  1  0
  6 22  1  0
  7 23  1  0
  7 24  1  0
  7 25  1  0
M  END

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       1.334   3.850   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       1.334   2.310   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       2.667   1.540   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       2.667  -0.000   0.000  0.00  0.00           C+0
HETATM    5  N   UNK     0       4.001  -0.770   0.000  0.00  0.00           N+0
HETATM    6  C   UNK     0       5.335  -0.000   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       4.001  -2.310   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       1.334  -0.770   0.000  0.00  0.00           C+0
HETATM    9  O   UNK     0       1.334  -2.310   0.000  0.00  0.00           O+0
HETATM   10  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   11  O   UNK     0      -1.334  -0.770   0.000  0.00  0.00           O+0
HETATM   12  O   UNK     0       0.000   1.540   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3   12                                                  
CONECT    3    2    4                                                       
CONECT    4    3    5    8                                                  
CONECT    5    4    6    7                                                  
CONECT    6    5                                                            
CONECT    7    5                                                            
CONECT    8    4    9   10                                                  
CONECT    9    8                                                            
CONECT   10    8   11   12                                                  
CONECT   11   10                                                            
CONECT   12   10    2                                                       
MASTER        0    0    0    0    0    0    0    0   12    0   24    0
END

View in JSmol

Synonyms

Value	Source
b-D-Desosamine	Generator
Β-D-desosamine	Generator

Chemical Formula

C₈H₁₇NO₃

Average Mass

175.2280 Da

Monoisotopic Mass

175.12084 Da

IUPAC Name

(2R,3R,4S,6R)-4-(dimethylamino)-6-methyloxane-2,3-diol

Traditional Name

(2R,3R,4S,6R)-4-(dimethylamino)-6-methyloxane-2,3-diol

CAS Registry Number

Not Available

SMILES

C[C@@H]1C[C@@H]([C@@H](O)[C@H](O)O1)N(C)C

InChI Identifier

InChI=1S/C8H17NO3/c1-5-4-6(9(2)3)7(10)8(11)12-5/h5-8,10-11H,4H2,1-3H3/t5-,6+,7-,8-/m1/s1

InChI Key

ZOYWWAGVGBSJDL-ULAWRXDQSA-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
Streptomyces venezuelae	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as aminosaccharides. These are saccharides containing a sugar unit that bears an amino group.

Kingdom

Organic compounds

Super Class

Organic oxygen compounds

Class

Organooxygen compounds

Sub Class

Carbohydrates and carbohydrate conjugates

Direct Parent

Aminosaccharides

Alternative Parents

Substituents

Amino saccharide
Oxane
1,2-aminoalcohol
Hemiacetal
Secondary alcohol
Tertiary amine
Tertiary aliphatic amine
Organoheterocyclic compound
Oxacycle
Amine
Organic nitrogen compound
Organonitrogen compound
Alcohol
Organopnictogen compound
Hydrocarbon derivative
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	-0.49	ChemAxon
pKa (Strongest Acidic)	11.38	ChemAxon
pKa (Strongest Basic)	8.78	ChemAxon
Physiological Charge	1	ChemAxon
Hydrogen Acceptor Count	4	ChemAxon
Hydrogen Donor Count	2	ChemAxon
Polar Surface Area	52.93 Å²	ChemAxon
Rotatable Bond Count	1	ChemAxon
Refractivity	45.01 m³·mol⁻¹	ChemAxon
Polarizability	19.02 Å³	ChemAxon
Number of Rings	1	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	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

8165324

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

9989742

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,4s,6r)-4-(dimethylamino)-6-methyloxane-2,3-diol (NP0296157)

MOL for NP0296157 ((2r,3r,4s,6r)-4-(dimethylamino)-6-methyloxane-2,3-diol)

3D MOL for NP0296157 ((2r,3r,4s,6r)-4-(dimethylamino)-6-methyloxane-2,3-diol)

3D SDF for NP0296157 ((2r,3r,4s,6r)-4-(dimethylamino)-6-methyloxane-2,3-diol)

3D-SDF for NP0296157 ((2r,3r,4s,6r)-4-(dimethylamino)-6-methyloxane-2,3-diol)

PDB for NP0296157 ((2r,3r,4s,6r)-4-(dimethylamino)-6-methyloxane-2,3-diol)

3D PDB for NP0296157 ((2r,3r,4s,6r)-4-(dimethylamino)-6-methyloxane-2,3-diol)

SMILES for NP0296157 ((2r,3r,4s,6r)-4-(dimethylamino)-6-methyloxane-2,3-diol)

INCHI for NP0296157 ((2r,3r,4s,6r)-4-(dimethylamino)-6-methyloxane-2,3-diol)

Structure for NP0296157 ((2r,3r,4s,6r)-4-(dimethylamino)-6-methyloxane-2,3-diol)

3D Structure for NP0296157 ((2r,3r,4s,6r)-4-(dimethylamino)-6-methyloxane-2,3-diol)