NP-MRD: Showing NP-Card for (2r,3r,4s,5s,6r)-3,4,5-trimethoxy-6-(methoxymethyl)oxan-2-ol (NP0195698)

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Record Information

Version

2.0

Created at

2022-09-04 13:36:42 UTC

Updated at

2022-09-04 13:36:43 UTC

NP-MRD ID

NP0195698

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(2r,3r,4s,5s,6r)-3,4,5-trimethoxy-6-(methoxymethyl)oxan-2-ol

Description

(2R,3R,4S,5S,6R)-3,4,5-trimethoxy-6-(methoxymethyl)oxan-2-ol belongs to the class of organic compounds known as hexoses. These are monosaccharides in which the sugar unit is a is a six-carbon containing moeity. (2r,3r,4s,5s,6r)-3,4,5-trimethoxy-6-(methoxymethyl)oxan-2-ol is found in Strychnos nux-vomica. Based on a literature review very few articles have been published on (2R,3R,4S,5S,6R)-3,4,5-trimethoxy-6-(methoxymethyl)oxan-2-ol.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 36 36  0  0  0  0  0  0  0  0999 V2000
   -3.7511    0.3968    0.5739 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3027    0.4078   -0.7336 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5085   -0.6520   -1.0773 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2845   -0.6982   -0.2382 C   0  0  1  0  0  0  0  0  0  0  0  0
   -0.4632   -1.7919   -0.6168 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.5065   -1.9813    0.3959 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.1396   -3.1892    0.2282 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.4553   -0.8102    0.2966 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.6095   -0.9588    0.9991 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.7588   -0.9527    0.2158 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.6642    0.4308    0.6583 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.4607    1.5647    0.7176 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.3732    2.0808    2.0059 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4245    0.5392   -0.3898 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.1273    0.4719   -1.6868 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2500    1.6028   -2.4073 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3394   -0.5393    0.7544 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9441    0.5502    1.3041 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.4454    1.2851    0.6984 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0368   -1.6235   -0.9627 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2131   -0.5327   -2.1439 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5448   -0.7944    0.8446 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0764   -1.9619    1.3510 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.3391   -3.3754   -0.7080 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7204   -0.7147   -0.7888 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.7633   -1.7696   -0.5339 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.8458   -0.0057   -0.3174 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.6595   -1.0969    0.8471 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1666    0.2226    1.6324 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7285    1.3277    2.7445 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.9915    3.0051    2.0986 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.3204    2.3222    2.2903 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0088    1.4716   -0.2923 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1312    2.5050   -1.8782 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1772    1.5604   -3.4102 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3454    1.7038   -2.4715 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
  6  8  1  0
  8  9  1  0
  9 10  1  0
  8 11  1  0
 11 12  1  0
 12 13  1  0
 11 14  1  0
 14 15  1  0
 15 16  1  0
 14  4  1  0
  1 17  1  0
  1 18  1  0
  1 19  1  0
  3 20  1  0
  3 21  1  0
  4 22  1  1
  6 23  1  1
  7 24  1  0
  8 25  1  6
 10 26  1  0
 10 27  1  0
 10 28  1  0
 11 29  1  1
 13 30  1  0
 13 31  1  0
 13 32  1  0
 14 33  1  6
 16 34  1  0
 16 35  1  0
 16 36  1  0
M  END


  Mrv1652309042215362D          

 16 16  0  0  1  0            999 V2000
    0.0000    3.3000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    2.4750    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145    2.0625    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145    1.2375    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.4289    0.8250    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289   -0.0000    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.1434   -0.4125    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145   -0.4125    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.7145   -1.2375    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289   -1.6500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    0.0000    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   -0.7145   -0.4125    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4289    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    0.8250    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   -0.7145    1.2375    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7145    2.0625    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
  4  3  1  1  0  0  0
  4  5  1  0  0  0  0
  5  6  1  0  0  0  0
  6  7  1  1  0  0  0
  6  8  1  0  0  0  0
  8  9  1  6  0  0  0
  9 10  1  0  0  0  0
  8 11  1  0  0  0  0
 11 12  1  1  0  0  0
 12 13  1  0  0  0  0
 11 14  1  0  0  0  0
  4 14  1  0  0  0  0
 14 15  1  1  0  0  0
 15 16  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0195698

> <DATABASE_NAME>
NP-MRD

> <SMILES>
COC[C@H]1O[C@@H](O)[C@H](OC)[C@@H](OC)[C@H]1OC

> <INCHI_IDENTIFIER>
InChI=1S/C10H20O6/c1-12-5-6-7(13-2)8(14-3)9(15-4)10(11)16-6/h6-11H,5H2,1-4H3/t6-,7+,8+,9-,10-/m1/s1

> <INCHI_KEY>
AQWPITGEZPPXTJ-SOYHJAILSA-N

> <FORMULA>
C10H20O6

> <MOLECULAR_WEIGHT>
236.264

> <EXACT_MASS>
236.125988364

> <JCHEM_ACCEPTOR_COUNT>
6

> <JCHEM_ATOM_COUNT>
36

> <JCHEM_AVERAGE_POLARIZABILITY>
24.592132540413246

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(2R,3R,4S,5S,6R)-3,4,5-trimethoxy-6-(methoxymethyl)oxan-2-ol

> <JCHEM_LOGP>
-0.36003320333333394

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
1

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA_STRONGEST_ACIDIC>
11.344604465723808

> <JCHEM_PKA_STRONGEST_BASIC>
-3.493367080685531

> <JCHEM_POLAR_SURFACE_AREA>
66.38000000000001

> <JCHEM_REFRACTIVITY>
54.928200000000004

> <JCHEM_ROTATABLE_BOND_COUNT>
5

> <JCHEM_RULE_OF_FIVE>
1

> <JCHEM_TRADITIONAL_IUPAC>
(2R,3R,4S,5S,6R)-3,4,5-trimethoxy-6-(methoxymethyl)oxan-2-ol

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 04-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   04-SEP-22         0                                  
HETATM    1  C   UNK     0       0.000   6.160   0.000  0.00  0.00           C+0
HETATM    2  O   UNK     0       0.000   4.620   0.000  0.00  0.00           O+0
HETATM    3  C   UNK     0       1.334   3.850   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       1.334   2.310   0.000  0.00  0.00           C+0
HETATM    5  O   UNK     0       2.667   1.540   0.000  0.00  0.00           O+0
HETATM    6  C   UNK     0       2.667  -0.000   0.000  0.00  0.00           C+0
HETATM    7  O   UNK     0       4.001  -0.770   0.000  0.00  0.00           O+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       2.667  -3.080   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   12  O   UNK     0      -1.334  -0.770   0.000  0.00  0.00           O+0
HETATM   13  C   UNK     0      -2.667   0.000   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       0.000   1.540   0.000  0.00  0.00           C+0
HETATM   15  O   UNK     0      -1.334   2.310   0.000  0.00  0.00           O+0
HETATM   16  C   UNK     0      -1.334   3.850   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3                                                       
CONECT    3    2    4                                                       
CONECT    4    3    5   14                                                  
CONECT    5    4    6                                                       
CONECT    6    5    7    8                                                  
CONECT    7    6                                                            
CONECT    8    6    9   11                                                  
CONECT    9    8   10                                                       
CONECT   10    9                                                            
CONECT   11    8   12   14                                                  
CONECT   12   11   13                                                       
CONECT   13   12                                                            
CONECT   14   11    4   15                                                  
CONECT   15   14   16                                                       
CONECT   16   15                                                            
MASTER        0    0    0    0    0    0    0    0   16    0   32    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₀H₂₀O₆

Average Mass

236.2640 Da

Monoisotopic Mass

236.12599 Da

IUPAC Name

(2R,3R,4S,5S,6R)-3,4,5-trimethoxy-6-(methoxymethyl)oxan-2-ol

Traditional Name

(2R,3R,4S,5S,6R)-3,4,5-trimethoxy-6-(methoxymethyl)oxan-2-ol

CAS Registry Number

Not Available

SMILES

COC[C@H]1O[C@@H](O)[C@H](OC)[C@@H](OC)[C@H]1OC

InChI Identifier

InChI=1S/C10H20O6/c1-12-5-6-7(13-2)8(14-3)9(15-4)10(11)16-6/h6-11H,5H2,1-4H3/t6-,7+,8+,9-,10-/m1/s1

InChI Key

AQWPITGEZPPXTJ-SOYHJAILSA-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
Strychnos nux-vomica	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as hexoses. These are monosaccharides in which the sugar unit is a is a six-carbon containing moeity.

Kingdom

Organic compounds

Super Class

Organic oxygen compounds

Class

Organooxygen compounds

Sub Class

Carbohydrates and carbohydrate conjugates

Direct Parent

Hexoses

Alternative Parents

Substituents

Hexose monosaccharide
Oxane
Hemiacetal
Oxacycle
Organoheterocyclic compound
Ether
Dialkyl ether
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	-0.36	ChemAxon
pKa (Strongest Acidic)	11.34	ChemAxon
pKa (Strongest Basic)	-3.5	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	6	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	66.38 Å²	ChemAxon
Rotatable Bond Count	5	ChemAxon
Refractivity	54.93 m³·mol⁻¹	ChemAxon
Polarizability	24.59 Å³	ChemAxon
Number of Rings	1	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

Not Available

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

12903170

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,5s,6r)-3,4,5-trimethoxy-6-(methoxymethyl)oxan-2-ol (NP0195698)

MOL for NP0195698 ((2r,3r,4s,5s,6r)-3,4,5-trimethoxy-6-(methoxymethyl)oxan-2-ol)

3D MOL for NP0195698 ((2r,3r,4s,5s,6r)-3,4,5-trimethoxy-6-(methoxymethyl)oxan-2-ol)

3D SDF for NP0195698 ((2r,3r,4s,5s,6r)-3,4,5-trimethoxy-6-(methoxymethyl)oxan-2-ol)

3D-SDF for NP0195698 ((2r,3r,4s,5s,6r)-3,4,5-trimethoxy-6-(methoxymethyl)oxan-2-ol)

PDB for NP0195698 ((2r,3r,4s,5s,6r)-3,4,5-trimethoxy-6-(methoxymethyl)oxan-2-ol)

3D PDB for NP0195698 ((2r,3r,4s,5s,6r)-3,4,5-trimethoxy-6-(methoxymethyl)oxan-2-ol)

SMILES for NP0195698 ((2r,3r,4s,5s,6r)-3,4,5-trimethoxy-6-(methoxymethyl)oxan-2-ol)

INCHI for NP0195698 ((2r,3r,4s,5s,6r)-3,4,5-trimethoxy-6-(methoxymethyl)oxan-2-ol)

Structure for NP0195698 ((2r,3r,4s,5s,6r)-3,4,5-trimethoxy-6-(methoxymethyl)oxan-2-ol)

3D Structure for NP0195698 ((2r,3r,4s,5s,6r)-3,4,5-trimethoxy-6-(methoxymethyl)oxan-2-ol)