NP-MRD: Showing NP-Card for 2-hydroxy-5-{[(2r,3r,4s,5r)-3,4,5-trihydroxyoxan-2-yl]oxy}benzoic acid (NP0255650)

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Record Information

Version

2.0

Created at

2022-09-07 20:12:52 UTC

Updated at

2022-09-07 20:12:52 UTC

NP-MRD ID

NP0255650

Secondary Accession Numbers

None

Natural Product Identification

Common Name

2-hydroxy-5-{[(2r,3r,4s,5r)-3,4,5-trihydroxyoxan-2-yl]oxy}benzoic acid

Description

2-Hydroxy-5-{[(2R,3R,4S,5R)-3,4,5-trihydroxyoxan-2-yl]oxy}benzoic acid belongs to the class of organic compounds known as phenolic glycosides. These are organic compounds containing a phenolic structure attached to a glycosyl moiety. Some examples of phenolic structures include lignans, and flavonoids. Among the sugar units found in natural glycosides are D-glucose, L-Fructose, and L rhamnose. 2-hydroxy-5-{[(2r,3r,4s,5r)-3,4,5-trihydroxyoxan-2-yl]oxy}benzoic acid is found in Medicago truncatula. Based on a literature review very few articles have been published on 2-hydroxy-5-{[(2R,3R,4S,5R)-3,4,5-trihydroxyoxan-2-yl]oxy}benzoic acid.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 34 35  0  0  0  0  0  0  0  0999 V2000
    3.8681   -1.4641    2.3638 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.3434   -0.9681    1.2806 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.7129   -0.9334    1.1654 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.4231   -0.4829    0.2620 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0394   -0.5786    0.5092 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0973   -0.1431   -0.4019 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2287   -0.2592   -0.1125 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3478    0.1017   -0.8575 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.1469   -0.9763   -1.2059 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8830   -1.4829   -0.1495 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.8857   -0.3928    0.2375 C   0  0  1  0  0  0  0  0  0  0  0  0
   -4.8797   -0.8750    1.0545 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0412    0.6763    0.9005 C   0  0  2  0  0  0  0  0  0  0  0  0
   -3.7881    1.7034    1.4158 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1192    1.2038   -0.1635 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.2219    2.1077    0.3799 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.5892    0.3891   -1.5635 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.9137    0.5046   -1.8513 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.8694    0.0550   -0.9106 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.1742    0.1956   -1.2521 O   0  0  0  0  0  0  0  0  0  0  0  0
    6.3039   -0.6748    1.9480 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7278   -1.0124    1.4533 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0238    0.5426   -1.8180 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2714   -1.6994    0.7469 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4336   -2.3573   -0.5021 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.2574    0.0223   -0.7152 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.1905   -0.2312    1.7243 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4177    0.2021    1.6989 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6612    1.7205    0.9074 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7421    1.7381   -0.9106 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6382    1.7248    1.0588 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.8662    0.7443   -2.3077 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.2595    0.9346   -2.7884 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.9899   -0.0351   -0.7788 H   0  0  0  0  0  0  0  0  0  0  0  0
 12 11  1  0
 11 10  1  0
 10  9  1  0
  9  8  1  0
  8  7  1  0
  7  6  1  0
  6 17  2  0
 17 18  1  0
 18 19  2  0
 19 20  1  0
 19  4  1  0
  4  5  2  0
  4  2  1  0
  2  3  1  0
  2  1  2  0
  8 15  1  0
 15 16  1  0
 15 13  1  0
 13 14  1  0
 13 11  1  0
  5  6  1  0
 12 27  1  0
 11 26  1  6
 10 24  1  0
 10 25  1  0
  8 23  1  6
 17 32  1  0
 18 33  1  0
 20 34  1  0
  5 22  1  0
  3 21  1  0
 15 30  1  6
 16 31  1  0
 13 28  1  1
 14 29  1  0
M  END


  Mrv1652309072222122D          

 20 21  0  0  1  0            999 V2000
    1.4289    0.0000    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.1434   -0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8579    0.0000    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.1434   -1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8579   -1.6500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8579   -2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5724   -2.8875    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.5724   -3.7125    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    4.2868   -4.1250    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.2868   -4.9500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5724   -5.3625    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    3.5724   -6.1875    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.8579   -4.9500    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.1434   -5.3625    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.8579   -4.1250    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.1434   -3.7125    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.1434   -2.8875    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289   -2.4750    0.0000 C   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
    0.7145   -1.2375    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0  0  0  0
  2  3  1  0  0  0  0
  2  4  1  0  0  0  0
  4  5  2  0  0  0  0
  5  6  1  0  0  0  0
  6  7  1  0  0  0  0
  8  7  1  1  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  1  0  0  0
 11 13  1  0  0  0  0
 13 14  1  6  0  0  0
 13 15  1  0  0  0  0
  8 15  1  0  0  0  0
 15 16  1  1  0  0  0
  6 17  2  0  0  0  0
 17 18  1  0  0  0  0
 18 19  2  0  0  0  0
  4 19  1  0  0  0  0
 19 20  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0255650

> <DATABASE_NAME>
NP-MRD

> <SMILES>
O[C@@H]1CO[C@H](OC2=CC=C(O)C(=C2)C(O)=O)[C@H](O)[C@H]1O

> <INCHI_IDENTIFIER>
InChI=1S/C12H14O8/c13-7-2-1-5(3-6(7)11(17)18)20-12-10(16)9(15)8(14)4-19-12/h1-3,8-10,12-16H,4H2,(H,17,18)/t8-,9+,10-,12-/m1/s1

> <INCHI_KEY>
OGFQCMFLQIYVSQ-DTHBNOIPSA-N

> <FORMULA>
C12H14O8

> <MOLECULAR_WEIGHT>
286.236

> <EXACT_MASS>
286.068867411

> <JCHEM_ACCEPTOR_COUNT>
8

> <JCHEM_ATOM_COUNT>
34

> <JCHEM_AVERAGE_POLARIZABILITY>
26.120618187547908

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
5

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
2-hydroxy-5-{[(2R,3R,4S,5R)-3,4,5-trihydroxyoxan-2-yl]oxy}benzoic acid

> <JCHEM_LOGP>
0.035964929333333666

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
2

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-1

> <JCHEM_PKA>
12.227885098780426

> <JCHEM_PKA_STRONGEST_ACIDIC>
2.512088592965047

> <JCHEM_PKA_STRONGEST_BASIC>
-3.526598503653047

> <JCHEM_POLAR_SURFACE_AREA>
136.68

> <JCHEM_REFRACTIVITY>
63.4579

> <JCHEM_ROTATABLE_BOND_COUNT>
3

> <JCHEM_RULE_OF_FIVE>
1

> <JCHEM_TRADITIONAL_IUPAC>
2-hydroxy-5-{[(2R,3R,4S,5R)-3,4,5-trihydroxyoxan-2-yl]oxy}benzoic acid

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 07-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   07-SEP-22         0                                  
HETATM    1  O   UNK     0       2.667   0.000   0.000  0.00  0.00           O+0
HETATM    2  C   UNK     0       4.001  -0.770   0.000  0.00  0.00           C+0
HETATM    3  O   UNK     0       5.335   0.000   0.000  0.00  0.00           O+0
HETATM    4  C   UNK     0       4.001  -2.310   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       5.335  -3.080   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       5.335  -4.620   0.000  0.00  0.00           C+0
HETATM    7  O   UNK     0       6.668  -5.390   0.000  0.00  0.00           O+0
HETATM    8  C   UNK     0       6.668  -6.930   0.000  0.00  0.00           C+0
HETATM    9  O   UNK     0       8.002  -7.700   0.000  0.00  0.00           O+0
HETATM   10  C   UNK     0       8.002  -9.240   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       6.668 -10.010   0.000  0.00  0.00           C+0
HETATM   12  O   UNK     0       6.668 -11.550   0.000  0.00  0.00           O+0
HETATM   13  C   UNK     0       5.335  -9.240   0.000  0.00  0.00           C+0
HETATM   14  O   UNK     0       4.001 -10.010   0.000  0.00  0.00           O+0
HETATM   15  C   UNK     0       5.335  -7.700   0.000  0.00  0.00           C+0
HETATM   16  O   UNK     0       4.001  -6.930   0.000  0.00  0.00           O+0
HETATM   17  C   UNK     0       4.001  -5.390   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       2.667  -4.620   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       2.667  -3.080   0.000  0.00  0.00           C+0
HETATM   20  O   UNK     0       1.334  -2.310   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3    4                                                  
CONECT    3    2                                                            
CONECT    4    2    5   19                                                  
CONECT    5    4    6                                                       
CONECT    6    5    7   17                                                  
CONECT    7    6    8                                                       
CONECT    8    7    9   15                                                  
CONECT    9    8   10                                                       
CONECT   10    9   11                                                       
CONECT   11   10   12   13                                                  
CONECT   12   11                                                            
CONECT   13   11   14   15                                                  
CONECT   14   13                                                            
CONECT   15   13    8   16                                                  
CONECT   16   15                                                            
CONECT   17    6   18                                                       
CONECT   18   17   19                                                       
CONECT   19   18    4   20                                                  
CONECT   20   19                                                            
MASTER        0    0    0    0    0    0    0    0   20    0   42    0
END

View in JSmol

Synonyms

Value	Source
2-Hydroxy-5-{[(2R,3R,4S,5R)-3,4,5-trihydroxyoxan-2-yl]oxy}benzoate	Generator

Chemical Formula

C₁₂H₁₄O₈

Average Mass

286.2360 Da

Monoisotopic Mass

286.06887 Da

IUPAC Name

2-hydroxy-5-{[(2R,3R,4S,5R)-3,4,5-trihydroxyoxan-2-yl]oxy}benzoic acid

Traditional Name

2-hydroxy-5-{[(2R,3R,4S,5R)-3,4,5-trihydroxyoxan-2-yl]oxy}benzoic acid

CAS Registry Number

Not Available

SMILES

O[C@@H]1CO[C@H](OC2=CC=C(O)C(=C2)C(O)=O)[C@H](O)[C@H]1O

InChI Identifier

InChI=1S/C12H14O8/c13-7-2-1-5(3-6(7)11(17)18)20-12-10(16)9(15)8(14)4-19-12/h1-3,8-10,12-16H,4H2,(H,17,18)/t8-,9+,10-,12-/m1/s1

InChI Key

OGFQCMFLQIYVSQ-DTHBNOIPSA-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
Medicago truncatula	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as phenolic glycosides. These are organic compounds containing a phenolic structure attached to a glycosyl moiety. Some examples of phenolic structures include lignans, and flavonoids. Among the sugar units found in natural glycosides are D-glucose, L-Fructose, and L rhamnose.

Kingdom

Organic compounds

Super Class

Organic oxygen compounds

Class

Organooxygen compounds

Sub Class

Carbohydrates and carbohydrate conjugates

Direct Parent

Phenolic glycosides

Alternative Parents

Substituents

Phenolic glycoside
O-glycosyl compound
Salicylic acid
Salicylic acid or derivatives
Hydroxybenzoic acid
4-alkoxyphenol
Benzoic acid
Benzoic acid or derivatives
Phenoxy compound
Phenol ether
Benzoyl
1-hydroxy-2-unsubstituted benzenoid
Sugar acid
Phenol
Benzenoid
Oxane
Monosaccharide
Monocyclic benzene moiety
Vinylogous acid
Secondary alcohol
Oxacycle
Organoheterocyclic compound
Polyol
Monocarboxylic acid or derivatives
Carboxylic acid
Carboxylic acid derivative
Acetal
Organic oxide
Hydrocarbon derivative
Alcohol
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	0.036	ChemAxon
pKa (Strongest Acidic)	2.51	ChemAxon
pKa (Strongest Basic)	-3.5	ChemAxon
Physiological Charge	-1	ChemAxon
Hydrogen Acceptor Count	8	ChemAxon
Hydrogen Donor Count	5	ChemAxon
Polar Surface Area	136.68 Å²	ChemAxon
Rotatable Bond Count	3	ChemAxon
Refractivity	63.46 m³·mol⁻¹	ChemAxon
Polarizability	26.12 Å³	ChemAxon
Number of Rings	2	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

122706487

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for 2-hydroxy-5-{[(2r,3r,4s,5r)-3,4,5-trihydroxyoxan-2-yl]oxy}benzoic acid (NP0255650)

MOL for NP0255650 (2-hydroxy-5-{[(2r,3r,4s,5r)-3,4,5-trihydroxyoxan-2-yl]oxy}benzoic acid)

3D MOL for NP0255650 (2-hydroxy-5-{[(2r,3r,4s,5r)-3,4,5-trihydroxyoxan-2-yl]oxy}benzoic acid)

3D SDF for NP0255650 (2-hydroxy-5-{[(2r,3r,4s,5r)-3,4,5-trihydroxyoxan-2-yl]oxy}benzoic acid)

3D-SDF for NP0255650 (2-hydroxy-5-{[(2r,3r,4s,5r)-3,4,5-trihydroxyoxan-2-yl]oxy}benzoic acid)

PDB for NP0255650 (2-hydroxy-5-{[(2r,3r,4s,5r)-3,4,5-trihydroxyoxan-2-yl]oxy}benzoic acid)

3D PDB for NP0255650 (2-hydroxy-5-{[(2r,3r,4s,5r)-3,4,5-trihydroxyoxan-2-yl]oxy}benzoic acid)

SMILES for NP0255650 (2-hydroxy-5-{[(2r,3r,4s,5r)-3,4,5-trihydroxyoxan-2-yl]oxy}benzoic acid)

INCHI for NP0255650 (2-hydroxy-5-{[(2r,3r,4s,5r)-3,4,5-trihydroxyoxan-2-yl]oxy}benzoic acid)

Structure for NP0255650 (2-hydroxy-5-{[(2r,3r,4s,5r)-3,4,5-trihydroxyoxan-2-yl]oxy}benzoic acid)

3D Structure for NP0255650 (2-hydroxy-5-{[(2r,3r,4s,5r)-3,4,5-trihydroxyoxan-2-yl]oxy}benzoic acid)