NP-MRD: Showing NP-Card for (2r,5s)-2,5-dihydroxycyclopentyl (2e)-3-(3,4-dihydroxyphenyl)prop-2-enoate (NP0321950)

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Record Information

Version

2.0

Created at

2022-09-12 00:26:11 UTC

Updated at

2022-09-12 00:26:11 UTC

NP-MRD ID

NP0321950

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(2r,5s)-2,5-dihydroxycyclopentyl (2e)-3-(3,4-dihydroxyphenyl)prop-2-enoate

Description

CHEMBL464608 belongs to the class of organic compounds known as coumaric acids and derivatives. These are aromatic compounds containing Aromatic compounds containing a cinnamic acid moiety (or a derivative thereof) hydroxylated at the C2 (ortho-), C3 (meta-), or C4 (para-) carbon atom of the benzene ring. (2r,5s)-2,5-dihydroxycyclopentyl (2e)-3-(3,4-dihydroxyphenyl)prop-2-enoate is found in Prunus cerasus. Based on a literature review very few articles have been published on CHEMBL464608.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 36 37  0  0  0  0  0  0  0  0999 V2000
    0.6705    0.9842   -1.2010 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.6145    0.2265   -0.2093 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7014   -0.2072    0.3005 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7993    0.2021   -0.2861 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1532   -0.1586    0.1260 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4209   -0.9780    1.1894 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.7287   -1.2775    1.5234 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.7634   -0.7560    0.7922 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.0778   -1.0563    1.1269 O   0  0  0  0  0  0  0  0  0  0  0  0
   -5.5085    0.0652   -0.2741 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.5800    0.5949   -1.0177 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.2140    0.3695   -0.6149 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.7921   -0.1743    0.3699 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.0233    0.2733   -0.1619 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.8855   -0.8569   -0.6514 C   0  0  1  0  0  0  0  0  0  0  0  0
    3.8581   -1.0064   -2.0264 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.2842   -0.3874   -0.2308 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.9588    0.1319    1.1755 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7975    1.0475    0.8497 C   0  0  1  0  0  0  0  0  0  0  0  0
    4.3200    2.2252    0.2926 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7673   -0.8541    1.1464 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6687    0.8627   -1.1472 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6112   -1.3809    1.7548 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.8973   -1.9242    2.3646 H   0  0  0  0  0  0  0  0  0  0  0  0
   -7.8475   -0.6792    0.5972 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.3748    1.2027   -1.8061 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0223    1.0221   -1.4628 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.8471    0.9436   -1.0495 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.6768   -1.8052   -0.1051 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.5952   -0.1353   -2.4241 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.0111   -1.1923   -0.2181 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.5338    0.4783   -0.8594 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.8197    0.6670    1.6070 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.6107   -0.7157    1.7802 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.2083    1.3198    1.7493 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.6290    2.9286    0.3671 H   0  0  0  0  0  0  0  0  0  0  0  0
 16 15  1  0
 15 17  1  0
 17 18  1  0
 18 19  1  0
 19 20  1  0
 19 14  1  0
 14 13  1  0
 13  2  1  0
  2  1  2  0
  2  3  1  0
  3  4  2  0
  4  5  1  0
  5  6  2  0
  6  7  1  0
  7  8  2  0
  8  9  1  0
  8 10  1  0
 10 11  1  0
 10 12  2  0
 14 15  1  0
 12  5  1  0
 16 30  1  0
 15 29  1  1
 17 31  1  0
 17 32  1  0
 18 33  1  0
 18 34  1  0
 19 35  1  1
 20 36  1  0
 14 28  1  6
  3 21  1  0
  4 22  1  0
  6 23  1  0
  7 24  1  0
  9 25  1  0
 11 26  1  0
 12 27  1  0
M  END


  Mrv1652309122202262D          

 20 21  0  0  1  0            999 V2000
    0.7145   -2.8875    0.0000 O   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 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145   -0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    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  0  0  0  0  0  0  0  0  0  0
    0.7145    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145    2.0625    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289    0.8250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1434    1.2375    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
    2.1434   -2.8875    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.1434   -3.7125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8109   -4.1974    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    3.5955   -3.9425    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.5559   -4.9820    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.7309   -4.9820    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4760   -4.1974    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.6914   -3.9425    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
  3  4  2  0  0  0  0
  4  5  1  0  0  0  0
  5  6  2  0  0  0  0
  6  7  1  0  0  0  0
  7  8  2  0  0  0  0
  8  9  1  0  0  0  0
  8 10  1  0  0  0  0
 10 11  1  0  0  0  0
 10 12  2  0  0  0  0
  5 12  1  0  0  0  0
  2 13  1  0  0  0  0
 13 14  1  0  0  0  0
 14 15  1  0  0  0  0
 15 16  1  1  0  0  0
 15 17  1  0  0  0  0
 17 18  1  0  0  0  0
 18 19  1  0  0  0  0
 14 19  1  0  0  0  0
 19 20  1  1  0  0  0
M  END
> <DATABASE_ID>
NP0321950

> <DATABASE_NAME>
NP-MRD

> <SMILES>
O[C@H]1CC[C@@H](O)C1OC(=O)\C=C\C1=CC=C(O)C(O)=C1

> <INCHI_IDENTIFIER>
InChI=1S/C14H16O6/c15-9-3-1-8(7-12(9)18)2-6-13(19)20-14-10(16)4-5-11(14)17/h1-3,6-7,10-11,14-18H,4-5H2/b6-2+/t10-,11+,14?

> <INCHI_KEY>
XYGMVEGBGQSULF-RQEVDEIRSA-N

> <FORMULA>
C14H16O6

> <MOLECULAR_WEIGHT>
280.276

> <EXACT_MASS>
280.094688235

> <JCHEM_ACCEPTOR_COUNT>
5

> <JCHEM_ATOM_COUNT>
36

> <JCHEM_AVERAGE_POLARIZABILITY>
27.798975488732253

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
4

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(2R,5S)-2,5-dihydroxycyclopentyl (2E)-3-(3,4-dihydroxyphenyl)prop-2-enoate

> <JCHEM_LOGP>
1.1130776586666666

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
2

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
12.584364613391504

> <JCHEM_PKA_STRONGEST_ACIDIC>
9.208593542169835

> <JCHEM_PKA_STRONGEST_BASIC>
-3.1974845908265586

> <JCHEM_POLAR_SURFACE_AREA>
107.22000000000001

> <JCHEM_REFRACTIVITY>
70.927

> <JCHEM_ROTATABLE_BOND_COUNT>
4

> <JCHEM_RULE_OF_FIVE>
1

> <JCHEM_TRADITIONAL_IUPAC>
(2R,5S)-2,5-dihydroxycyclopentyl (2E)-3-(3,4-dihydroxyphenyl)prop-2-enoate

> <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  O   UNK     0       1.334  -5.390   0.000  0.00  0.00           O+0
HETATM    2  C   UNK     0       2.667  -4.620   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       2.667  -3.080   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  C   UNK     0       1.334  -0.770   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       0.000   1.540   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       1.334   2.310   0.000  0.00  0.00           C+0
HETATM    9  O   UNK     0       1.334   3.850   0.000  0.00  0.00           O+0
HETATM   10  C   UNK     0       2.667   1.540   0.000  0.00  0.00           C+0
HETATM   11  O   UNK     0       4.001   2.310   0.000  0.00  0.00           O+0
HETATM   12  C   UNK     0       2.667   0.000   0.000  0.00  0.00           C+0
HETATM   13  O   UNK     0       4.001  -5.390   0.000  0.00  0.00           O+0
HETATM   14  C   UNK     0       4.001  -6.930   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       5.247  -7.835   0.000  0.00  0.00           C+0
HETATM   16  O   UNK     0       6.712  -7.359   0.000  0.00  0.00           O+0
HETATM   17  C   UNK     0       4.771  -9.300   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       3.231  -9.300   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       2.755  -7.835   0.000  0.00  0.00           C+0
HETATM   20  O   UNK     0       1.291  -7.359   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3   13                                                  
CONECT    3    2    4                                                       
CONECT    4    3    5                                                       
CONECT    5    4    6   12                                                  
CONECT    6    5    7                                                       
CONECT    7    6    8                                                       
CONECT    8    7    9   10                                                  
CONECT    9    8                                                            
CONECT   10    8   11   12                                                  
CONECT   11   10                                                            
CONECT   12   10    5                                                       
CONECT   13    2   14                                                       
CONECT   14   13   15   19                                                  
CONECT   15   14   16   17                                                  
CONECT   16   15                                                            
CONECT   17   15   18                                                       
CONECT   18   17   19                                                       
CONECT   19   18   14   20                                                  
CONECT   20   19                                                            
MASTER        0    0    0    0    0    0    0    0   20    0   42    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₄H₁₆O₆

Average Mass

280.2760 Da

Monoisotopic Mass

280.09469 Da

IUPAC Name

(2R,5S)-2,5-dihydroxycyclopentyl (2E)-3-(3,4-dihydroxyphenyl)prop-2-enoate

Traditional Name

(2R,5S)-2,5-dihydroxycyclopentyl (2E)-3-(3,4-dihydroxyphenyl)prop-2-enoate

CAS Registry Number

Not Available

SMILES

O[C@H]1CC[C@@H](O)C1OC(=O)\C=C\C1=CC=C(O)C(O)=C1

InChI Identifier

InChI=1S/C14H16O6/c15-9-3-1-8(7-12(9)18)2-6-13(19)20-14-10(16)4-5-11(14)17/h1-3,6-7,10-11,14-18H,4-5H2/b6-2+/t10-,11+,14?

InChI Key

XYGMVEGBGQSULF-RQEVDEIRSA-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
Prunus cerasus	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as coumaric acids and derivatives. These are aromatic compounds containing Aromatic compounds containing a cinnamic acid moiety (or a derivative thereof) hydroxylated at the C2 (ortho-), C3 (meta-), or C4 (para-) carbon atom of the benzene ring.

Kingdom

Organic compounds

Super Class

Phenylpropanoids and polyketides

Class

Cinnamic acids and derivatives

Sub Class

Hydroxycinnamic acids and derivatives

Direct Parent

Coumaric acids and derivatives

Alternative Parents

Substituents

Cinnamic acid ester
Coumaric acid or derivatives
Catechol
Styrene
1-hydroxy-4-unsubstituted benzenoid
1-hydroxy-2-unsubstituted benzenoid
Phenol
Fatty acid ester
Cyclitol or derivatives
Monocyclic benzene moiety
Fatty acyl
Benzenoid
Cyclopentanol
Alpha,beta-unsaturated carboxylic ester
Enoate ester
Cyclic alcohol
Carboxylic acid ester
Secondary alcohol
Carboxylic acid derivative
Monocarboxylic acid or derivatives
Organic oxygen compound
Hydrocarbon derivative
Alcohol
Carbonyl group
Organic oxide
Organooxygen compound
Aromatic homomonocyclic compound

Molecular Framework

Aromatic homomonocyclic 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	1.11	ChemAxon
pKa (Strongest Acidic)	9.21	ChemAxon
pKa (Strongest Basic)	-3.2	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	5	ChemAxon
Hydrogen Donor Count	4	ChemAxon
Polar Surface Area	107.22 Å²	ChemAxon
Rotatable Bond Count	4	ChemAxon
Refractivity	70.93 m³·mol⁻¹	ChemAxon
Polarizability	27.8 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

8079469

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

9903815

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for (2r,5s)-2,5-dihydroxycyclopentyl (2e)-3-(3,4-dihydroxyphenyl)prop-2-enoate (NP0321950)

MOL for NP0321950 ((2r,5s)-2,5-dihydroxycyclopentyl (2e)-3-(3,4-dihydroxyphenyl)prop-2-enoate)

3D MOL for NP0321950 ((2r,5s)-2,5-dihydroxycyclopentyl (2e)-3-(3,4-dihydroxyphenyl)prop-2-enoate)

3D SDF for NP0321950 ((2r,5s)-2,5-dihydroxycyclopentyl (2e)-3-(3,4-dihydroxyphenyl)prop-2-enoate)

3D-SDF for NP0321950 ((2r,5s)-2,5-dihydroxycyclopentyl (2e)-3-(3,4-dihydroxyphenyl)prop-2-enoate)

PDB for NP0321950 ((2r,5s)-2,5-dihydroxycyclopentyl (2e)-3-(3,4-dihydroxyphenyl)prop-2-enoate)

3D PDB for NP0321950 ((2r,5s)-2,5-dihydroxycyclopentyl (2e)-3-(3,4-dihydroxyphenyl)prop-2-enoate)

SMILES for NP0321950 ((2r,5s)-2,5-dihydroxycyclopentyl (2e)-3-(3,4-dihydroxyphenyl)prop-2-enoate)

INCHI for NP0321950 ((2r,5s)-2,5-dihydroxycyclopentyl (2e)-3-(3,4-dihydroxyphenyl)prop-2-enoate)

Structure for NP0321950 ((2r,5s)-2,5-dihydroxycyclopentyl (2e)-3-(3,4-dihydroxyphenyl)prop-2-enoate)

3D Structure for NP0321950 ((2r,5s)-2,5-dihydroxycyclopentyl (2e)-3-(3,4-dihydroxyphenyl)prop-2-enoate)