NP-MRD: Showing NP-Card for Riccionidin A (NP0051392)

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Record Information

Version

2.0

Created at

2022-04-27 22:46:38 UTC

Updated at

2022-04-27 22:46:39 UTC

NP-MRD ID

NP0051392

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Riccionidin A

Description

Riccionidin a belongs to the class of organic compounds known as 1-benzopyrans. These are organic aromatic compounds that 1-benzopyran, a bicyclic compound made up of a benzene ring fused to a pyran, so that the oxygen atom is at the 1-position. Thus, riccionidin a is considered to be a flavonoid lipid molecule. Riccionidin A is found in Brucea javanica, Marchantia polymorpha, Rhus javanica L. , Riccia duplex, Ricciocarpos natans and Scapania undulata. Riccionidin a is a very hydrophobic molecule, practically insoluble (in water), and relatively neutral.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 30 33  0  0  0  0  0  0  0  0999 V2000
   -6.1035    0.2367   -0.3719 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.7027    0.1427   -0.3576 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0545   -0.4025   -1.4680 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6797   -0.4838   -1.4295 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0357   -1.0242   -2.5297 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9592   -0.0468   -0.3417 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5775    0.4957    0.7673 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9584    0.5736    0.7203 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6587    0.8294    1.6567 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4583    0.5506    1.2275 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7710    0.7284    1.8194 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.8796    0.3199    1.0869 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1588    0.4574    1.5972 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.2331    0.0410    0.8417 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.5023    0.1869    1.3688 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.0727   -0.5110   -0.4128 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.1334   -0.9436   -1.2065 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.7782   -0.6280   -0.8797 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6609   -0.2248   -0.1605 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4463   -0.3724   -0.6827 O   0  0  0  0  0  3  0  0  0  0  0  0
   -0.6042   -0.0055   -0.0337 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.4968    1.1042   -0.7526 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6791   -0.7253   -2.2861 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4849   -1.3591   -3.3470 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.4836    0.9980    1.5812 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.9376    1.1545    2.7945 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.2792    0.8928    2.5855 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.3672   -0.0595    0.9584 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.0825   -0.8626   -0.8749 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.6341   -1.0628   -1.8706 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  8  2  0
  8  7  1  0
  7  6  2  0
  6 21  1  0
 21 10  2  0
 10  9  1  0
 10 11  1  0
 11 12  2  0
 12 13  1  0
 13 14  2  0
 14 15  1  0
 14 16  1  0
 16 17  1  0
 16 18  2  0
 18 19  1  0
 19 20  2  0
  6  4  1  0
  4  5  1  0
  4  3  2  0
  3  2  1  0
  9  7  1  0
 19 12  1  0
 20 21  1  0
  1 22  1  0
  8 25  1  0
 11 26  1  0
 13 27  1  0
 15 28  1  0
 17 29  1  0
 18 30  1  0
  5 24  1  0
  3 23  1  0
M  CHG  1  20   1
M  END


  Mrv0541 04121520482D          

 21 24  0  0  0  0            999 V2000
    1.5987   -2.3026    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.4200   -2.3798    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.7639   -3.1297    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5853   -3.2069    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9291   -3.9568    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.0628   -2.5342    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7190   -1.7842    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.3259   -1.2255    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.0449   -1.6301    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.8267   -1.3665    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.4458   -1.9117    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.2276   -1.6482    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.8467   -2.1934    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    8.6285   -1.9298    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    7.6841   -3.0022    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    8.3032   -3.5475    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    6.9023   -3.2658    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.2832   -2.7205    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.5014   -2.9841    0.0000 O   0  3  0  0  0  0  0  0  0  0  0  0
    4.8823   -2.4389    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8976   -1.7070    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
  3  4  2  0  0  0  0
  4  5  1  0  0  0  0
  4  6  1  0  0  0  0
  6  7  2  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  2  0  0  0  0
 11 12  1  0  0  0  0
 12 13  2  0  0  0  0
 13 14  1  0  0  0  0
 13 15  1  0  0  0  0
 15 16  1  0  0  0  0
 15 17  2  0  0  0  0
 17 18  1  0  0  0  0
 11 18  1  0  0  0  0
 18 19  2  0  0  0  0
 19 20  1  0  0  0  0
  6 20  1  0  0  0  0
  9 20  2  0  0  0  0
  7 21  1  0  0  0  0
  2 21  2  0  0  0  0
M  CHG  1  19   1
M  END
> <DATABASE_ID>
NP0051392

> <DATABASE_NAME>
NP-MRD

> <SMILES>
OC1=CC2=C(C3=C(O2)C=C2C=C(O)C(O)=CC2=[O+]3)C(O)=C1

> <INCHI_IDENTIFIER>
InChI=1S/C15H8O6/c16-7-3-10(19)14-12(4-7)20-13-2-6-1-8(17)9(18)5-11(6)21-15(13)14/h1-5H,(H3-,16,17,18,19)/p+1

> <INCHI_KEY>
MTJMCDKXNOATIZ-UHFFFAOYSA-O

> <FORMULA>
C15H9O6

> <MOLECULAR_WEIGHT>
285.23

> <EXACT_MASS>
285.03936443

> <JCHEM_ACCEPTOR_COUNT>
5

> <JCHEM_ATOM_COUNT>
30

> <JCHEM_AVERAGE_POLARIZABILITY>
27.964280473376768

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
4

> <JCHEM_FORMAL_CHARGE>
1

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
5,6,12,14-tetrahydroxy-9λ⁴,17-dioxatetracyclo[8.7.0.0³,⁸.0¹¹,¹⁶]heptadeca-1(10),2,4,6,8,11(16),12,14-octaen-9-ylium

> <ALOGPS_LOGP>
2.25

> <JCHEM_LOGP>
2.9895560366666665

> <ALOGPS_LOGS>
-3.10

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
4

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
7.535064480060701

> <JCHEM_PKA_STRONGEST_ACIDIC>
6.2311640144814255

> <JCHEM_PKA_STRONGEST_BASIC>
-3.364935939542612

> <JCHEM_POLAR_SURFACE_AREA>
107.2

> <JCHEM_REFRACTIVITY>
73.2562

> <JCHEM_ROTATABLE_BOND_COUNT>
0

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
2.57e-01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
riccionidin A

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 12-APR-15   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   12-APR-15         0                                  
HETATM    1  O   UNK     0       2.984  -4.298   0.000  0.00  0.00           O+0
HETATM    2  C   UNK     0       4.517  -4.442   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       5.159  -5.842   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       6.693  -5.986   0.000  0.00  0.00           C+0
HETATM    5  O   UNK     0       7.334  -7.386   0.000  0.00  0.00           O+0
HETATM    6  C   UNK     0       7.584  -4.730   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       6.942  -3.331   0.000  0.00  0.00           C+0
HETATM    8  O   UNK     0       8.075  -2.288   0.000  0.00  0.00           O+0
HETATM    9  C   UNK     0       9.417  -3.043   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0      10.876  -2.551   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0      12.032  -3.569   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0      13.491  -3.077   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0      14.647  -4.094   0.000  0.00  0.00           C+0
HETATM   14  O   UNK     0      16.107  -3.602   0.000  0.00  0.00           O+0
HETATM   15  C   UNK     0      14.344  -5.604   0.000  0.00  0.00           C+0
HETATM   16  O   UNK     0      15.499  -6.622   0.000  0.00  0.00           O+0
HETATM   17  C   UNK     0      12.884  -6.096   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0      11.729  -5.078   0.000  0.00  0.00           C+0
HETATM   19  O   UNK     0      10.269  -5.570   0.000  0.00  0.00           O+1
HETATM   20  C   UNK     0       9.114  -4.553   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0       5.409  -3.186   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3   21                                                  
CONECT    3    2    4                                                       
CONECT    4    3    5    6                                                  
CONECT    5    4                                                            
CONECT    6    4    7   20                                                  
CONECT    7    6    8   21                                                  
CONECT    8    7    9                                                       
CONECT    9    8   10   20                                                  
CONECT   10    9   11                                                       
CONECT   11   10   12   18                                                  
CONECT   12   11   13                                                       
CONECT   13   12   14   15                                                  
CONECT   14   13                                                            
CONECT   15   13   16   17                                                  
CONECT   16   15                                                            
CONECT   17   15   18                                                       
CONECT   18   17   11   19                                                  
CONECT   19   18   20                                                       
CONECT   20   19    6    9                                                  
CONECT   21    7    2                                                       
MASTER        0    0    0    0    0    0    0    0   21    0   48    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₅H₉O₆

Average Mass

285.2300 Da

Monoisotopic Mass

285.03936 Da

IUPAC Name

5,6,12,14-tetrahydroxy-9λ⁴,17-dioxatetracyclo[8.7.0.0³,⁸.0¹¹,¹⁶]heptadeca-1(10),2,4,6,8,11(16),12,14-octaen-9-ylium

Traditional Name

riccionidin A

CAS Registry Number

Not Available

SMILES

OC1=CC2=C(C3=C(O2)C=C2C=C(O)C(O)=CC2=[O+]3)C(O)=C1

InChI Identifier

InChI=1S/C15H8O6/c16-7-3-10(19)14-12(4-7)20-13-2-6-1-8(17)9(18)5-11(6)21-15(13)14/h1-5H,(H3-,16,17,18,19)/p+1

InChI Key

MTJMCDKXNOATIZ-UHFFFAOYSA-O

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, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 252 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 50 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 75 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 101 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 126 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 151 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 176 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 201 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 226 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, D₂O, 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
Brucea javanica	LOTUS Database	35616633
Marchantia polymorpha	Plant	KNApSAcK
Rhus javanica L.	Plant	KNApSAcK
Riccia duplex	Plant	KNApSAcK
Ricciocarpos natans	Plant	KNApSAcK
Scapania undulata	Plant	KNApSAcK

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as 1-benzopyrans. These are organic aromatic compounds that 1-benzopyran, a bicyclic compound made up of a benzene ring fused to a pyran, so that the oxygen atom is at the 1-position.

Kingdom

Organic compounds

Super Class

Organoheterocyclic compounds

Class

Benzopyrans

Sub Class

1-benzopyrans

Direct Parent

1-benzopyrans

Alternative Parents

Substituents

1-benzopyran
Benzofuran
1-hydroxy-4-unsubstituted benzenoid
1-hydroxy-2-unsubstituted benzenoid
Benzenoid
Heteroaromatic compound
Furan
Oxacycle
Polyol
Organic oxygen compound
Hydrocarbon derivative
Organooxygen compound
Organic cation
Aromatic heteropolycyclic compound

Molecular Framework

Aromatic heteropolycyclic compounds

External Descriptors

1-benzopyran (CHEBI:8851 )
Anthocyanidins (C08728 )
Anthocyanidins and anthocyanins (C08728 )
Anthocyanidins (LMPK12010445 )

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	2.25	ALOGPS
logP	2.99	ChemAxon
logS	-3.1	ALOGPS
pKa (Strongest Acidic)	6.23	ChemAxon
pKa (Strongest Basic)	-3.4	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	5	ChemAxon
Hydrogen Donor Count	4	ChemAxon
Polar Surface Area	107.2 Å²	ChemAxon
Rotatable Bond Count	0	ChemAxon
Refractivity	73.26 m³·mol⁻¹	ChemAxon
Polarizability	27.96 Å³	ChemAxon
Number of Rings	4	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

C00002388

Chemspider ID

Not Available

KEGG Compound ID

C08728

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

Not Available

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Not Available

Showing NP-Card for Riccionidin A (NP0051392)

MOL for NP0051392 (Riccionidin A)

3D MOL for NP0051392 (Riccionidin A)

3D SDF for NP0051392 (Riccionidin A)

3D-SDF for NP0051392 (Riccionidin A)

PDB for NP0051392 (Riccionidin A)

3D PDB for NP0051392 (Riccionidin A)

SMILES for NP0051392 (Riccionidin A)

INCHI for NP0051392 (Riccionidin A)

Structure for NP0051392 (Riccionidin A)

3D Structure for NP0051392 (Riccionidin A)