NP-MRD: Showing NP-Card for {6,8-dihydroxy-1-oxo-2h,3h-cyclopenta[b]chromen-3a-yl}acetic acid (NP0214812)

Jump To Section:

Identification Spectra BioTaxonomy ChemoTaxonomy Physical properties Links References XML

Record Information

Version

1.0

Created at

2022-09-05 14:13:20 UTC

Updated at

2022-09-05 14:13:21 UTC

NP-MRD ID

NP0214812

Secondary Accession Numbers

None

Natural Product Identification

Common Name

{6,8-dihydroxy-1-oxo-2h,3h-cyclopenta[b]chromen-3a-yl}acetic acid

Description

2-{6,8-Dihydroxy-1-oxo-1H,2H,3H,3aH-cyclopenta[b]chromen-3a-yl}acetic acid 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. {6,8-dihydroxy-1-oxo-2h,3h-cyclopenta[b]chromen-3a-yl}acetic acid is found in Tapeinidium pinnatum. 2-{6,8-Dihydroxy-1-oxo-1H,2H,3H,3aH-cyclopenta[b]chromen-3a-yl}acetic acid is an extremely weak basic (essentially neutral) compound (based on its pKa).

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 32 34  0  0  0  0  0  0  0  0999 V2000
    2.5301    2.4325   -0.3514 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.9107    1.2802   -0.6111 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.2408    0.8525   -0.4957 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.9346    0.2767   -1.0702 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0561   -0.1388    0.1508 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.9818   -0.7179    1.2007 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.5037   -2.0182    0.5451 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4537   -2.3245   -0.4589 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4890   -3.2555   -1.2764 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.3500   -1.3574   -0.3460 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9382   -1.3693   -0.5005 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7917   -0.2352   -0.1911 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1507   -0.2484   -0.3853 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7601   -1.3674   -0.8835 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.8928    0.9034   -0.0637 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2795    2.0310    0.4379 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0568    3.1472    0.7412 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9173    2.0342    0.6290 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1791    0.9023    0.3144 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1920    0.8486    0.4878 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.8874    1.3195    0.1380 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.3820   -0.6063   -1.5280 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.2304    0.7190   -1.7926 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4979   -0.9071    2.1583 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.8627   -0.0476    1.2745 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.4974   -1.8821    0.1182 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.4475   -2.8379    1.3132 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3559   -2.3105   -0.8897 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2718   -2.1942   -1.1229 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.9642    0.8960   -0.2155 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.4558    3.2629    1.6537 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4339    2.9123    1.0197 H   0  0  0  0  0  0  0  0  0  0  0  0
  3  2  1  0
  2  1  2  0
  2  4  1  0
  5  4  1  6
  5  6  1  0
  6  7  1  0
  7  8  1  0
  8  9  2  0
  8 10  1  0
 10 11  2  0
 11 12  1  0
 12 13  2  0
 13 14  1  0
 13 15  1  0
 15 16  2  0
 16 17  1  0
 16 18  1  0
 18 19  2  0
 19 20  1  0
 10  5  1  0
 19 12  1  0
 20  5  1  0
  3 21  1  0
  4 22  1  0
  4 23  1  0
  6 24  1  0
  6 25  1  0
  7 26  1  0
  7 27  1  0
 11 28  1  0
 14 29  1  0
 15 30  1  0
 17 31  1  0
 18 32  1  0
M  END


  Mrv1533004201502452D          

 20 22  0  0  0  0            999 V2000
    3.7840    2.8015    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.6978    1.9810    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.3652    1.4961    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.9441    1.6455    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8579    0.8250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.6425    1.0799    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.1274    0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.6425   -0.2549    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.8974   -1.0396    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.8579    0.0000    0.0000 C   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
    1.4289   -0.0000    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
    0.7145   -1.2375    0.0000 O   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 O   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
    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  2  1  0  0  0  0
  2  3  2  0  0  0  0
  2  4  1  0  0  0  0
  4  5  1  0  0  0  0
  5  6  1  0  0  0  0
  6  7  1  0  0  0  0
  7  8  1  0  0  0  0
  8  9  2  0  0  0  0
  8 10  1  0  0  0  0
  5 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  2  0  0  0  0
 16 17  1  0  0  0  0
 16 18  1  0  0  0  0
 18 19  2  0  0  0  0
 12 19  1  0  0  0  0
 19 20  1  0  0  0  0
  5 20  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0214812

> <DATABASE_NAME>
NP-MRD

> <SMILES>
OC(=O)CC12CCC(=O)C1=CC1=C(O)C=C(O)C=C1O2

> <INCHI_IDENTIFIER>
InChI=1S/C14H12O6/c15-7-3-11(17)8-5-9-10(16)1-2-14(9,6-13(18)19)20-12(8)4-7/h3-5,15,17H,1-2,6H2,(H,18,19)

> <INCHI_KEY>
HSDRVWVQKLFYDT-UHFFFAOYSA-N

> <FORMULA>
C14H12O6

> <MOLECULAR_WEIGHT>
276.244

> <EXACT_MASS>
276.063388106

> <JCHEM_ACCEPTOR_COUNT>
6

> <JCHEM_ATOM_COUNT>
32

> <JCHEM_AVERAGE_POLARIZABILITY>
25.876003382435986

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
2-{6,8-dihydroxy-1-oxo-1H,2H,3H,3aH-cyclopenta[b]chromen-3a-yl}acetic acid

> <ALOGPS_LOGP>
1.68

> <JCHEM_LOGP>
1.259801067333333

> <ALOGPS_LOGS>
-2.53

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-1

> <JCHEM_PKA>
8.68789029396909

> <JCHEM_PKA_STRONGEST_ACIDIC>
3.5208378913214466

> <JCHEM_PKA_STRONGEST_BASIC>
-4.930357838996222

> <JCHEM_POLAR_SURFACE_AREA>
104.06

> <JCHEM_REFRACTIVITY>
68.1456

> <JCHEM_ROTATABLE_BOND_COUNT>
2

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
8.23e-01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
{6,8-dihydroxy-1-oxo-2H,3H-cyclopenta[b]chromen-3a-yl}acetic acid

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 20-APR-15   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   20-APR-15         0                                  
HETATM    1  O   UNK     0       7.064   5.230   0.000  0.00  0.00           O+0
HETATM    2  C   UNK     0       6.903   3.698   0.000  0.00  0.00           C+0
HETATM    3  O   UNK     0       8.148   2.793   0.000  0.00  0.00           O+0
HETATM    4  C   UNK     0       5.496   3.072   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       5.335   1.540   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       6.799   2.016   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       7.705   0.770   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       6.799  -0.476   0.000  0.00  0.00           C+0
HETATM    9  O   UNK     0       7.275  -1.941   0.000  0.00  0.00           O+0
HETATM   10  C   UNK     0       5.335   0.000   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       4.001  -0.770   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       2.667  -0.000   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       1.334  -0.770   0.000  0.00  0.00           C+0
HETATM   14  O   UNK     0       1.334  -2.310   0.000  0.00  0.00           O+0
HETATM   15  C   UNK     0      -0.000   0.000   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       0.000   1.540   0.000  0.00  0.00           C+0
HETATM   17  O   UNK     0      -1.334   2.310   0.000  0.00  0.00           O+0
HETATM   18  C   UNK     0       1.334   2.310   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       2.667   1.540   0.000  0.00  0.00           C+0
HETATM   20  O   UNK     0       4.001   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                                                       
CONECT    5    4    6   10   20                                             
CONECT    6    5    7                                                       
CONECT    7    6    8                                                       
CONECT    8    7    9   10                                                  
CONECT    9    8                                                            
CONECT   10    8    5   11                                                  
CONECT   11   10   12                                                       
CONECT   12   11   13   19                                                  
CONECT   13   12   14   15                                                  
CONECT   14   13                                                            
CONECT   15   13   16                                                       
CONECT   16   15   17   18                                                  
CONECT   17   16                                                            
CONECT   18   16   19                                                       
CONECT   19   18   12   20                                                  
CONECT   20   19    5                                                       
MASTER        0    0    0    0    0    0    0    0   20    0   44    0
END

View in JSmol

Synonyms

Value	Source
2-{6,8-dihydroxy-1-oxo-1H,2H,3H,3ah-cyclopenta[b]chromen-3a-yl}acetate	Generator
Lindseate	Generator

Chemical Formula

C₁₄H₁₂O₆

Average Mass

276.2440 Da

Monoisotopic Mass

276.06339 Da

IUPAC Name

2-{6,8-dihydroxy-1-oxo-1H,2H,3H,3aH-cyclopenta[b]chromen-3a-yl}acetic acid

Traditional Name

{6,8-dihydroxy-1-oxo-2H,3H-cyclopenta[b]chromen-3a-yl}acetic acid

CAS Registry Number

Not Available

SMILES

OC(=O)CC12CCC(=O)C1=CC1=C(O)C=C(O)C=C1O2

InChI Identifier

InChI=1S/C14H12O6/c15-7-3-11(17)8-5-9-10(16)1-2-14(9,6-13(18)19)20-12(8)4-7/h3-5,15,17H,1-2,6H2,(H,18,19)

InChI Key

HSDRVWVQKLFYDT-UHFFFAOYSA-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
Tapeinidium pinnatum	LOTUS Database	35616633

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
1-hydroxy-4-unsubstituted benzenoid
1-hydroxy-2-unsubstituted benzenoid
Alkyl aryl ether
Phenol
Benzenoid
Ketone
Carboxylic acid derivative
Carboxylic acid
Ether
Monocarboxylic acid or derivatives
Oxacycle
Carbonyl group
Organic oxide
Organic oxygen compound
Organooxygen compound
Hydrocarbon derivative
Aromatic heteropolycyclic compound

Molecular Framework

Aromatic heteropolycyclic 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	1.68	ALOGPS
logP	1.26	ChemAxon
logS	-2.5	ALOGPS
pKa (Strongest Acidic)	3.52	ChemAxon
pKa (Strongest Basic)	-4.9	ChemAxon
Physiological Charge	-1	ChemAxon
Hydrogen Acceptor Count	6	ChemAxon
Hydrogen Donor Count	3	ChemAxon
Polar Surface Area	104.06 Å²	ChemAxon
Rotatable Bond Count	2	ChemAxon
Refractivity	68.15 m³·mol⁻¹	ChemAxon
Polarizability	25.88 Å³	ChemAxon
Number of Rings	3	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

71439803

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for {6,8-dihydroxy-1-oxo-2h,3h-cyclopenta[b]chromen-3a-yl}acetic acid (NP0214812)

MOL for NP0214812 ({6,8-dihydroxy-1-oxo-2h,3h-cyclopenta[b]chromen-3a-yl}acetic acid)

3D MOL for NP0214812 ({6,8-dihydroxy-1-oxo-2h,3h-cyclopenta[b]chromen-3a-yl}acetic acid)

3D SDF for NP0214812 ({6,8-dihydroxy-1-oxo-2h,3h-cyclopenta[b]chromen-3a-yl}acetic acid)

3D-SDF for NP0214812 ({6,8-dihydroxy-1-oxo-2h,3h-cyclopenta[b]chromen-3a-yl}acetic acid)

PDB for NP0214812 ({6,8-dihydroxy-1-oxo-2h,3h-cyclopenta[b]chromen-3a-yl}acetic acid)

3D PDB for NP0214812 ({6,8-dihydroxy-1-oxo-2h,3h-cyclopenta[b]chromen-3a-yl}acetic acid)

SMILES for NP0214812 ({6,8-dihydroxy-1-oxo-2h,3h-cyclopenta[b]chromen-3a-yl}acetic acid)

INCHI for NP0214812 ({6,8-dihydroxy-1-oxo-2h,3h-cyclopenta[b]chromen-3a-yl}acetic acid)

Structure for NP0214812 ({6,8-dihydroxy-1-oxo-2h,3h-cyclopenta[b]chromen-3a-yl}acetic acid)

3D Structure for NP0214812 ({6,8-dihydroxy-1-oxo-2h,3h-cyclopenta[b]chromen-3a-yl}acetic acid)