NP-MRD: Showing NP-Card for Perforamone D (NP0051428)

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Record Information

Version

2.0

Created at

2022-04-27 22:47:54 UTC

Updated at

2022-04-27 22:47:55 UTC

NP-MRD ID

NP0051428

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Perforamone D

Description

5-Hydroxy-2-(hydroxymethyl)-8,8-dimethyl-4H,8H-pyrano[2,3-f]chromen-4-one belongs to the class of organic compounds known as pyranochromenes. These are organic heterocyclic compounds containing a pyran ring fused to a chromene (1-benzopyran) moiety. Perforamone D is found in Cedrelopsis gracilis, Cneorum pulverulentum, Cneorum tricoccum, Harrisonia perforata , Ptaeroxylon obliquum and Pterodon obliquum. 5-Hydroxy-2-(hydroxymethyl)-8,8-dimethyl-4H,8H-pyrano[2,3-f]chromen-4-one is an extremely weak basic (essentially neutral) compound (based on its pKa).

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 34 36  0  0  0  0  0  0  0  0999 V2000
    3.9962   -0.7940   -1.2132 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.0361   -0.5172   -0.0690 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9049   -0.5075    1.2007 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0224   -1.5935    0.0063 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7238   -1.3733   -0.0219 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.2296   -0.0036   -0.1328 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1465    1.0140   -0.2044 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.6560    2.3257   -0.3107 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6916    2.5805   -0.3420 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2088    3.8567   -0.4458 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5843    1.5367   -0.2682 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9645    1.7111   -0.2935 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3817    2.9029   -0.3899 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.8263    0.6418   -0.2174 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2692   -0.6092   -0.1152 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.1714   -1.8057   -0.0296 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.4535   -2.0636    1.3016 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9740   -0.7958   -0.0897 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1328    0.2392   -0.1633 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4897    0.7629   -0.1734 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.3999   -1.2804   -2.0144 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.7463   -1.5148   -0.8580 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.3924    0.1507   -1.5866 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.5791   -1.3821    1.2162 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.5720    0.3876    1.0731 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.2758   -0.4078    2.0991 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.3942   -2.6286    0.0901 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.0265   -2.1960    0.0364 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.3665    3.1342   -0.3677 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5426    4.6330   -0.5007 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.8855    0.7995   -0.2387 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7198   -2.6930   -0.5233 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.1193   -1.5655   -0.5673 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0330   -2.9448    1.5411 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  2 20  1  0
 20  7  1  0
  7  8  2  0
  8  9  1  0
  9 10  1  0
  9 11  2  0
 11 12  1  0
 12 13  2  0
 12 14  1  0
 14 15  2  0
 15 16  1  0
 16 17  1  0
 15 18  1  0
 18 19  1  0
 19  6  2  0
  6  5  1  0
  5  4  2  0
  4  2  1  0
  6  7  1  0
 19 11  1  0
  1 21  1  0
  1 22  1  0
  1 23  1  0
  3 24  1  0
  3 25  1  0
  3 26  1  0
  8 29  1  0
 10 30  1  0
 14 31  1  0
 16 32  1  0
 16 33  1  0
 17 34  1  0
  5 28  1  0
  4 27  1  0
M  END


  Mrv1533004201504362D          

 20 22  0  0  0  0            999 V2000
    1.4009   -0.2947    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0329   -0.8250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4009   -1.3553    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4454   -0.1105    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.2704   -0.1105    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.6829    0.6039    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.5079    0.6039    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.9204    1.3184    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.9204   -0.1105    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.7454   -0.1105    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.1579    0.6039    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    6.1579   -0.8250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.7454   -1.5395    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.1579   -2.2539    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.9829   -2.2539    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.9204   -1.5395    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.5079   -0.8250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.6829   -0.8250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2704   -1.5395    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4454   -1.5395    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
  2  4  1  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  1  0  0  0  0
  7  9  2  0  0  0  0
  9 10  1  0  0  0  0
 10 11  2  0  0  0  0
 10 12  1  0  0  0  0
 12 13  2  0  0  0  0
 13 14  1  0  0  0  0
 14 15  1  0  0  0  0
 13 16  1  0  0  0  0
 16 17  1  0  0  0  0
  9 17  1  0  0  0  0
 17 18  2  0  0  0  0
  5 18  1  0  0  0  0
 18 19  1  0  0  0  0
 19 20  2  0  0  0  0
  2 20  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0051428

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CC1(C)OC2=CC(O)=C3C(=O)C=C(CO)OC3=C2C=C1

> <INCHI_IDENTIFIER>
InChI=1S/C15H14O5/c1-15(2)4-3-9-12(20-15)6-11(18)13-10(17)5-8(7-16)19-14(9)13/h3-6,16,18H,7H2,1-2H3

> <INCHI_KEY>
QLDUXSCWWAQMTC-UHFFFAOYSA-N

> <FORMULA>
C15H14O5

> <MOLECULAR_WEIGHT>
274.272

> <EXACT_MASS>
274.084123551

> <JCHEM_ACCEPTOR_COUNT>
5

> <JCHEM_ATOM_COUNT>
34

> <JCHEM_AVERAGE_POLARIZABILITY>
28.086352437684457

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
5-hydroxy-2-(hydroxymethyl)-8,8-dimethyl-4H,8H-pyrano[2,3-f]chromen-4-one

> <ALOGPS_LOGP>
2.29

> <JCHEM_LOGP>
2.0717013829999997

> <ALOGPS_LOGS>
-2.95

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
14.085000347306007

> <JCHEM_PKA_STRONGEST_ACIDIC>
7.599025740868606

> <JCHEM_PKA_STRONGEST_BASIC>
-3.083650390521788

> <JCHEM_POLAR_SURFACE_AREA>
75.99000000000001

> <JCHEM_REFRACTIVITY>
75.02520000000001

> <JCHEM_ROTATABLE_BOND_COUNT>
1

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
3.06e-01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
ptaerochromenol

> <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  C   UNK     0       2.615  -0.550   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       3.795  -1.540   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       2.615  -2.530   0.000  0.00  0.00           C+0
HETATM    4  O   UNK     0       4.565  -0.206   0.000  0.00  0.00           O+0
HETATM    5  C   UNK     0       6.105  -0.206   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       6.875   1.127   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       8.415   1.127   0.000  0.00  0.00           C+0
HETATM    8  O   UNK     0       9.185   2.461   0.000  0.00  0.00           O+0
HETATM    9  C   UNK     0       9.185  -0.206   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0      10.725  -0.206   0.000  0.00  0.00           C+0
HETATM   11  O   UNK     0      11.495   1.127   0.000  0.00  0.00           O+0
HETATM   12  C   UNK     0      11.495  -1.540   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0      10.725  -2.874   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0      11.495  -4.207   0.000  0.00  0.00           C+0
HETATM   15  O   UNK     0      13.035  -4.207   0.000  0.00  0.00           O+0
HETATM   16  O   UNK     0       9.185  -2.874   0.000  0.00  0.00           O+0
HETATM   17  C   UNK     0       8.415  -1.540   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       6.875  -1.540   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       6.105  -2.874   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0       4.565  -2.874   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3    4   20                                             
CONECT    3    2                                                            
CONECT    4    2    5                                                       
CONECT    5    4    6   18                                                  
CONECT    6    5    7                                                       
CONECT    7    6    8    9                                                  
CONECT    8    7                                                            
CONECT    9    7   10   17                                                  
CONECT   10    9   11   12                                                  
CONECT   11   10                                                            
CONECT   12   10   13                                                       
CONECT   13   12   14   16                                                  
CONECT   14   13   15                                                       
CONECT   15   14                                                            
CONECT   16   13   17                                                       
CONECT   17   16    9   18                                                  
CONECT   18   17    5   19                                                  
CONECT   19   18   20                                                       
CONECT   20   19    2                                                       
MASTER        0    0    0    0    0    0    0    0   20    0   44    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₅H₁₄O₅

Average Mass

274.2720 Da

Monoisotopic Mass

274.08412 Da

IUPAC Name

5-hydroxy-2-(hydroxymethyl)-8,8-dimethyl-4H,8H-pyrano[2,3-f]chromen-4-one

Traditional Name

ptaerochromenol

CAS Registry Number

Not Available

SMILES

CC1(C)OC2=CC(O)=C3C(=O)C=C(CO)OC3=C2C=C1

InChI Identifier

InChI=1S/C15H14O5/c1-15(2)4-3-9-12(20-15)6-11(18)13-10(17)5-8(7-16)19-14(9)13/h3-6,16,18H,7H2,1-2H3

InChI Key

QLDUXSCWWAQMTC-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, 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
Cedrelopsis gracilis	Plant	KNApSAcK
Cneorum pulverulentum	Plant	KNApSAcK
Cneorum tricoccum	Plant	KNApSAcK
Harrisonia perforata	Plant	KNApSAcK
Ptaeroxylon obliquum	Plant	KNApSAcK
Pterodon obliquum	Plant	KNApSAcK

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as pyranochromenes. These are organic heterocyclic compounds containing a pyran ring fused to a chromene (1-benzopyran) moiety.

Kingdom

Organic compounds

Super Class

Organoheterocyclic compounds

Class

Benzopyrans

Sub Class

1-benzopyrans

Direct Parent

Pyranochromenes

Alternative Parents

Substituents

Pyranochromene
2,2-dimethyl-1-benzopyran
Chromone
1-hydroxy-2-unsubstituted benzenoid
Alkyl aryl ether
Pyranone
Pyran
Benzenoid
Heteroaromatic compound
Vinylogous acid
Ether
Oxacycle
Aromatic alcohol
Alcohol
Hydrocarbon derivative
Primary alcohol
Organooxygen compound
Organic oxide
Organic oxygen compound
Aromatic heteropolycyclic compound

Molecular Framework

Aromatic heteropolycyclic compounds

External Descriptors

chromenes (CHEBI:8623 )
chromones (C09029 )

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	2.29	ALOGPS
logP	2.07	ChemAxon
logS	-3	ALOGPS
pKa (Strongest Acidic)	7.6	ChemAxon
pKa (Strongest Basic)	-3.1	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	5	ChemAxon
Hydrogen Donor Count	2	ChemAxon
Polar Surface Area	75.99 Å²	ChemAxon
Rotatable Bond Count	1	ChemAxon
Refractivity	75.03 m³·mol⁻¹	ChemAxon
Polarizability	28.09 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

C00002441

Chemspider ID

Not Available

KEGG Compound ID

C09029

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

441980

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Not Available

Showing NP-Card for Perforamone D (NP0051428)

MOL for NP0051428 (Perforamone D)

3D MOL for NP0051428 (Perforamone D)

3D SDF for NP0051428 (Perforamone D)

3D-SDF for NP0051428 (Perforamone D)

PDB for NP0051428 (Perforamone D)

3D PDB for NP0051428 (Perforamone D)

SMILES for NP0051428 (Perforamone D)

INCHI for NP0051428 (Perforamone D)

Structure for NP0051428 (Perforamone D)

3D Structure for NP0051428 (Perforamone D)