NP-MRD: Showing NP-Card for Paraphaeolactone A2 (NP0332372)

Jump To Section:

Identification Spectra BioTaxonomy ChemoTaxonomy Physical properties Links References XML

Record Information

Version

2.0

Created at

2024-01-16 12:00:38 UTC

Updated at

2024-09-03 04:18:59 UTC

NP-MRD ID

NP0332372

Natural Product DOI

https://doi.org/10.57994/1589

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Paraphaeolactone A2

Description

Paraphaeolactone A2 belongs to the class of organic compounds known as delta valerolactones. These are cyclic organic compounds containing an oxan-2- one moiety. Based on a literature review very few articles have been published on Paraphaeolactone A2.

Structure

MOL SDF PDB SMILES InChI


  Mrv2104 01162412002D          

 14 16  0  0  1  0            999 V2000
   -1.4764   -0.9774    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6603   -0.8562    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0015   -1.2944    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.5327   -0.3506    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.6239   -0.8708    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.1885   -1.5402    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.9584   -1.2229    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0132   -0.3866    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2907    0.0709    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.3142    0.8955    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4952   -1.9756    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5664   -2.2736    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1272   -0.2116    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5694   -1.8900    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0  0  0  0
  3  2  1  0  0  0  0
  4  3  1  6  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  2  0  0  0  0
  9  8  1  0  0  0  0
  4  9  1  0  0  0  0
  9 10  1  6  0  0  0
  6 11  1  0  0  0  0
  3 11  1  0  0  0  0
  6 12  1  1  0  0  0
  5 13  1  6  0  0  0
  2 13  1  0  0  0  0
  3 14  1  6  0  0  0
M  END
> <DATABASE_ID>
NP0332372

> <DATABASE_NAME>
NP-MRD

> <SMILES>
C[C@@H]1C=C[C@]2(O)C[C@]3(O)[C@H]1[C@H]2OC3=O

> <INCHI_IDENTIFIER>
InChI=1S/C10H12O4/c1-5-2-3-9(12)4-10(13)6(5)7(9)14-8(10)11/h2-3,5-7,12-13H,4H2,1H3/t5-,6-,7-,9+,10+/m1/s1

> <INCHI_KEY>
ABSLWUOGLRWJMG-CYZASJMISA-N

> <FORMULA>
C10H12O4

> <MOLECULAR_WEIGHT>
196.202

> <EXACT_MASS>
196.073558866

> <JCHEM_ACCEPTOR_COUNT>
3

> <JCHEM_ATOM_COUNT>
26

> <JCHEM_AVERAGE_POLARIZABILITY>
18.733275007253248

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(1R,2R,3R,6R,8S)-6,8-dihydroxy-3-methyl-10-oxatricyclo[4.4.0.0^{2,8}]dec-4-en-9-one

> <JCHEM_LOGP>
-0.5007821463333334

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
13.423387675480203

> <JCHEM_PKA_STRONGEST_ACIDIC>
11.943076325335975

> <JCHEM_PKA_STRONGEST_BASIC>
-3.5445909852908417

> <JCHEM_POLAR_SURFACE_AREA>
66.76

> <JCHEM_REFRACTIVITY>
47.5381

> <JCHEM_ROTATABLE_BOND_COUNT>
0

> <JCHEM_RULE_OF_FIVE>
1

> <JCHEM_TRADITIONAL_IUPAC>
(1R,2R,3R,6R,8S)-6,8-dihydroxy-3-methyl-10-oxatricyclo[4.4.0.0^{2,8}]dec-4-en-9-one

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 16-JAN-24   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   16-JAN-24         0                                  
HETATM    1  O   UNK     0      -2.756  -1.825   0.000  0.00  0.00           O+0
HETATM    2  C   UNK     0      -1.233  -1.598   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       0.003  -2.416   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       0.994  -0.655   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       1.165  -1.625   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       2.218  -2.875   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       3.656  -2.283   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       3.758  -0.722   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       2.409   0.132   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       2.453   1.672   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       0.924  -3.688   0.000  0.00  0.00           C+0
HETATM   12  O   UNK     0       2.924  -4.244   0.000  0.00  0.00           O+0
HETATM   13  O   UNK     0      -0.237  -0.395   0.000  0.00  0.00           O+0
HETATM   14  O   UNK     0      -1.063  -3.528   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3   13                                                  
CONECT    3    2    4   11   14                                             
CONECT    4    3    5    9                                                  
CONECT    5    4    6   13                                                  
CONECT    6    5    7   11   12                                             
CONECT    7    6    8                                                       
CONECT    8    7    9                                                       
CONECT    9    8    4   10                                                  
CONECT   10    9                                                            
CONECT   11    6    3                                                       
CONECT   12    6                                                            
CONECT   13    5    2                                                       
CONECT   14    3                                                            
MASTER        0    0    0    0    0    0    0    0   14    0   32    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₀H₁₂O₄

Average Mass

196.2020 Da

Monoisotopic Mass

196.07356 Da

IUPAC Name

(1R,2R,3R,6R,8S)-6,8-dihydroxy-3-methyl-10-oxatricyclo[4.4.0.0^{2,8}]dec-4-en-9-one

Traditional Name

(1R,2R,3R,6R,8S)-6,8-dihydroxy-3-methyl-10-oxatricyclo[4.4.0.0^{2,8}]dec-4-en-9-one

CAS Registry Number

Not Available

SMILES

C[C@@H]1C=C[C@]2(O)C[C@]3(O)[C@H]1[C@H]2OC3=O

InChI Identifier

InChI=1S/C10H12O4/c1-5-2-3-9(12)4-10(13)6(5)7(9)14-8(10)11/h2-3,5-7,12-13H,4H2,1H3/t5-,6-,7-,9+,10+/m1/s1

InChI Key

ABSLWUOGLRWJMG-CYZASJMISA-N

Experimental Spectra

Spectrum Type	Description	Depositor Email	Depositor Organization	Depositor	Deposition Date	View
HMBC NMR	[¹H, ¹³C] NMR Spectrum (2D, 500 MHz, C3D6O, experimental)	h23ga206@hirosaki-u.ac.jp	Hirosaki university	ryuhi kanehara	2024-01-16	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, C3D6O, experimental)	h23ga206@hirosaki-u.ac.jp	Hirosaki university	ryuhi kanehara	2024-01-16	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, C3D6O, experimental)	h23ga206@hirosaki-u.ac.jp	Hirosaki university	ryuhi kanehara	2024-01-16	View Spectrum
COSY NMR	[¹H, ¹H] NMR Spectrum (2D, 500 MHz, C3D6O, experimental)	h23ga206@hirosaki-u.ac.jp	Hirosaki university	ryuhi kanehara	2024-01-16	View Spectrum
HMQC NMR	[¹H, ¹³C] NMR Spectrum (2D, 500 MHz, C3D6O, experimental)	h23ga206@hirosaki-u.ac.jp	Hirosaki university	ryuhi kanehara	2024-01-16	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 126 MHz, C3D6O, experimental)	h23ga206@hirosaki-u.ac.jp	Hirosaki university	ryuhi kanehara	2024-01-16	View Spectrum

Predicted Spectra

Not Available

Chemical Shift Submissions

Not Available

Species

Species of Origin

Not Available

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as delta valerolactones. These are cyclic organic compounds containing an oxan-2- one moiety.

Kingdom

Organic compounds

Super Class

Organoheterocyclic compounds

Class

Lactones

Sub Class

Delta valerolactones

Direct Parent

Delta valerolactones

Alternative Parents

Substituents

Delta_valerolactone
Fatty acid ester
Delta valerolactone
Fatty acyl
Oxane
Monosaccharide
Gamma butyrolactone
Tetrahydrofuran
Tertiary alcohol
Cyclic alcohol
Carboxylic acid ester
Oxacycle
Monocarboxylic acid or derivatives
Carboxylic acid derivative
Organic oxygen compound
Organic oxide
Hydrocarbon derivative
Organooxygen compound
Alcohol
Aliphatic heteropolycyclic compound

Molecular Framework

Aliphatic 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	-0.5	ChemAxon
pKa (Strongest Acidic)	11.94	ChemAxon
pKa (Strongest Basic)	-3.5	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	3	ChemAxon
Hydrogen Donor Count	2	ChemAxon
Polar Surface Area	66.76 Å²	ChemAxon
Rotatable Bond Count	0	ChemAxon
Refractivity	47.54 m³·mol⁻¹	ChemAxon
Polarizability	18.73 Å³	ChemAxon
Number of Rings	3	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	No	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

Not Available

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Showing NP-Card for Paraphaeolactone A2 (NP0332372)

MOL for NP0332372 (Paraphaeolactone A2)

3D MOL for NP0332372 (Paraphaeolactone A2)

3D SDF for NP0332372 (Paraphaeolactone A2)

3D-SDF for NP0332372 (Paraphaeolactone A2)

PDB for NP0332372 (Paraphaeolactone A2)

3D PDB for NP0332372 (Paraphaeolactone A2)

SMILES for NP0332372 (Paraphaeolactone A2)

INCHI for NP0332372 (Paraphaeolactone A2)

Structure for NP0332372 (Paraphaeolactone A2)

3D Structure for NP0332372 (Paraphaeolactone A2)