NP-MRD: Showing NP-Card for Daphnepapytone A (NP0044737)

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Record Information

Version

2.0

Created at

2022-02-24 21:14:11 UTC

Updated at

2022-02-24 21:14:11 UTC

NP-MRD ID

NP0044737

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Daphnepapytone A

Description

Daphnepapytone A was first documented in 2022 (PMID: 34935371).

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 36 39  0  0  0  0  0  0  0  0999 V2000
    3.6872   -0.2553    0.2751 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.3795    0.4522    0.0508 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2520   -0.1562   -0.1923 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7803   -1.5692   -0.3413 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.3147   -2.2568    0.7634 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7140   -1.6489   -0.3438 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.1415   -1.7784    1.1292 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7642   -0.3982    1.5981 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3530   -0.1958    2.7134 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9973    0.5324    0.4806 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.9592    1.6256    0.7722 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.2047    0.8788   -0.3526 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.7992    2.2146   -0.2189 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2176    1.8962    0.0780 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1334    2.7116    0.3141 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5913    0.5438   -1.5713 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3924   -0.3763   -0.6890 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.8255   -0.4301   -1.0165 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7020   -1.1073   -0.4266 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.5486    0.4376    0.0977 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.7012   -0.6639    1.3060 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.2332   -2.0485   -1.2513 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.9723   -2.9365    0.5004 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0843   -2.5344   -0.9230 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5053   -2.5493    1.5951 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2135   -1.9495    1.2046 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9195    2.4531    0.0592 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7100    2.0466    1.7712 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9864    1.1970    0.8840 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.6846    2.7861   -1.1735 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.4244    2.8067    0.6488 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0516    0.0591   -2.4038 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2369    1.3811   -1.9116 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4330   -0.9883   -0.3054 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2152    0.6289   -1.0616 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9411   -0.8087   -2.0594 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  2  0
  3  4  1  0
  4  5  1  0
  4  6  1  0
  6  7  1  0
  7  8  1  0
  8  9  2  0
  8 10  1  0
 10 11  1  1
 10 17  1  0
 17 18  1  6
 17 16  1  0
 12 16  1  6
 12 13  1  0
 13 14  1  0
 14 15  2  0
 14  2  1  0
 12  3  1  0
 17  6  1  0
 12 10  1  0
  1 19  1  0
  1 20  1  0
  1 21  1  0
  4 22  1  6
  5 23  1  0
  6 24  1  6
  7 25  1  0
  7 26  1  0
 11 27  1  0
 11 28  1  0
 11 29  1  0
 18 34  1  0
 18 35  1  0
 18 36  1  0
 16 32  1  0
 16 33  1  0
 13 30  1  0
 13 31  1  0
M  END


  Mrv1652302242222142D          

 18 21  0  0  1  0            999 V2000
    2.9944    1.7126    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1764    0.9080    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    4.1255    0.8321    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.6413    1.4760    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.4177    0.0482    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.6456   -0.2426    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7165   -0.5754    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    4.3841   -0.0040    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8807   -0.8601    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.7386   -1.6728    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.1977   -0.3139    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3392   -0.3440    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8816   -1.0304    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0485    0.4285    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.7331    0.9102    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.5200    0.5280    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.5659    0.7518    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.2601    0.6714    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  2  1  1  1  0  0  0
  2  3  1  0  0  0  0
  3  4  2  0  0  0  0
  2  5  1  0  0  0  0
  5  6  1  6  0  0  0
  5  7  1  0  0  0  0
  7  8  1  6  0  0  0
  3  8  1  0  0  0  0
  7  9  1  0  0  0  0
  9 10  1  6  0  0  0
  9 11  1  0  0  0  0
 11 12  2  0  0  0  0
 12 13  1  0  0  0  0
 12 14  1  0  0  0  0
 14 15  1  0  0  0  0
 15 16  1  0  0  0  0
 11 16  1  0  0  0  0
  2 16  1  0  0  0  0
 16 17  1  1  0  0  0
  5 17  1  0  0  0  0
 14 18  2  0  0  0  0
M  END
> <DATABASE_ID>
NP0044737

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CC1=C2[C@@H](O)[C@H]3CC(=O)[C@]4(C)[C@@]3(C)C[C@]24CC1=O

> <INCHI_IDENTIFIER>
InChI=1S/C15H18O3/c1-7-9(16)5-15-6-13(2)8(12(18)11(7)15)4-10(17)14(13,15)3/h8,12,18H,4-6H2,1-3H3/t8-,12+,13+,14-,15-/m1/s1

> <INCHI_KEY>
IALQJWIMLOJMIM-JMEDSEKFSA-N

> <FORMULA>
C15H18O3

> <MOLECULAR_WEIGHT>
246.306

> <EXACT_MASS>
246.12559444

> <JCHEM_ACCEPTOR_COUNT>
3

> <JCHEM_ATOM_COUNT>
36

> <JCHEM_AVERAGE_POLARIZABILITY>
26.34424568324264

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(1S,3S,4R,7S,8S)-8-hydroxy-3,4,10-trimethyltetracyclo[7.3.0.0^{1,4}.0^{3,7}]dodec-9-ene-5,11-dione

> <ALOGPS_LOGP>
1.76

> <JCHEM_LOGP>
0.9618288543333338

> <ALOGPS_LOGS>
-2.19

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
4

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
17.781121445446022

> <JCHEM_PKA_STRONGEST_ACIDIC>
14.24712752090809

> <JCHEM_PKA_STRONGEST_BASIC>
-3.127822302076254

> <JCHEM_POLAR_SURFACE_AREA>
54.37

> <JCHEM_REFRACTIVITY>
66.32459999999999

> <JCHEM_ROTATABLE_BOND_COUNT>
0

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
1.60e+00 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(1S,3S,4R,7S,8S)-8-hydroxy-3,4,10-trimethyltetracyclo[7.3.0.0^{1,4}.0^{3,7}]dodec-9-ene-5,11-dione

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 24-FEB-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   24-FEB-22         0                                  
HETATM    1  C   UNK     0       5.590   3.197   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       5.929   1.695   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       7.701   1.553   0.000  0.00  0.00           C+0
HETATM    4  O   UNK     0       8.664   2.755   0.000  0.00  0.00           O+0
HETATM    5  C   UNK     0       6.380   0.090   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       4.938  -0.453   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       6.937  -1.074   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       8.184  -0.008   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       5.377  -1.606   0.000  0.00  0.00           C+0
HETATM   10  O   UNK     0       5.112  -3.123   0.000  0.00  0.00           O+0
HETATM   11  C   UNK     0       4.102  -0.586   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       2.500  -0.642   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       1.646  -1.923   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       1.957   0.800   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       3.235   1.699   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       4.704   0.986   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       6.656   1.403   0.000  0.00  0.00           C+0
HETATM   18  O   UNK     0       0.485   1.253   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3    5   16                                             
CONECT    3    2    4    8                                                  
CONECT    4    3                                                            
CONECT    5    2    6    7   17                                             
CONECT    6    5                                                            
CONECT    7    5    8    9                                                  
CONECT    8    7    3                                                       
CONECT    9    7   10   11                                                  
CONECT   10    9                                                            
CONECT   11    9   12   16                                                  
CONECT   12   11   13   14                                                  
CONECT   13   12                                                            
CONECT   14   12   15   18                                                  
CONECT   15   14   16                                                       
CONECT   16   15   11    2   17                                             
CONECT   17   16    5                                                       
CONECT   18   14                                                            
MASTER        0    0    0    0    0    0    0    0   18    0   42    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₅H₁₈O₃

Average Mass

246.3060 Da

Monoisotopic Mass

246.12559 Da

IUPAC Name

(1S,3S,4R,7S,8S)-8-hydroxy-3,4,10-trimethyltetracyclo[7.3.0.0^{1,4}.0^{3,7}]dodec-9-ene-5,11-dione

Traditional Name

(1S,3S,4R,7S,8S)-8-hydroxy-3,4,10-trimethyltetracyclo[7.3.0.0^{1,4}.0^{3,7}]dodec-9-ene-5,11-dione

CAS Registry Number

Not Available

SMILES

CC1=C2[C@@H](O)[C@H]3CC(=O)[C@]4(C)[C@@]3(C)C[C@]24CC1=O

InChI Identifier

InChI=1S/C15H18O3/c1-7-9(16)5-15-6-13(2)8(12(18)11(7)15)4-10(17)14(13,15)3/h8,12,18H,4-6H2,1-3H3/t8-,12+,13+,14-,15-/m1/s1

InChI Key

IALQJWIMLOJMIM-JMEDSEKFSA-N

Experimental Spectra

Spectrum Type	Description	Depositor Email	Depositor Organization	Depositor	Deposition Date	View
1D NMR	¹³C NMR Spectrum (1D, 100 MHz, Chloroform-d, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 125 MHz, Chloroform-d, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 150 MHz, Chloroform-d, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 175 MHz, Chloroform-d, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 200 MHz, Chloroform-d, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 225 MHz, Chloroform-d, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 25 MHz, Chloroform-d, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 250 MHz, Chloroform-d, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 50 MHz, Chloroform-d, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 75 MHz, Chloroform-d, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, Chloroform-d, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, Chloroform-d, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, Chloroform-d, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, Chloroform-d, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, Chloroform-d, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, Chloroform-d, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, Chloroform-d, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, Chloroform-d, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, Chloroform-d, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, Chloroform-d, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum

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
Daphne papyracea	Linington's dataset npmrd_submissions_20220207	34935371

Chemical Taxonomy

Classification

Not classified

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	1.76	ALOGPS
logP	0.96	ChemAxon
logS	-2.2	ALOGPS
pKa (Strongest Acidic)	14.25	ChemAxon
pKa (Strongest Basic)	-3.1	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	3	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	54.37 Å²	ChemAxon
Rotatable Bond Count	0	ChemAxon
Refractivity	66.32 m³·mol⁻¹	ChemAxon
Polarizability	26.34 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

Not Available

References

General References

Huang SZ, Wang Q, Yuan JZ, Cai CH, Wang H, Mandi A, Kurtan T, Dai HF, Zhao YX: Hexahydroazulene-2(1H)-one Sesquiterpenoids with Bridged Cyclobutane, Oxetane, and Tetrahydrofuran Rings from the Stems of Daphne papyracea with alpha-Glycosidase Inhibitory Activity. J Nat Prod. 2022 Jan 28;85(1):3-14. doi: 10.1021/acs.jnatprod.0c01394. Epub 2021 Dec 22. [PubMed:34935371 ]

Showing NP-Card for Daphnepapytone A (NP0044737)

MOL for NP0044737 (Daphnepapytone A)

3D MOL for NP0044737 (Daphnepapytone A)

3D SDF for NP0044737 (Daphnepapytone A)

3D-SDF for NP0044737 (Daphnepapytone A)

PDB for NP0044737 (Daphnepapytone A)

3D PDB for NP0044737 (Daphnepapytone A)

SMILES for NP0044737 (Daphnepapytone A)

INCHI for NP0044737 (Daphnepapytone A)

Structure for NP0044737 (Daphnepapytone A)

3D Structure for NP0044737 (Daphnepapytone A)