NP-MRD: Showing NP-Card for palmadorin D (NP0041772)

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Record Information

Version

2.0

Created at

2021-06-20 23:36:19 UTC

Updated at

2021-06-30 00:16:29 UTC

NP-MRD ID

NP0041772

Secondary Accession Numbers

None

Natural Product Identification

Common Name

palmadorin D

Provided By

JEOL Database JEOL Logo

Description

Palmadorin D belongs to the class of organic compounds known as colensane and clerodane diterpenoids. These are diterpenoids with a structure based on the clerodane or the colensane skeleton. Clerodanes arise from labdanes by two methyl migrations. palmadorin D is found in Austrodoris kerguelenensis. palmadorin D was first documented in 2012 (Maschek, J. A., et al.). Based on a literature review very few articles have been published on Palmadorin D.

Structure

MOL 3D MOL SDF 3D SDF PDB SMILES InChI


  Mrv1652306212101363D          

 65 66  0  0  0  0            999 V2000
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    2.4631   -1.8404   -3.1825 C   0  0  0  0  0  0  0  0  0  0  0  0
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    0.9999   -1.3408   -3.3198 C   0  0  1  0  0  0  0  0  0  0  0  0
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M  END

     RDKit          3D

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M  END


  Mrv1652306212101363D          

 65 66  0  0  0  0            999 V2000
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    1.8004    0.8211   -2.1474 C   0  0  1  0  0  0  0  0  0  0  0  0
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   -0.7514    0.1993   -1.9780 C   0  0  2  0  0  0  0  0  0  0  0  0
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   -0.9014    1.0560   -0.6612 C   0  0  1  0  0  0  0  0  0  0  0  0
   -0.4819    0.3868    0.6574 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.7329    1.2908    1.8531 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1872    2.4763    1.9665 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6967    0.9753    2.7423 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1207    1.7244    3.9446 C   0  0  0  0  0  0  0  0  0  0  0  0
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   -2.5385    3.8401    4.8533 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.4507    5.3334    4.5322 C   0  0  2  0  0  0  0  0  0  0  0  0
   -3.3875    5.6699    3.4973 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0538    5.7619    4.0779 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.0667    7.1768    3.8613 O   0  0  0  0  0  0  0  0  0  0  0  0
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    0.0569   -3.1858   -4.0299 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1794   -3.0751   -2.2773 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1142   -2.9075   -2.9559 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8054   -1.5720   -4.0377 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4504   -1.6245   -1.0154 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4292   -0.1334   -0.9374 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5554   -0.1917   -2.7079 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7836   -1.6514   -1.7451 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4426    1.9487   -3.2847 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1217    1.6670   -2.8714 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3548    0.6531   -4.0649 H   0  0  0  0  0  0  0  0  0  0  0  0
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   -1.9434    1.3861   -0.5606 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.5820    0.1268    0.6444 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0255   -0.5545    0.7882 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.1957    2.2123    1.6292 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1751    3.3025    1.3474 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.2968    2.8265    2.9966 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2644    0.0559    2.6247 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5862    3.5656    5.0253 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9461    3.6229    5.7498 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7508    5.9127    5.4128 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1537    6.5830    3.2365 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7821    5.2937    3.1270 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3000    5.5293    4.8357 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1742    7.4219    3.5586 H   0  0  0  0  0  0  0  0  0  0  0  0
  6 13  1  0  0  0  0
 17 18  1  0  0  0  0
 13 15  1  1  0  0  0
 17 19  2  0  0  0  0
 16 15  1  0  0  0  0
 19 20  1  0  0  0  0
  7  9  1  0  0  0  0
 20 22  1  0  0  0  0
  6  5  1  0  0  0  0
 20 21  2  0  0  0  0
  9 10  1  0  0  0  0
  6 36  1  1  0  0  0
  5  4  1  0  0  0  0
  7  8  1  6  0  0  0
 10 11  1  0  0  0  0
  2  1  2  3  0  0  0
  7  2  1  0  0  0  0
 11 12  1  0  0  0  0
 13 11  1  0  0  0  0
 13 14  1  0  0  0  0
  2  3  1  0  0  0  0
 22 23  1  0  0  0  0
  4  3  1  0  0  0  0
 24 25  1  0  0  0  0
 16 17  1  0  0  0  0
 23 24  1  0  0  0  0
 24 26  1  0  0  0  0
  6  7  1  0  0  0  0
 26 27  1  0  0  0  0
  9 40  1  0  0  0  0
  9 41  1  0  0  0  0
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 11 44  1  1  0  0  0
 15 51  1  0  0  0  0
 15 52  1  0  0  0  0
  5 34  1  0  0  0  0
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  3 31  1  0  0  0  0
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  1 28  1  0  0  0  0
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 26 64  1  0  0  0  0
 27 65  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0041772

> <DATABASE_NAME>
NP-MRD

> <SMILES>
[H]OC([H])([H])[C@@]([H])(O[H])C([H])([H])OC(=O)C(\[H])=C(/C([H])([H])[H])C([H])([H])C([H])([H])[C@]1(C([H])([H])[H])[C@@]([H])(C([H])([H])[H])C([H])([H])C([H])([H])[C@@]2(C(=C([H])[H])C([H])([H])C([H])([H])C([H])([H])[C@@]12[H])C([H])([H])[H]

> <INCHI_IDENTIFIER>
InChI=1S/C23H38O4/c1-16(13-21(26)27-15-19(25)14-24)9-11-22(4)18(3)10-12-23(5)17(2)7-6-8-20(22)23/h13,18-20,24-25H,2,6-12,14-15H2,1,3-5H3/b16-13+/t18-,19+,20-,22+,23+/m0/s1

> <INCHI_KEY>
RQBXWYHQAREDEF-HGFXQBBBSA-N

> <FORMULA>
C23H38O4

> <MOLECULAR_WEIGHT>
378.553

> <EXACT_MASS>
378.277009704

> <JCHEM_ACCEPTOR_COUNT>
3

> <JCHEM_ATOM_COUNT>
65

> <JCHEM_AVERAGE_POLARIZABILITY>
44.47914781726678

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(2R)-2,3-dihydroxypropyl (2E)-5-[(1R,2S,4aS,8aS)-1,2,4a-trimethyl-5-methylidene-decahydronaphthalen-1-yl]-3-methylpent-2-enoate

> <ALOGPS_LOGP>
4.17

> <JCHEM_LOGP>
4.538375419666666

> <ALOGPS_LOGS>
-4.57

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
2

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
15.561635819540218

> <JCHEM_PKA_STRONGEST_ACIDIC>
13.618691472007395

> <JCHEM_PKA_STRONGEST_BASIC>
-2.9686917100354204

> <JCHEM_POLAR_SURFACE_AREA>
66.76

> <JCHEM_REFRACTIVITY>
108.94509999999997

> <JCHEM_ROTATABLE_BOND_COUNT>
8

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
1.01e-02 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(2R)-2,3-dihydroxypropyl (2E)-5-[(1R,2S,4aS,8aS)-1,2,4a-trimethyl-5-methylidene-hexahydro-2H-naphthalen-1-yl]-3-methylpent-2-enoate

> <JCHEM_VEBER_RULE>
0

$$$$

     RDKit          3D

 65 66  0  0  0  0  0  0  0  0999 V2000
    2.8454   -3.1279   -3.1001 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4631   -1.8404   -3.1825 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5168   -0.7521   -3.1446 C   0  0  0  0  0  0  0  0  0  0  0  0
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    0.9999   -1.3408   -3.3198 C   0  0  1  0  0  0  0  0  0  0  0  0
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   -1.7000   -1.0551   -1.9198 C   0  0  2  0  0  0  0  0  0  0  0  0
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   -2.0274    3.0612    3.7592 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5385    3.8401    4.8533 C   0  0  0  0  0  0  0  0  0  0  0  0
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    1.6599    1.4871   -1.2914 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7171    1.4441   -3.0433 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.9426   -0.8908   -1.2394 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1400   -0.6279   -5.0845 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.3839    0.2166   -4.8479 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.3531   -1.4266   -5.4812 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.0569   -3.1858   -4.0299 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1794   -3.0751   -2.2773 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1142   -2.9075   -2.9559 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8054   -1.5720   -4.0377 H   0  0  0  0  0  0  0  0  0  0  0  0
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   -3.5554   -0.1917   -2.7079 H   0  0  0  0  0  0  0  0  0  0  0  0
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   -0.4426    1.9487   -3.2847 H   0  0  0  0  0  0  0  0  0  0  0  0
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   -2.2644    0.0559    2.6247 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5862    3.5656    5.0253 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9461    3.6229    5.7498 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7508    5.9127    5.4128 H   0  0  0  0  0  0  0  0  0  0  0  0
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   -0.7821    5.2937    3.1270 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3000    5.5293    4.8357 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1742    7.4219    3.5586 H   0  0  0  0  0  0  0  0  0  0  0  0
  6 13  1  0
 17 18  1  0
 13 15  1  1
 17 19  2  0
 16 15  1  0
 19 20  1  0
  7  9  1  0
 20 22  1  0
  6  5  1  0
 20 21  2  0
  9 10  1  0
  6 36  1  1
  5  4  1  0
  7  8  1  6
 10 11  1  0
  2  1  2  3
  7  2  1  0
 11 12  1  0
 13 11  1  0
 13 14  1  0
  2  3  1  0
 22 23  1  0
  4  3  1  0
 24 25  1  0
 16 17  1  0
 23 24  1  0
 24 26  1  0
  6  7  1  0
 26 27  1  0
  9 40  1  0
  9 41  1  0
 10 42  1  0
 10 43  1  0
 11 44  1  1
 15 51  1  0
 15 52  1  0
  5 34  1  0
  5 35  1  0
  4 32  1  0
  4 33  1  0
  3 30  1  0
  3 31  1  0
 16 53  1  0
 16 54  1  0
 18 55  1  0
 18 56  1  0
 18 57  1  0
 19 58  1  0
  8 37  1  0
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  1 28  1  0
  1 29  1  0
 12 45  1  0
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 23 59  1  0
 23 60  1  0
 25 62  1  0
 24 61  1  1
 26 63  1  0
 26 64  1  0
 27 65  1  0
M  END

HEADER    PROTEIN                                 21-JUN-21   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   21-JUN-21         0                                  
HETATM    1  C   UNK     0       2.845  -3.128  -3.100  0.00  0.00           C+0
HETATM    2  C   UNK     0       2.463  -1.840  -3.183  0.00  0.00           C+0
HETATM    3  C   UNK     0       3.517  -0.752  -3.145  0.00  0.00           C+0
HETATM    4  C   UNK     0       3.220   0.263  -2.051  0.00  0.00           C+0
HETATM    5  C   UNK     0       1.800   0.821  -2.147  0.00  0.00           C+0
HETATM    6  C   UNK     0       0.741  -0.310  -2.153  0.00  0.00           C+0
HETATM    7  C   UNK     0       1.000  -1.341  -3.320  0.00  0.00           C+0
HETATM    8  C   UNK     0       0.889  -0.754  -4.748  0.00  0.00           C+0
HETATM    9  C   UNK     0      -0.031  -2.491  -3.184  0.00  0.00           C+0
HETATM   10  C   UNK     0      -1.480  -2.022  -3.094  0.00  0.00           C+0
HETATM   11  C   UNK     0      -1.700  -1.055  -1.920  0.00  0.00           C+0
HETATM   12  C   UNK     0      -3.197  -0.729  -1.824  0.00  0.00           C+0
HETATM   13  C   UNK     0      -0.751   0.199  -1.978  0.00  0.00           C+0
HETATM   14  C   UNK     0      -1.181   1.159  -3.117  0.00  0.00           C+0
HETATM   15  C   UNK     0      -0.901   1.056  -0.661  0.00  0.00           C+0
HETATM   16  C   UNK     0      -0.482   0.387   0.657  0.00  0.00           C+0
HETATM   17  C   UNK     0      -0.733   1.291   1.853  0.00  0.00           C+0
HETATM   18  C   UNK     0       0.187   2.476   1.966  0.00  0.00           C+0
HETATM   19  C   UNK     0      -1.697   0.975   2.742  0.00  0.00           C+0
HETATM   20  C   UNK     0      -2.121   1.724   3.945  0.00  0.00           C+0
HETATM   21  O   UNK     0      -2.559   1.163   4.938  0.00  0.00           O+0
HETATM   22  O   UNK     0      -2.027   3.061   3.759  0.00  0.00           O+0
HETATM   23  C   UNK     0      -2.539   3.840   4.853  0.00  0.00           C+0
HETATM   24  C   UNK     0      -2.451   5.333   4.532  0.00  0.00           C+0
HETATM   25  O   UNK     0      -3.388   5.670   3.497  0.00  0.00           O+0
HETATM   26  C   UNK     0      -1.054   5.762   4.078  0.00  0.00           C+0
HETATM   27  O   UNK     0      -1.067   7.177   3.861  0.00  0.00           O+0
HETATM   28  H   UNK     0       3.893  -3.401  -3.006  0.00  0.00           H+0
HETATM   29  H   UNK     0       2.146  -3.956  -3.131  0.00  0.00           H+0
HETATM   30  H   UNK     0       3.560  -0.250  -4.118  0.00  0.00           H+0
HETATM   31  H   UNK     0       4.517  -1.170  -2.975  0.00  0.00           H+0
HETATM   32  H   UNK     0       3.941   1.087  -2.109  0.00  0.00           H+0
HETATM   33  H   UNK     0       3.357  -0.206  -1.068  0.00  0.00           H+0
HETATM   34  H   UNK     0       1.660   1.487  -1.291  0.00  0.00           H+0
HETATM   35  H   UNK     0       1.717   1.444  -3.043  0.00  0.00           H+0
HETATM   36  H   UNK     0       0.943  -0.891  -1.239  0.00  0.00           H+0
HETATM   37  H   UNK     0      -0.140  -0.628  -5.085  0.00  0.00           H+0
HETATM   38  H   UNK     0       1.384   0.217  -4.848  0.00  0.00           H+0
HETATM   39  H   UNK     0       1.353  -1.427  -5.481  0.00  0.00           H+0
HETATM   40  H   UNK     0       0.057  -3.186  -4.030  0.00  0.00           H+0
HETATM   41  H   UNK     0       0.179  -3.075  -2.277  0.00  0.00           H+0
HETATM   42  H   UNK     0      -2.114  -2.908  -2.956  0.00  0.00           H+0
HETATM   43  H   UNK     0      -1.805  -1.572  -4.038  0.00  0.00           H+0
HETATM   44  H   UNK     0      -1.450  -1.625  -1.015  0.00  0.00           H+0
HETATM   45  H   UNK     0      -3.429  -0.133  -0.937  0.00  0.00           H+0
HETATM   46  H   UNK     0      -3.555  -0.192  -2.708  0.00  0.00           H+0
HETATM   47  H   UNK     0      -3.784  -1.651  -1.745  0.00  0.00           H+0
HETATM   48  H   UNK     0      -0.443   1.949  -3.285  0.00  0.00           H+0
HETATM   49  H   UNK     0      -2.122   1.667  -2.871  0.00  0.00           H+0
HETATM   50  H   UNK     0      -1.355   0.653  -4.065  0.00  0.00           H+0
HETATM   51  H   UNK     0      -0.338   1.990  -0.780  0.00  0.00           H+0
HETATM   52  H   UNK     0      -1.943   1.386  -0.561  0.00  0.00           H+0
HETATM   53  H   UNK     0       0.582   0.127   0.644  0.00  0.00           H+0
HETATM   54  H   UNK     0      -1.026  -0.555   0.788  0.00  0.00           H+0
HETATM   55  H   UNK     0       1.196   2.212   1.629  0.00  0.00           H+0
HETATM   56  H   UNK     0      -0.175   3.303   1.347  0.00  0.00           H+0
HETATM   57  H   UNK     0       0.297   2.826   2.997  0.00  0.00           H+0
HETATM   58  H   UNK     0      -2.264   0.056   2.625  0.00  0.00           H+0
HETATM   59  H   UNK     0      -3.586   3.566   5.025  0.00  0.00           H+0
HETATM   60  H   UNK     0      -1.946   3.623   5.750  0.00  0.00           H+0
HETATM   61  H   UNK     0      -2.751   5.913   5.413  0.00  0.00           H+0
HETATM   62  H   UNK     0      -3.154   6.583   3.236  0.00  0.00           H+0
HETATM   63  H   UNK     0      -0.782   5.294   3.127  0.00  0.00           H+0
HETATM   64  H   UNK     0      -0.300   5.529   4.836  0.00  0.00           H+0
HETATM   65  H   UNK     0      -0.174   7.422   3.559  0.00  0.00           H+0
CONECT    1    2   28   29                                                  
CONECT    2    1    7    3                                                  
CONECT    3    2    4   30   31                                             
CONECT    4    5    3   32   33                                             
CONECT    5    6    4   34   35                                             
CONECT    6   13    5   36    7                                             
CONECT    7    9    8    2    6                                             
CONECT    8    7   37   38   39                                             
CONECT    9    7   10   40   41                                             
CONECT   10    9   11   42   43                                             
CONECT   11   10   12   13   44                                             
CONECT   12   11   45   46   47                                             
CONECT   13    6   15   11   14                                             
CONECT   14   13   48   49   50                                             
CONECT   15   13   16   51   52                                             
CONECT   16   15   17   53   54                                             
CONECT   17   18   19   16                                                  
CONECT   18   17   55   56   57                                             
CONECT   19   17   20   58                                                  
CONECT   20   19   22   21                                                  
CONECT   21   20                                                            
CONECT   22   20   23                                                       
CONECT   23   22   24   59   60                                             
CONECT   24   25   23   26   61                                             
CONECT   25   24   62                                                       
CONECT   26   24   27   63   64                                             
CONECT   27   26   65                                                       
CONECT   28    1                                                            
CONECT   29    1                                                            
CONECT   30    3                                                            
CONECT   31    3                                                            
CONECT   32    4                                                            
CONECT   33    4                                                            
CONECT   34    5                                                            
CONECT   35    5                                                            
CONECT   36    6                                                            
CONECT   37    8                                                            
CONECT   38    8                                                            
CONECT   39    8                                                            
CONECT   40    9                                                            
CONECT   41    9                                                            
CONECT   42   10                                                            
CONECT   43   10                                                            
CONECT   44   11                                                            
CONECT   45   12                                                            
CONECT   46   12                                                            
CONECT   47   12                                                            
CONECT   48   14                                                            
CONECT   49   14                                                            
CONECT   50   14                                                            
CONECT   51   15                                                            
CONECT   52   15                                                            
CONECT   53   16                                                            
CONECT   54   16                                                            
CONECT   55   18                                                            
CONECT   56   18                                                            
CONECT   57   18                                                            
CONECT   58   19                                                            
CONECT   59   23                                                            
CONECT   60   23                                                            
CONECT   61   24                                                            
CONECT   62   25                                                            
CONECT   63   26                                                            
CONECT   64   26                                                            
CONECT   65   27                                                            
MASTER        0    0    0    0    0    0    0    0   65    0  132    0
END

RDKit          3D

65 66  0  0  0  0  0  0  0  0999 V2000
    2.8454   -3.1279   -3.1001 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4631   -1.8404   -3.1825 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5168   -0.7521   -3.1446 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2203    0.2633   -2.0506 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.8004    0.8211   -2.1474 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7411   -0.3100   -2.1534 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.9999   -1.3408   -3.3198 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.8893   -0.7536   -4.7480 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0314   -2.4914   -3.1840 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4805   -2.0216   -3.0942 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7000   -1.0551   -1.9198 C   0  0  2  0  0  0  0  0  0  0  0  0
   -3.1973   -0.7286   -1.8242 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7514    0.1993   -1.9780 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.1811    1.1592   -3.1168 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9014    1.0560   -0.6612 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4819    0.3868    0.6574 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7329    1.2908    1.8531 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1872    2.4763    1.9665 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6967    0.9753    2.7423 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1207    1.7244    3.9446 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5593    1.1633    4.9376 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0274    3.0612    3.7592 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5385    3.8401    4.8533 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4507    5.3334    4.5322 C   0  0  2  0  0  0  0  0  0  0  0  0
   -3.3875    5.6699    3.4973 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0538    5.7619    4.0779 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0667    7.1768    3.8613 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.8930   -3.4010   -3.0063 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.1461   -3.9557   -3.1312 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.5601   -0.2499   -4.1181 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.5168   -1.1698   -2.9746 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.9412    1.0871   -2.1091 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.3575   -0.2055   -1.0676 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.6599    1.4871   -1.2914 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7171    1.4441   -3.0433 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.9426   -0.8908   -1.2394 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1400   -0.6279   -5.0845 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.3839    0.2166   -4.8479 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.3531   -1.4266   -5.4812 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.0569   -3.1858   -4.0299 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1794   -3.0751   -2.2773 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1142   -2.9075   -2.9559 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8054   -1.5720   -4.0377 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4504   -1.6245   -1.0154 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4292   -0.1334   -0.9374 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5554   -0.1917   -2.7079 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7836   -1.6514   -1.7451 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4426    1.9487   -3.2847 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1217    1.6670   -2.8714 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3548    0.6531   -4.0649 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3383    1.9905   -0.7800 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9434    1.3861   -0.5606 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.5820    0.1268    0.6444 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0255   -0.5545    0.7882 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.1957    2.2123    1.6292 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1751    3.3025    1.3474 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.2968    2.8265    2.9966 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2644    0.0559    2.6247 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5862    3.5656    5.0253 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9461    3.6229    5.7498 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7508    5.9127    5.4128 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1537    6.5830    3.2365 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7821    5.2937    3.1270 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3000    5.5293    4.8357 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1742    7.4219    3.5586 H   0  0  0  0  0  0  0  0  0  0  0  0
  6 13  1  0
 17 18  1  0
 13 15  1  1
 17 19  2  0
 16 15  1  0
 19 20  1  0
  7  9  1  0
 20 22  1  0
  6  5  1  0
 20 21  2  0
  9 10  1  0
  6 36  1  1
  5  4  1  0
  7  8  1  6
 10 11  1  0
  2  1  2  3
  7  2  1  0
 11 12  1  0
 13 11  1  0
 13 14  1  0
  2  3  1  0
 22 23  1  0
  4  3  1  0
 24 25  1  0
 16 17  1  0
 23 24  1  0
 24 26  1  0
  6  7  1  0
 26 27  1  0
  9 40  1  0
  9 41  1  0
 10 42  1  0
 10 43  1  0
 11 44  1  1
 15 51  1  0
 15 52  1  0
  5 34  1  0
  5 35  1  0
  4 32  1  0
  4 33  1  0
  3 30  1  0
  3 31  1  0
 16 53  1  0
 16 54  1  0
 18 55  1  0
 18 56  1  0
 18 57  1  0
 19 58  1  0
  8 37  1  0
  8 38  1  0
  8 39  1  0
  1 28  1  0
  1 29  1  0
 12 45  1  0
 12 46  1  0
 12 47  1  0
 14 48  1  0
 14 49  1  0
 14 50  1  0
 23 59  1  0
 23 60  1  0
 25 62  1  0
 24 61  1  1
 26 63  1  0
 26 64  1  0
 27 65  1  0
M  END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₂₃H₃₈O₄

Average Mass

378.5530 Da

Monoisotopic Mass

378.27701 Da

IUPAC Name

(2R)-2,3-dihydroxypropyl (2E)-5-[(1R,2S,4aS,8aS)-1,2,4a-trimethyl-5-methylidene-decahydronaphthalen-1-yl]-3-methylpent-2-enoate

Traditional Name

(2R)-2,3-dihydroxypropyl (2E)-5-[(1R,2S,4aS,8aS)-1,2,4a-trimethyl-5-methylidene-hexahydro-2H-naphthalen-1-yl]-3-methylpent-2-enoate

CAS Registry Number

Not Available

SMILES

[H]OC([H])([H])[C@@]([H])(O[H])C([H])([H])OC(=O)C(\[H])=C(/C([H])([H])[H])C([H])([H])C([H])([H])[C@]1(C([H])([H])[H])[C@@]([H])(C([H])([H])[H])C([H])([H])C([H])([H])[C@@]2(C(=C([H])[H])C([H])([H])C([H])([H])C([H])([H])[C@@]12[H])C([H])([H])[H]

InChI Identifier

InChI=1S/C23H38O4/c1-16(13-21(26)27-15-19(25)14-24)9-11-22(4)18(3)10-12-23(5)17(2)7-6-8-20(22)23/h13,18-20,24-25H,2,6-12,14-15H2,1,3-5H3/b16-13+/t18-,19+,20-,22+,23+/m0/s1

InChI Key

RQBXWYHQAREDEF-HGFXQBBBSA-N

Experimental Spectra

Spectrum Type	Description	Depositor Email	Depositor Organization	Depositor	Deposition Date	View
1D NMR	¹³C NMR Spectrum (1D, 500 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 100 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 200 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 300 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 400 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 600 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 700 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 800 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 900 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 1000 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, CDCl₃, simulated)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum

Predicted Spectra

Not Available

Chemical Shift Submissions

Not Available

Species

Species of Origin

Species Name	Source	Reference
Doris kerguelenensis	JEOL database	Maschek, J. A., et al, Tetrahedron 68, 9095 (2012)

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	4.17	ALOGPS
logP	4.54	ChemAxon
logS	-4.6	ALOGPS
pKa (Strongest Acidic)	13.62	ChemAxon
pKa (Strongest Basic)	-3	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	8	ChemAxon
Refractivity	108.95 m³·mol⁻¹	ChemAxon
Polarizability	44.48 Å³	ChemAxon
Number of Rings	2	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

29215212

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

71474992

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Maschek, J. A., et al. (2012). Maschek, J. A., et al, Tetrahedron 68, 9095 (2012). Tetrahedron.

Showing NP-Card for palmadorin D (NP0041772)

MOL for NP0041772 (palmadorin D)

3D MOL for NP0041772 (palmadorin D)

3D SDF for NP0041772 (palmadorin D)

3D-SDF for NP0041772 (palmadorin D)

PDB for NP0041772 (palmadorin D)

3D PDB for NP0041772 (palmadorin D)

SMILES for NP0041772 (palmadorin D)

INCHI for NP0041772 (palmadorin D)

Structure for NP0041772 (palmadorin D)

3D Structure for NP0041772 (palmadorin D)