NP-MRD: Showing NP-Card for Dendrodolide A (NP0011840)

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Record Information

Version

2.0

Created at

2021-01-05 21:24:11 UTC

Updated at

2026-02-12 00:01:47 UTC

NP-MRD ID

NP0011840

Natural Product DOI

https://doi.org/10.57994/6361

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Dendrodolide A

Provided By

NPAtlas

Description

Dendrodolide A is found in Dendrodochium sp. Dendrodolide A was first documented in 2013 (PMID: 23767968). Based on a literature review very few articles have been published on 2alpha-Methyl-4alpha-methoxy-10beta-hydroxy-1-oxacyclododecane-8-ene-6,12-dione.

Structure

MOL 3D MOL SDF 3D SDF PDB SMILES InChI


  Mrv1652306242116593D          

 38 38  0  0  0  0            999 V2000
    2.3065    0.8511    2.1362 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3309    0.6316    1.1852 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.7492    0.7204   -0.1156 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.2192    1.9509   -0.8539 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.1972    2.2285   -0.6565 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5852    2.9102    0.2643 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1923    1.6615   -1.6083 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.5904    1.6902   -1.1014 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9649    0.9529   -0.0635 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0140    0.0998    0.6025 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.6807    0.5222    1.8998 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3454   -1.3718    0.7067 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.0406   -1.9782    1.1949 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1921   -2.9196    2.0211 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.1898   -1.5189    0.7566 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.7117   -1.5710   -0.5292 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.4360   -2.9239   -0.7081 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6564   -0.5149   -0.9340 C   0  0  1  0  0  0  0  0  0  0  0  0
    3.1390    0.1096    2.0382 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.8934    0.6961    3.1519 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.7589    1.8684    2.0711 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.8600    0.9673   -0.0225 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4317    1.7457   -1.9404 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7956    2.8618   -0.6110 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1462    2.2304   -2.5842 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9060    0.6165   -1.9307 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3172    2.3503   -1.6185 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9903    1.0199    0.2516 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0546    0.0954    0.0291 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2569   -0.2107    2.4120 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6275   -1.7724   -0.2709 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1346   -1.4723    1.4659 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1518   -1.6818   -1.2561 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.1222   -2.8726   -1.5810 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.7050   -3.7302   -0.8625 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.0416   -3.1255    0.1812 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.3509   -0.1795   -1.9750 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.6898   -0.9377   -1.1451 H   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
  3  4  1  0  0  0  0
  4  5  1  0  0  0  0
  5  6  2  0  0  0  0
  5  7  1  0  0  0  0
  7  8  1  0  0  0  0
  8  9  2  0  0  0  0
  9 10  1  0  0  0  0
 10 11  1  0  0  0  0
 10 12  1  0  0  0  0
 12 13  1  0  0  0  0
 13 14  2  0  0  0  0
 13 15  1  0  0  0  0
 15 16  1  0  0  0  0
 16 17  1  0  0  0  0
 16 18  1  0  0  0  0
 18  3  1  0  0  0  0
  1 19  1  0  0  0  0
  1 20  1  0  0  0  0
  1 21  1  0  0  0  0
  3 22  1  1  0  0  0
  4 23  1  0  0  0  0
  4 24  1  0  0  0  0
  7 25  1  0  0  0  0
  7 26  1  0  0  0  0
  8 27  1  0  0  0  0
  9 28  1  0  0  0  0
 10 29  1  6  0  0  0
 11 30  1  0  0  0  0
 12 31  1  0  0  0  0
 12 32  1  0  0  0  0
 16 33  1  6  0  0  0
 17 34  1  0  0  0  0
 17 35  1  0  0  0  0
 17 36  1  0  0  0  0
 18 37  1  0  0  0  0
 18 38  1  0  0  0  0
M  END

     RDKit          3D

 38 38  0  0  0  0  0  0  0  0999 V2000
    2.3065    0.8511    2.1362 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3309    0.6316    1.1852 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.7492    0.7204   -0.1156 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.2192    1.9509   -0.8539 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1972    2.2285   -0.6565 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5852    2.9102    0.2643 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1923    1.6615   -1.6083 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5904    1.6902   -1.1014 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9649    0.9529   -0.0635 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0140    0.0998    0.6025 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.6807    0.5222    1.8998 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3454   -1.3718    0.7067 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0406   -1.9782    1.1949 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1921   -2.9196    2.0211 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.1898   -1.5189    0.7566 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.7117   -1.5710   -0.5292 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.4360   -2.9239   -0.7081 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6564   -0.5149   -0.9340 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1390    0.1096    2.0382 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.8934    0.6961    3.1519 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.7589    1.8684    2.0711 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.8600    0.9673   -0.0225 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4317    1.7457   -1.9404 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7956    2.8618   -0.6110 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1462    2.2304   -2.5842 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9060    0.6165   -1.9307 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3172    2.3503   -1.6185 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9903    1.0199    0.2516 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0546    0.0954    0.0291 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2569   -0.2107    2.4120 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6275   -1.7724   -0.2709 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1346   -1.4723    1.4659 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1518   -1.6818   -1.2561 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.1222   -2.8726   -1.5810 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.7050   -3.7302   -0.8625 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.0416   -3.1255    0.1812 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.3509   -0.1795   -1.9750 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.6898   -0.9377   -1.1451 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  3  4  1  0
  4  5  1  0
  5  6  2  0
  5  7  1  0
  7  8  1  0
  8  9  2  0
  9 10  1  0
 10 11  1  0
 10 12  1  0
 12 13  1  0
 13 14  2  0
 13 15  1  0
 15 16  1  0
 16 17  1  0
 16 18  1  0
 18  3  1  0
  1 19  1  0
  1 20  1  0
  1 21  1  0
  3 22  1  1
  4 23  1  0
  4 24  1  0
  7 25  1  0
  7 26  1  0
  8 27  1  0
  9 28  1  0
 10 29  1  6
 11 30  1  0
 12 31  1  0
 12 32  1  0
 16 33  1  6
 17 34  1  0
 17 35  1  0
 17 36  1  0
 18 37  1  0
 18 38  1  0
M  END


  Mrv1652306242116593D          

 38 38  0  0  0  0            999 V2000
    2.3065    0.8511    2.1362 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3309    0.6316    1.1852 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.7492    0.7204   -0.1156 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.2192    1.9509   -0.8539 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.1972    2.2285   -0.6565 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5852    2.9102    0.2643 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1923    1.6615   -1.6083 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.5904    1.6902   -1.1014 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9649    0.9529   -0.0635 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0140    0.0998    0.6025 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.6807    0.5222    1.8998 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3454   -1.3718    0.7067 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.0406   -1.9782    1.1949 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1921   -2.9196    2.0211 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.1898   -1.5189    0.7566 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.7117   -1.5710   -0.5292 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.4360   -2.9239   -0.7081 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6564   -0.5149   -0.9340 C   0  0  1  0  0  0  0  0  0  0  0  0
    3.1390    0.1096    2.0382 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.8934    0.6961    3.1519 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.7589    1.8684    2.0711 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.8600    0.9673   -0.0225 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4317    1.7457   -1.9404 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7956    2.8618   -0.6110 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1462    2.2304   -2.5842 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9060    0.6165   -1.9307 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3172    2.3503   -1.6185 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9903    1.0199    0.2516 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0546    0.0954    0.0291 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2569   -0.2107    2.4120 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6275   -1.7724   -0.2709 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1346   -1.4723    1.4659 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1518   -1.6818   -1.2561 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.1222   -2.8726   -1.5810 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.7050   -3.7302   -0.8625 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.0416   -3.1255    0.1812 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.3509   -0.1795   -1.9750 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.6898   -0.9377   -1.1451 H   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
  3  4  1  0  0  0  0
  4  5  1  0  0  0  0
  5  6  2  0  0  0  0
  5  7  1  0  0  0  0
  7  8  1  0  0  0  0
  8  9  2  0  0  0  0
  9 10  1  0  0  0  0
 10 11  1  0  0  0  0
 10 12  1  0  0  0  0
 12 13  1  0  0  0  0
 13 14  2  0  0  0  0
 13 15  1  0  0  0  0
 15 16  1  0  0  0  0
 16 17  1  0  0  0  0
 16 18  1  0  0  0  0
 18  3  1  0  0  0  0
  1 19  1  0  0  0  0
  1 20  1  0  0  0  0
  1 21  1  0  0  0  0
  3 22  1  1  0  0  0
  4 23  1  0  0  0  0
  4 24  1  0  0  0  0
  7 25  1  0  0  0  0
  7 26  1  0  0  0  0
  8 27  1  0  0  0  0
  9 28  1  0  0  0  0
 10 29  1  6  0  0  0
 11 30  1  0  0  0  0
 12 31  1  0  0  0  0
 12 32  1  0  0  0  0
 16 33  1  6  0  0  0
 17 34  1  0  0  0  0
 17 35  1  0  0  0  0
 17 36  1  0  0  0  0
 18 37  1  0  0  0  0
 18 38  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0011840

> <DATABASE_NAME>
NP-MRD

> <SMILES>
[H]O[C@]1([H])\C([H])=C([H])/C([H])([H])C(=O)C([H])([H])[C@@]([H])(OC([H])([H])[H])C([H])([H])[C@]([H])(OC(=O)C1([H])[H])C([H])([H])[H]

> <INCHI_IDENTIFIER>
InChI=1S/C13H20O5/c1-9-6-12(17-2)7-10(14)4-3-5-11(15)8-13(16)18-9/h3,5,9,11-12,15H,4,6-8H2,1-2H3/b5-3-/t9-,11-,12+/m1/s1

> <INCHI_KEY>
FRGUXEKVISRIEL-NZCWJKEZSA-N

> <FORMULA>
C13H20O5

> <MOLECULAR_WEIGHT>
256.298

> <EXACT_MASS>
256.131073744

> <JCHEM_ACCEPTOR_COUNT>
4

> <JCHEM_ATOM_COUNT>
38

> <JCHEM_AVERAGE_POLARIZABILITY>
26.118938748522925

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(4S,5Z,10S,12R)-4-hydroxy-10-methoxy-12-methyl-1-oxacyclododec-5-ene-2,8-dione

> <ALOGPS_LOGP>
0.38

> <JCHEM_LOGP>
0.4015854269999998

> <ALOGPS_LOGS>
-1.60

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
1

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
15.657400190749797

> <JCHEM_PKA_STRONGEST_ACIDIC>
14.517955880417933

> <JCHEM_PKA_STRONGEST_BASIC>
-2.9567699474960367

> <JCHEM_POLAR_SURFACE_AREA>
72.83

> <JCHEM_REFRACTIVITY>
66.2765

> <JCHEM_ROTATABLE_BOND_COUNT>
1

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
6.51e+00 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(4S,5Z,10S,12R)-4-hydroxy-10-methoxy-12-methyl-1-oxacyclododec-5-ene-2,8-dione

> <JCHEM_VEBER_RULE>
0

$$$$

     RDKit          3D

 38 38  0  0  0  0  0  0  0  0999 V2000
    2.3065    0.8511    2.1362 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3309    0.6316    1.1852 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.7492    0.7204   -0.1156 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.2192    1.9509   -0.8539 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1972    2.2285   -0.6565 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5852    2.9102    0.2643 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1923    1.6615   -1.6083 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5904    1.6902   -1.1014 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9649    0.9529   -0.0635 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0140    0.0998    0.6025 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.6807    0.5222    1.8998 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3454   -1.3718    0.7067 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0406   -1.9782    1.1949 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1921   -2.9196    2.0211 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.1898   -1.5189    0.7566 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.7117   -1.5710   -0.5292 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.4360   -2.9239   -0.7081 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6564   -0.5149   -0.9340 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1390    0.1096    2.0382 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.8934    0.6961    3.1519 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.7589    1.8684    2.0711 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.8600    0.9673   -0.0225 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4317    1.7457   -1.9404 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7956    2.8618   -0.6110 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1462    2.2304   -2.5842 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9060    0.6165   -1.9307 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3172    2.3503   -1.6185 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9903    1.0199    0.2516 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0546    0.0954    0.0291 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2569   -0.2107    2.4120 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6275   -1.7724   -0.2709 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1346   -1.4723    1.4659 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1518   -1.6818   -1.2561 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.1222   -2.8726   -1.5810 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.7050   -3.7302   -0.8625 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.0416   -3.1255    0.1812 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.3509   -0.1795   -1.9750 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.6898   -0.9377   -1.1451 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  3  4  1  0
  4  5  1  0
  5  6  2  0
  5  7  1  0
  7  8  1  0
  8  9  2  0
  9 10  1  0
 10 11  1  0
 10 12  1  0
 12 13  1  0
 13 14  2  0
 13 15  1  0
 15 16  1  0
 16 17  1  0
 16 18  1  0
 18  3  1  0
  1 19  1  0
  1 20  1  0
  1 21  1  0
  3 22  1  1
  4 23  1  0
  4 24  1  0
  7 25  1  0
  7 26  1  0
  8 27  1  0
  9 28  1  0
 10 29  1  6
 11 30  1  0
 12 31  1  0
 12 32  1  0
 16 33  1  6
 17 34  1  0
 17 35  1  0
 17 36  1  0
 18 37  1  0
 18 38  1  0
M  END

HEADER    PROTEIN                                 24-JUN-21   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   24-JUN-21         0                                  
HETATM    1  C   UNK     0       2.307   0.851   2.136  0.00  0.00           C+0
HETATM    2  O   UNK     0       1.331   0.632   1.185  0.00  0.00           O+0
HETATM    3  C   UNK     0       1.749   0.720  -0.116  0.00  0.00           C+0
HETATM    4  C   UNK     0       1.219   1.951  -0.854  0.00  0.00           C+0
HETATM    5  C   UNK     0      -0.197   2.228  -0.657  0.00  0.00           C+0
HETATM    6  O   UNK     0      -0.585   2.910   0.264  0.00  0.00           O+0
HETATM    7  C   UNK     0      -1.192   1.662  -1.608  0.00  0.00           C+0
HETATM    8  C   UNK     0      -2.590   1.690  -1.101  0.00  0.00           C+0
HETATM    9  C   UNK     0      -2.965   0.953  -0.064  0.00  0.00           C+0
HETATM   10  C   UNK     0      -2.014   0.100   0.603  0.00  0.00           C+0
HETATM   11  O   UNK     0      -1.681   0.522   1.900  0.00  0.00           O+0
HETATM   12  C   UNK     0      -2.345  -1.372   0.707  0.00  0.00           C+0
HETATM   13  C   UNK     0      -1.041  -1.978   1.195  0.00  0.00           C+0
HETATM   14  O   UNK     0      -1.192  -2.920   2.021  0.00  0.00           O+0
HETATM   15  O   UNK     0       0.190  -1.519   0.757  0.00  0.00           O+0
HETATM   16  C   UNK     0       0.712  -1.571  -0.529  0.00  0.00           C+0
HETATM   17  C   UNK     0       1.436  -2.924  -0.708  0.00  0.00           C+0
HETATM   18  C   UNK     0       1.656  -0.515  -0.934  0.00  0.00           C+0
HETATM   19  H   UNK     0       3.139   0.110   2.038  0.00  0.00           H+0
HETATM   20  H   UNK     0       1.893   0.696   3.152  0.00  0.00           H+0
HETATM   21  H   UNK     0       2.759   1.868   2.071  0.00  0.00           H+0
HETATM   22  H   UNK     0       2.860   0.967  -0.023  0.00  0.00           H+0
HETATM   23  H   UNK     0       1.432   1.746  -1.940  0.00  0.00           H+0
HETATM   24  H   UNK     0       1.796   2.862  -0.611  0.00  0.00           H+0
HETATM   25  H   UNK     0      -1.146   2.230  -2.584  0.00  0.00           H+0
HETATM   26  H   UNK     0      -0.906   0.617  -1.931  0.00  0.00           H+0
HETATM   27  H   UNK     0      -3.317   2.350  -1.619  0.00  0.00           H+0
HETATM   28  H   UNK     0      -3.990   1.020   0.252  0.00  0.00           H+0
HETATM   29  H   UNK     0      -1.055   0.095   0.029  0.00  0.00           H+0
HETATM   30  H   UNK     0      -1.257  -0.211   2.412  0.00  0.00           H+0
HETATM   31  H   UNK     0      -2.628  -1.772  -0.271  0.00  0.00           H+0
HETATM   32  H   UNK     0      -3.135  -1.472   1.466  0.00  0.00           H+0
HETATM   33  H   UNK     0      -0.152  -1.682  -1.256  0.00  0.00           H+0
HETATM   34  H   UNK     0       2.122  -2.873  -1.581  0.00  0.00           H+0
HETATM   35  H   UNK     0       0.705  -3.730  -0.863  0.00  0.00           H+0
HETATM   36  H   UNK     0       2.042  -3.126   0.181  0.00  0.00           H+0
HETATM   37  H   UNK     0       1.351  -0.180  -1.975  0.00  0.00           H+0
HETATM   38  H   UNK     0       2.690  -0.938  -1.145  0.00  0.00           H+0
CONECT    1    2   19   20   21                                             
CONECT    2    1    3                                                       
CONECT    3    2    4   18   22                                             
CONECT    4    3    5   23   24                                             
CONECT    5    4    6    7                                                  
CONECT    6    5                                                            
CONECT    7    5    8   25   26                                             
CONECT    8    7    9   27                                                  
CONECT    9    8   10   28                                                  
CONECT   10    9   11   12   29                                             
CONECT   11   10   30                                                       
CONECT   12   10   13   31   32                                             
CONECT   13   12   14   15                                                  
CONECT   14   13                                                            
CONECT   15   13   16                                                       
CONECT   16   15   17   18   33                                             
CONECT   17   16   34   35   36                                             
CONECT   18   16    3   37   38                                             
CONECT   19    1                                                            
CONECT   20    1                                                            
CONECT   21    1                                                            
CONECT   22    3                                                            
CONECT   23    4                                                            
CONECT   24    4                                                            
CONECT   25    7                                                            
CONECT   26    7                                                            
CONECT   27    8                                                            
CONECT   28    9                                                            
CONECT   29   10                                                            
CONECT   30   11                                                            
CONECT   31   12                                                            
CONECT   32   12                                                            
CONECT   33   16                                                            
CONECT   34   17                                                            
CONECT   35   17                                                            
CONECT   36   17                                                            
CONECT   37   18                                                            
CONECT   38   18                                                            
MASTER        0    0    0    0    0    0    0    0   38    0   76    0
END

RDKit          3D

38 38  0  0  0  0  0  0  0  0999 V2000
    2.3065    0.8511    2.1362 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3309    0.6316    1.1852 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.7492    0.7204   -0.1156 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.2192    1.9509   -0.8539 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1972    2.2285   -0.6565 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5852    2.9102    0.2643 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1923    1.6615   -1.6083 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5904    1.6902   -1.1014 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9649    0.9529   -0.0635 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0140    0.0998    0.6025 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.6807    0.5222    1.8998 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3454   -1.3718    0.7067 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0406   -1.9782    1.1949 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1921   -2.9196    2.0211 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.1898   -1.5189    0.7566 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.7117   -1.5710   -0.5292 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.4360   -2.9239   -0.7081 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6564   -0.5149   -0.9340 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1390    0.1096    2.0382 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.8934    0.6961    3.1519 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.7589    1.8684    2.0711 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.8600    0.9673   -0.0225 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4317    1.7457   -1.9404 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7956    2.8618   -0.6110 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1462    2.2304   -2.5842 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9060    0.6165   -1.9307 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3172    2.3503   -1.6185 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9903    1.0199    0.2516 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0546    0.0954    0.0291 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2569   -0.2107    2.4120 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6275   -1.7724   -0.2709 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1346   -1.4723    1.4659 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1518   -1.6818   -1.2561 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.1222   -2.8726   -1.5810 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.7050   -3.7302   -0.8625 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.0416   -3.1255    0.1812 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.3509   -0.1795   -1.9750 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.6898   -0.9377   -1.1451 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  3  4  1  0
  4  5  1  0
  5  6  2  0
  5  7  1  0
  7  8  1  0
  8  9  2  0
  9 10  1  0
 10 11  1  0
 10 12  1  0
 12 13  1  0
 13 14  2  0
 13 15  1  0
 15 16  1  0
 16 17  1  0
 16 18  1  0
 18  3  1  0
  1 19  1  0
  1 20  1  0
  1 21  1  0
  3 22  1  1
  4 23  1  0
  4 24  1  0
  7 25  1  0
  7 26  1  0
  8 27  1  0
  9 28  1  0
 10 29  1  6
 11 30  1  0
 12 31  1  0
 12 32  1  0
 16 33  1  6
 17 34  1  0
 17 35  1  0
 17 36  1  0
 18 37  1  0
 18 38  1  0
M  END

View in JSmol View NMR Assignments

Synonyms

Value	Source
2a-Methyl-4a-methoxy-10b-hydroxy-1-oxacyclododecane-8-ene-6,12-dione	Generator
2Α-methyl-4α-methoxy-10β-hydroxy-1-oxacyclododecane-8-ene-6,12-dione	Generator

Chemical Formula

C₁₃H₂₀O₅

Average Mass

256.2980 Da

Monoisotopic Mass

256.13107 Da

IUPAC Name

(4S,5Z,10S,12R)-4-hydroxy-10-methoxy-12-methyl-1-oxacyclododec-5-ene-2,8-dione

Traditional Name

(4S,5Z,10S,12R)-4-hydroxy-10-methoxy-12-methyl-1-oxacyclododec-5-ene-2,8-dione

CAS Registry Number

Not Available

SMILES

CO[C@H]1C[C@@H](C)OC(=O)C[C@H](O)\C=C/CC(=O)C1

InChI Identifier

InChI=1S/C13H20O5/c1-9-6-12(17-2)7-10(14)4-3-5-11(15)8-13(16)18-9/h3,5,9,11-12,15H,4,6-8H2,1-2H3/b5-3-/t9-,11-,12+/m1/s1

InChI Key

FRGUXEKVISRIEL-NZCWJKEZSA-N

Experimental Spectra

Spectrum Type	Description	Depositor Email	Depositor Organization	Depositor	Deposition Date	View
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, 150 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, 175 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	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, 225 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, 125 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	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, 900 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, 400 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, 500 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, 800 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, 600 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

Spectrum Type	Description	Depositor Email	Depositor Organization	Depositor	Deposition Date	View
1D NMR	¹H NMR Spectrum (1D, 500.0, Chloroform-d, simulated)	epoynton@sfu.ca	Not Available	Not Available	2026-02-11	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 125.0, Chloroform-d, simulated)	epoynton@sfu.ca	Not Available	Not Available	2026-02-11	View Spectrum

Species

Species of Origin

Species Name	Source	Reference
Dendrodochium sp.		Not Available
Dendrodochium sp.	NPAtlas	23767968

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	0.38	ALOGPS
logP	0.4	ChemAxon
logS	-1.6	ALOGPS
pKa (Strongest Acidic)	14.52	ChemAxon
pKa (Strongest Basic)	-3	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	4	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	72.83 Å²	ChemAxon
Rotatable Bond Count	1	ChemAxon
Refractivity	66.28 m³·mol⁻¹	ChemAxon
Polarizability	26.12 Å³	ChemAxon
Number of Rings	1	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

NPAtlas ID

NPA014337

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

102433170

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Sun P, Xu DX, Mandi A, Kurtan T, Li TJ, Schulz B, Zhang W: Structure, absolute configuration, and conformational study of 12-membered macrolides from the fungus Dendrodochium sp. associated with the sea cucumber Holothuria nobilis Selenka. J Org Chem. 2013 Jul 19;78(14):7030-47. doi: 10.1021/jo400861j. Epub 2013 Jun 26. [PubMed:23767968 ]
DOI: 10.1021/jo400861j
PMID: 23767968

Showing NP-Card for Dendrodolide A (NP0011840)

MOL for NP0011840 (Dendrodolide A)

3D MOL for NP0011840 (Dendrodolide A)

3D SDF for NP0011840 (Dendrodolide A)

3D-SDF for NP0011840 (Dendrodolide A)

PDB for NP0011840 (Dendrodolide A)

3D PDB for NP0011840 (Dendrodolide A)

SMILES for NP0011840 (Dendrodolide A)

INCHI for NP0011840 (Dendrodolide A)

Structure for NP0011840 (Dendrodolide A)

3D Structure for NP0011840 (Dendrodolide A)