NP-MRD: Showing NP-Card for Rubiginone D2 (NP0003318)

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Record Information

Version

2.0

Created at

2020-12-09 00:33:04 UTC

Updated at

2021-07-15 16:46:06 UTC

NP-MRD ID

NP0003318

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Rubiginone D2

Provided By

NPAtlas

Description

Rubiginone D2 is found in Streptomyces. Rubiginone D2 was first documented in 2000 (PMID: 10866213). Based on a literature review very few articles have been published on (2S,3S,4R)-2,4-dihydroxy-8-methoxy-3-methyl-1,2,3,4,7,12-hexahydrotetraphene-1,7,12-trione.

Structure

MOL 3D MOL SDF 3D SDF PDB SMILES InChI


  Mrv1652306242117463D          

 42 45  0  0  0  0            999 V2000
    5.9367   -1.9316    0.1209 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.5589   -1.6561    0.2315 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.0128   -0.4230   -0.0582 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.8452    0.5914   -0.4763 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.3503    1.8459   -0.7792 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.0044    2.0895   -0.6624 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1543    1.1046   -0.2505 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6720   -0.1451    0.0476 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.8047   -1.2247    0.4927 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2808   -2.3586    0.7602 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.3770   -0.9720    0.6237 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4408   -2.0006    1.0377 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8232   -1.7765    1.1637 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3396   -0.5495    0.8788 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4857    0.4935    0.4570 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1333    0.2961    0.3219 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7153    1.3788   -0.1252 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3575    2.5279   -0.4245 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0773    1.8105    0.2570 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4470    2.7968    0.6833 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3894    1.8323   -0.4386 C   0  0  1  0  0  0  0  0  0  0  0  0
   -3.1123    1.7755   -1.8158 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.2635    0.6981   -0.0777 C   0  0  1  0  0  0  0  0  0  0  0  0
   -4.5116   -0.1527   -1.3175 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7534   -0.2509    0.9744 C   0  0  1  0  0  0  0  0  0  0  0  0
   -4.4562   -1.4598    0.9537 O   0  0  0  0  0  0  0  0  0  0  0  0
    6.4911   -1.1143    0.6529 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.2182   -2.8929    0.5728 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.2946   -1.8700   -0.9419 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.8896    0.4035   -0.5673 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.0016    2.6277   -1.1028 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.5770    3.0749   -0.8948 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0716   -2.9793    1.2725 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4423   -2.6005    1.4886 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9245    2.7877   -0.2115 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2111    1.4057   -1.9762 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.2754    1.0870    0.2037 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0385   -1.1055   -1.0333 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0905    0.4018   -2.0891 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5555   -0.4635   -1.7760 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0171    0.2198    1.9677 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6825   -1.7743    1.8561 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  2  0  0  0  0
  4  5  1  0  0  0  0
  5  6  2  0  0  0  0
  6  7  1  0  0  0  0
  7  8  2  0  0  0  0
  8  9  1  0  0  0  0
  9 10  2  0  0  0  0
  9 11  1  0  0  0  0
 11 12  2  0  0  0  0
 12 13  1  0  0  0  0
 13 14  2  0  0  0  0
 14 15  1  0  0  0  0
 15 16  2  0  0  0  0
 16 17  1  0  0  0  0
 17 18  2  0  0  0  0
 15 19  1  0  0  0  0
 19 20  2  0  0  0  0
 19 21  1  0  0  0  0
 21 22  1  0  0  0  0
 21 23  1  0  0  0  0
 23 24  1  0  0  0  0
 23 25  1  0  0  0  0
 25 26  1  0  0  0  0
  8  3  1  0  0  0  0
 16 11  1  0  0  0  0
 17  7  1  0  0  0  0
 25 14  1  0  0  0  0
  1 27  1  0  0  0  0
  1 28  1  0  0  0  0
  1 29  1  0  0  0  0
  4 30  1  0  0  0  0
  5 31  1  0  0  0  0
  6 32  1  0  0  0  0
 12 33  1  0  0  0  0
 13 34  1  0  0  0  0
 21 35  1  6  0  0  0
 22 36  1  0  0  0  0
 23 37  1  1  0  0  0
 24 38  1  0  0  0  0
 24 39  1  0  0  0  0
 24 40  1  0  0  0  0
 25 41  1  1  0  0  0
 26 42  1  0  0  0  0
M  END

     RDKit          3D

 42 45  0  0  0  0  0  0  0  0999 V2000
    5.9367   -1.9316    0.1209 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.5589   -1.6561    0.2315 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.0128   -0.4230   -0.0582 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.8452    0.5914   -0.4763 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.3503    1.8459   -0.7792 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.0044    2.0895   -0.6624 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1543    1.1046   -0.2505 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6720   -0.1451    0.0476 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.8047   -1.2247    0.4927 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2808   -2.3586    0.7602 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.3770   -0.9720    0.6237 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4408   -2.0006    1.0377 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8232   -1.7765    1.1637 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3396   -0.5495    0.8788 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4857    0.4935    0.4570 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1333    0.2961    0.3219 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7153    1.3788   -0.1252 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3575    2.5279   -0.4245 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0773    1.8105    0.2570 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4470    2.7968    0.6833 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3894    1.8323   -0.4386 C   0  0  1  0  0  0  0  0  0  0  0  0
   -3.1123    1.7755   -1.8158 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.2635    0.6981   -0.0777 C   0  0  1  0  0  0  0  0  0  0  0  0
   -4.5116   -0.1527   -1.3175 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7534   -0.2509    0.9744 C   0  0  1  0  0  0  0  0  0  0  0  0
   -4.4562   -1.4598    0.9537 O   0  0  0  0  0  0  0  0  0  0  0  0
    6.4911   -1.1143    0.6529 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.2182   -2.8929    0.5728 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.2946   -1.8700   -0.9419 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.8896    0.4035   -0.5673 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.0016    2.6277   -1.1028 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.5770    3.0749   -0.8948 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0716   -2.9793    1.2725 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4423   -2.6005    1.4886 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9245    2.7877   -0.2115 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2111    1.4057   -1.9762 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.2754    1.0870    0.2037 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0385   -1.1055   -1.0333 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0905    0.4018   -2.0891 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5555   -0.4635   -1.7760 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0171    0.2198    1.9677 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6825   -1.7743    1.8561 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  3  4  2  0
  4  5  1  0
  5  6  2  0
  6  7  1  0
  7  8  2  0
  8  9  1  0
  9 10  2  0
  9 11  1  0
 11 12  2  0
 12 13  1  0
 13 14  2  0
 14 15  1  0
 15 16  2  0
 16 17  1  0
 17 18  2  0
 15 19  1  0
 19 20  2  0
 19 21  1  0
 21 22  1  0
 21 23  1  0
 23 24  1  0
 23 25  1  0
 25 26  1  0
  8  3  1  0
 16 11  1  0
 17  7  1  0
 25 14  1  0
  1 27  1  0
  1 28  1  0
  1 29  1  0
  4 30  1  0
  5 31  1  0
  6 32  1  0
 12 33  1  0
 13 34  1  0
 21 35  1  6
 22 36  1  0
 23 37  1  1
 24 38  1  0
 24 39  1  0
 24 40  1  0
 25 41  1  1
 26 42  1  0
M  END


  Mrv1652306242117463D          

 42 45  0  0  0  0            999 V2000
    5.9367   -1.9316    0.1209 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.5589   -1.6561    0.2315 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.0128   -0.4230   -0.0582 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.8452    0.5914   -0.4763 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.3503    1.8459   -0.7792 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.0044    2.0895   -0.6624 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1543    1.1046   -0.2505 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6720   -0.1451    0.0476 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.8047   -1.2247    0.4927 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2808   -2.3586    0.7602 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.3770   -0.9720    0.6237 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4408   -2.0006    1.0377 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8232   -1.7765    1.1637 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3396   -0.5495    0.8788 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4857    0.4935    0.4570 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1333    0.2961    0.3219 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7153    1.3788   -0.1252 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3575    2.5279   -0.4245 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0773    1.8105    0.2570 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4470    2.7968    0.6833 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3894    1.8323   -0.4386 C   0  0  1  0  0  0  0  0  0  0  0  0
   -3.1123    1.7755   -1.8158 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.2635    0.6981   -0.0777 C   0  0  1  0  0  0  0  0  0  0  0  0
   -4.5116   -0.1527   -1.3175 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7534   -0.2509    0.9744 C   0  0  1  0  0  0  0  0  0  0  0  0
   -4.4562   -1.4598    0.9537 O   0  0  0  0  0  0  0  0  0  0  0  0
    6.4911   -1.1143    0.6529 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.2182   -2.8929    0.5728 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.2946   -1.8700   -0.9419 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.8896    0.4035   -0.5673 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.0016    2.6277   -1.1028 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.5770    3.0749   -0.8948 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0716   -2.9793    1.2725 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4423   -2.6005    1.4886 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9245    2.7877   -0.2115 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2111    1.4057   -1.9762 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.2754    1.0870    0.2037 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0385   -1.1055   -1.0333 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0905    0.4018   -2.0891 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5555   -0.4635   -1.7760 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0171    0.2198    1.9677 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6825   -1.7743    1.8561 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  2  0  0  0  0
  4  5  1  0  0  0  0
  5  6  2  0  0  0  0
  6  7  1  0  0  0  0
  7  8  2  0  0  0  0
  8  9  1  0  0  0  0
  9 10  2  0  0  0  0
  9 11  1  0  0  0  0
 11 12  2  0  0  0  0
 12 13  1  0  0  0  0
 13 14  2  0  0  0  0
 14 15  1  0  0  0  0
 15 16  2  0  0  0  0
 16 17  1  0  0  0  0
 17 18  2  0  0  0  0
 15 19  1  0  0  0  0
 19 20  2  0  0  0  0
 19 21  1  0  0  0  0
 21 22  1  0  0  0  0
 21 23  1  0  0  0  0
 23 24  1  0  0  0  0
 23 25  1  0  0  0  0
 25 26  1  0  0  0  0
  8  3  1  0  0  0  0
 16 11  1  0  0  0  0
 17  7  1  0  0  0  0
 25 14  1  0  0  0  0
  1 27  1  0  0  0  0
  1 28  1  0  0  0  0
  1 29  1  0  0  0  0
  4 30  1  0  0  0  0
  5 31  1  0  0  0  0
  6 32  1  0  0  0  0
 12 33  1  0  0  0  0
 13 34  1  0  0  0  0
 21 35  1  6  0  0  0
 22 36  1  0  0  0  0
 23 37  1  1  0  0  0
 24 38  1  0  0  0  0
 24 39  1  0  0  0  0
 24 40  1  0  0  0  0
 25 41  1  1  0  0  0
 26 42  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0003318

> <DATABASE_NAME>
NP-MRD

> <SMILES>
[H]O[C@]1([H])C(=O)C2=C3C(=O)C4=C(C(=O)C3=C([H])C([H])=C2[C@]([H])(O[H])[C@]1([H])C([H])([H])[H])C(OC([H])([H])[H])=C([H])C([H])=C4[H]

> <INCHI_IDENTIFIER>
InChI=1S/C20H16O6/c1-8-16(21)10-6-7-11-14(15(10)20(25)17(8)22)19(24)9-4-3-5-12(26-2)13(9)18(11)23/h3-8,16-17,21-22H,1-2H3/t8-,16+,17-/m0/s1

> <INCHI_KEY>
DWIWLEGGRHIXAH-KDLNQGCSSA-N

> <FORMULA>
C20H16O6

> <MOLECULAR_WEIGHT>
352.342

> <EXACT_MASS>
352.094688235

> <JCHEM_ACCEPTOR_COUNT>
6

> <JCHEM_ATOM_COUNT>
42

> <JCHEM_AVERAGE_POLARIZABILITY>
35.771821324652876

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(2S,3S,4R)-2,4-dihydroxy-8-methoxy-3-methyl-1,2,3,4,7,12-hexahydrotetraphene-1,7,12-trione

> <ALOGPS_LOGP>
1.95

> <JCHEM_LOGP>
1.3735662269999998

> <ALOGPS_LOGS>
-3.12

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
4

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
13.900975119754605

> <JCHEM_PKA_STRONGEST_ACIDIC>
12.844685025324125

> <JCHEM_PKA_STRONGEST_BASIC>
-3.3567897771700936

> <JCHEM_POLAR_SURFACE_AREA>
100.9

> <JCHEM_REFRACTIVITY>
93.2634

> <JCHEM_ROTATABLE_BOND_COUNT>
1

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
2.70e-01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(2S,3S,4R)-2,4-dihydroxy-8-methoxy-3-methyl-3,4-dihydro-2H-tetraphene-1,7,12-trione

> <JCHEM_VEBER_RULE>
0

$$$$

     RDKit          3D

 42 45  0  0  0  0  0  0  0  0999 V2000
    5.9367   -1.9316    0.1209 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.5589   -1.6561    0.2315 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.0128   -0.4230   -0.0582 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.8452    0.5914   -0.4763 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.3503    1.8459   -0.7792 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.0044    2.0895   -0.6624 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1543    1.1046   -0.2505 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6720   -0.1451    0.0476 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.8047   -1.2247    0.4927 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2808   -2.3586    0.7602 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.3770   -0.9720    0.6237 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4408   -2.0006    1.0377 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8232   -1.7765    1.1637 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3396   -0.5495    0.8788 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4857    0.4935    0.4570 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1333    0.2961    0.3219 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7153    1.3788   -0.1252 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3575    2.5279   -0.4245 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0773    1.8105    0.2570 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4470    2.7968    0.6833 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3894    1.8323   -0.4386 C   0  0  1  0  0  0  0  0  0  0  0  0
   -3.1123    1.7755   -1.8158 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.2635    0.6981   -0.0777 C   0  0  1  0  0  0  0  0  0  0  0  0
   -4.5116   -0.1527   -1.3175 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7534   -0.2509    0.9744 C   0  0  1  0  0  0  0  0  0  0  0  0
   -4.4562   -1.4598    0.9537 O   0  0  0  0  0  0  0  0  0  0  0  0
    6.4911   -1.1143    0.6529 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.2182   -2.8929    0.5728 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.2946   -1.8700   -0.9419 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.8896    0.4035   -0.5673 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.0016    2.6277   -1.1028 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.5770    3.0749   -0.8948 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0716   -2.9793    1.2725 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4423   -2.6005    1.4886 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9245    2.7877   -0.2115 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2111    1.4057   -1.9762 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.2754    1.0870    0.2037 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0385   -1.1055   -1.0333 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0905    0.4018   -2.0891 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5555   -0.4635   -1.7760 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0171    0.2198    1.9677 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6825   -1.7743    1.8561 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  3  4  2  0
  4  5  1  0
  5  6  2  0
  6  7  1  0
  7  8  2  0
  8  9  1  0
  9 10  2  0
  9 11  1  0
 11 12  2  0
 12 13  1  0
 13 14  2  0
 14 15  1  0
 15 16  2  0
 16 17  1  0
 17 18  2  0
 15 19  1  0
 19 20  2  0
 19 21  1  0
 21 22  1  0
 21 23  1  0
 23 24  1  0
 23 25  1  0
 25 26  1  0
  8  3  1  0
 16 11  1  0
 17  7  1  0
 25 14  1  0
  1 27  1  0
  1 28  1  0
  1 29  1  0
  4 30  1  0
  5 31  1  0
  6 32  1  0
 12 33  1  0
 13 34  1  0
 21 35  1  6
 22 36  1  0
 23 37  1  1
 24 38  1  0
 24 39  1  0
 24 40  1  0
 25 41  1  1
 26 42  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       5.937  -1.932   0.121  0.00  0.00           C+0
HETATM    2  O   UNK     0       4.559  -1.656   0.232  0.00  0.00           O+0
HETATM    3  C   UNK     0       4.013  -0.423  -0.058  0.00  0.00           C+0
HETATM    4  C   UNK     0       4.845   0.591  -0.476  0.00  0.00           C+0
HETATM    5  C   UNK     0       4.350   1.846  -0.779  0.00  0.00           C+0
HETATM    6  C   UNK     0       3.004   2.090  -0.662  0.00  0.00           C+0
HETATM    7  C   UNK     0       2.154   1.105  -0.251  0.00  0.00           C+0
HETATM    8  C   UNK     0       2.672  -0.145   0.048  0.00  0.00           C+0
HETATM    9  C   UNK     0       1.805  -1.225   0.493  0.00  0.00           C+0
HETATM   10  O   UNK     0       2.281  -2.359   0.760  0.00  0.00           O+0
HETATM   11  C   UNK     0       0.377  -0.972   0.624  0.00  0.00           C+0
HETATM   12  C   UNK     0      -0.441  -2.001   1.038  0.00  0.00           C+0
HETATM   13  C   UNK     0      -1.823  -1.777   1.164  0.00  0.00           C+0
HETATM   14  C   UNK     0      -2.340  -0.550   0.879  0.00  0.00           C+0
HETATM   15  C   UNK     0      -1.486   0.494   0.457  0.00  0.00           C+0
HETATM   16  C   UNK     0      -0.133   0.296   0.322  0.00  0.00           C+0
HETATM   17  C   UNK     0       0.715   1.379  -0.125  0.00  0.00           C+0
HETATM   18  O   UNK     0       0.358   2.528  -0.425  0.00  0.00           O+0
HETATM   19  C   UNK     0      -2.077   1.811   0.257  0.00  0.00           C+0
HETATM   20  O   UNK     0      -1.447   2.797   0.683  0.00  0.00           O+0
HETATM   21  C   UNK     0      -3.389   1.832  -0.439  0.00  0.00           C+0
HETATM   22  O   UNK     0      -3.112   1.776  -1.816  0.00  0.00           O+0
HETATM   23  C   UNK     0      -4.263   0.698  -0.078  0.00  0.00           C+0
HETATM   24  C   UNK     0      -4.512  -0.153  -1.317  0.00  0.00           C+0
HETATM   25  C   UNK     0      -3.753  -0.251   0.974  0.00  0.00           C+0
HETATM   26  O   UNK     0      -4.456  -1.460   0.954  0.00  0.00           O+0
HETATM   27  H   UNK     0       6.491  -1.114   0.653  0.00  0.00           H+0
HETATM   28  H   UNK     0       6.218  -2.893   0.573  0.00  0.00           H+0
HETATM   29  H   UNK     0       6.295  -1.870  -0.942  0.00  0.00           H+0
HETATM   30  H   UNK     0       5.890   0.404  -0.567  0.00  0.00           H+0
HETATM   31  H   UNK     0       5.002   2.628  -1.103  0.00  0.00           H+0
HETATM   32  H   UNK     0       2.577   3.075  -0.895  0.00  0.00           H+0
HETATM   33  H   UNK     0      -0.072  -2.979   1.272  0.00  0.00           H+0
HETATM   34  H   UNK     0      -2.442  -2.600   1.489  0.00  0.00           H+0
HETATM   35  H   UNK     0      -3.925   2.788  -0.212  0.00  0.00           H+0
HETATM   36  H   UNK     0      -2.211   1.406  -1.976  0.00  0.00           H+0
HETATM   37  H   UNK     0      -5.275   1.087   0.204  0.00  0.00           H+0
HETATM   38  H   UNK     0      -5.038  -1.105  -1.033  0.00  0.00           H+0
HETATM   39  H   UNK     0      -5.090   0.402  -2.089  0.00  0.00           H+0
HETATM   40  H   UNK     0      -3.555  -0.464  -1.776  0.00  0.00           H+0
HETATM   41  H   UNK     0      -4.017   0.220   1.968  0.00  0.00           H+0
HETATM   42  H   UNK     0      -4.683  -1.774   1.856  0.00  0.00           H+0
CONECT    1    2   27   28   29                                             
CONECT    2    1    3                                                       
CONECT    3    2    4    8                                                  
CONECT    4    3    5   30                                                  
CONECT    5    4    6   31                                                  
CONECT    6    5    7   32                                                  
CONECT    7    6    8   17                                                  
CONECT    8    7    9    3                                                  
CONECT    9    8   10   11                                                  
CONECT   10    9                                                            
CONECT   11    9   12   16                                                  
CONECT   12   11   13   33                                                  
CONECT   13   12   14   34                                                  
CONECT   14   13   15   25                                                  
CONECT   15   14   16   19                                                  
CONECT   16   15   17   11                                                  
CONECT   17   16   18    7                                                  
CONECT   18   17                                                            
CONECT   19   15   20   21                                                  
CONECT   20   19                                                            
CONECT   21   19   22   23   35                                             
CONECT   22   21   36                                                       
CONECT   23   21   24   25   37                                             
CONECT   24   23   38   39   40                                             
CONECT   25   23   26   14   41                                             
CONECT   26   25   42                                                       
CONECT   27    1                                                            
CONECT   28    1                                                            
CONECT   29    1                                                            
CONECT   30    4                                                            
CONECT   31    5                                                            
CONECT   32    6                                                            
CONECT   33   12                                                            
CONECT   34   13                                                            
CONECT   35   21                                                            
CONECT   36   22                                                            
CONECT   37   23                                                            
CONECT   38   24                                                            
CONECT   39   24                                                            
CONECT   40   24                                                            
CONECT   41   25                                                            
CONECT   42   26                                                            
MASTER        0    0    0    0    0    0    0    0   42    0   90    0
END

RDKit          3D

42 45  0  0  0  0  0  0  0  0999 V2000
    5.9367   -1.9316    0.1209 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.5589   -1.6561    0.2315 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.0128   -0.4230   -0.0582 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.8452    0.5914   -0.4763 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.3503    1.8459   -0.7792 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.0044    2.0895   -0.6624 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1543    1.1046   -0.2505 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6720   -0.1451    0.0476 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.8047   -1.2247    0.4927 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2808   -2.3586    0.7602 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.3770   -0.9720    0.6237 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4408   -2.0006    1.0377 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8232   -1.7765    1.1637 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3396   -0.5495    0.8788 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4857    0.4935    0.4570 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1333    0.2961    0.3219 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7153    1.3788   -0.1252 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3575    2.5279   -0.4245 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0773    1.8105    0.2570 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4470    2.7968    0.6833 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3894    1.8323   -0.4386 C   0  0  1  0  0  0  0  0  0  0  0  0
   -3.1123    1.7755   -1.8158 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.2635    0.6981   -0.0777 C   0  0  1  0  0  0  0  0  0  0  0  0
   -4.5116   -0.1527   -1.3175 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7534   -0.2509    0.9744 C   0  0  1  0  0  0  0  0  0  0  0  0
   -4.4562   -1.4598    0.9537 O   0  0  0  0  0  0  0  0  0  0  0  0
    6.4911   -1.1143    0.6529 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.2182   -2.8929    0.5728 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.2946   -1.8700   -0.9419 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.8896    0.4035   -0.5673 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.0016    2.6277   -1.1028 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.5770    3.0749   -0.8948 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0716   -2.9793    1.2725 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4423   -2.6005    1.4886 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9245    2.7877   -0.2115 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2111    1.4057   -1.9762 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.2754    1.0870    0.2037 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0385   -1.1055   -1.0333 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0905    0.4018   -2.0891 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5555   -0.4635   -1.7760 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0171    0.2198    1.9677 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6825   -1.7743    1.8561 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  3  4  2  0
  4  5  1  0
  5  6  2  0
  6  7  1  0
  7  8  2  0
  8  9  1  0
  9 10  2  0
  9 11  1  0
 11 12  2  0
 12 13  1  0
 13 14  2  0
 14 15  1  0
 15 16  2  0
 16 17  1  0
 17 18  2  0
 15 19  1  0
 19 20  2  0
 19 21  1  0
 21 22  1  0
 21 23  1  0
 23 24  1  0
 23 25  1  0
 25 26  1  0
  8  3  1  0
 16 11  1  0
 17  7  1  0
 25 14  1  0
  1 27  1  0
  1 28  1  0
  1 29  1  0
  4 30  1  0
  5 31  1  0
  6 32  1  0
 12 33  1  0
 13 34  1  0
 21 35  1  6
 22 36  1  0
 23 37  1  1
 24 38  1  0
 24 39  1  0
 24 40  1  0
 25 41  1  1
 26 42  1  0
M  END

View in JSmol View NMR Assignments

Synonyms

Not Available

Chemical Formula

C₂₀H₁₆O₆

Average Mass

352.3420 Da

Monoisotopic Mass

352.09469 Da

IUPAC Name

(2S,3S,4R)-2,4-dihydroxy-8-methoxy-3-methyl-1,2,3,4,7,12-hexahydrotetraphene-1,7,12-trione

Traditional Name

(2S,3S,4R)-2,4-dihydroxy-8-methoxy-3-methyl-3,4-dihydro-2H-tetraphene-1,7,12-trione

CAS Registry Number

Not Available

SMILES

COC1=CC=CC2=C1C(=O)C1=C(C2=O)C2=C(C=C1)[C@H](O)[C@H](C)[C@H](O)C2=O

InChI Identifier

InChI=1S/C20H16O6/c1-8-16(21)10-6-7-11-14(15(10)20(25)17(8)22)19(24)9-4-3-5-12(26-2)13(9)18(11)23/h3-8,16-17,21-22H,1-2H3/t8-,16+,17-/m0/s1

InChI Key

DWIWLEGGRHIXAH-KDLNQGCSSA-N

Experimental Spectra

Not Available

Predicted Spectra

Spectrum Type	Description	Depositor ID	Depositor Organization	Depositor	Deposition Date	View
1D NMR	¹³C NMR Spectrum (1D, 25 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 252 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 50 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 75 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 101 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 126 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 151 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 176 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 201 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 226 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum

Chemical Shift Submissions

Not Available

Species

Species of Origin

Species Name	Source	Reference
Streptomyces	NPAtlas	10866213

Species Where Detected

Species Name	Source	Reference
Streptomyces sp. Go N1/5	KNApSAcK Database	22123792

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	1.95	ALOGPS
logP	1.37	ChemAxon
logS	-3.1	ALOGPS
pKa (Strongest Acidic)	12.84	ChemAxon
pKa (Strongest Basic)	-3.4	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	6	ChemAxon
Hydrogen Donor Count	2	ChemAxon
Polar Surface Area	100.9 Å²	ChemAxon
Rotatable Bond Count	1	ChemAxon
Refractivity	93.26 m³·mol⁻¹	ChemAxon
Polarizability	35.77 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

NPAtlas ID

NPA008806

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FoodDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

8513518

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

10338059

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Puder C, Zeeck A, Beil W: New biologically active rubiginones from Streptomyces sp. J Antibiot (Tokyo). 2000 Apr;53(4):329-36. doi: 10.7164/antibiotics.53.329. [PubMed:10866213 ]

Showing NP-Card for Rubiginone D2 (NP0003318)

MOL for NP0003318 (Rubiginone D2)

3D MOL for NP0003318 (Rubiginone D2)

3D SDF for NP0003318 (Rubiginone D2)

3D-SDF for NP0003318 (Rubiginone D2)

PDB for NP0003318 (Rubiginone D2)

3D PDB for NP0003318 (Rubiginone D2)

SMILES for NP0003318 (Rubiginone D2)

INCHI for NP0003318 (Rubiginone D2)

Structure for NP0003318 (Rubiginone D2)

3D Structure for NP0003318 (Rubiginone D2)