NP-MRD: Showing NP-Card for Cylindrol B1 (NP0003900)

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Record Information

Version

1.0

Created at

2020-12-09 01:27:01 UTC

Updated at

2021-07-15 16:47:41 UTC

NP-MRD ID

NP0003900

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Cylindrol B1

Provided By

NPAtlas

Description

Cylindrol B1 is found in Cylindrocarpon lucidum. It was first documented in 1996 (PMID: 11667727). Based on a literature review very few articles have been published on (1S,2S,3S,4R)-3-[(3E)-5-(3-formyl-2,6-dihydroxy-4-methylphenyl)-3-methylpenta-1,3-dien-1-yl]-2,3,4-trimethyl-5-oxocyclohexyl acetate.

Structure

MOL 3D MOL SDF 3D SDF PDB SMILES InChI


  Mrv1652306242117513D          

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M  END

     RDKit          3D

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M  END


  Mrv1652306242117513D          

 63 64  0  0  0  0            999 V2000
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    4.6205   -0.8240   -0.3135 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.1073   -2.1106   -0.3061 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.5658   -0.5651   -1.3076 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.1232    0.6775   -1.3853 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.1395    0.9856   -2.4397 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.7368    1.6627   -0.4702 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.3512    2.9882   -0.5786 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.2122    3.2635   -1.4661 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.8043    1.4063    0.5099 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.4066    2.3535    1.4207 O   0  0  0  0  0  0  0  0  0  0  0  0
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   -3.7064   -3.4976   -1.7607 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.7109   -1.9690   -1.6263 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6181   -2.1892   -3.0027 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7012   -2.5383    1.8906 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6799   -2.4900    0.3168 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2576   -3.5135    0.4836 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2273   -2.6093    1.4692 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6113    0.0020    0.1308 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.3092   -2.5266    2.7184 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.9174   -1.9084    3.0301 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5900   -3.0650    1.6440 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5347    0.7608    0.4708 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.4550   -1.1148    2.1195 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.3854    0.6274    2.4368 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.4333   -2.4383    0.3455 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.8454   -1.3536   -2.0050 H   0  0  0  0  0  0  0  0  0  0  0  0
    7.2863    0.0554   -3.0462 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.7959    1.7460   -3.1605 H   0  0  0  0  0  0  0  0  0  0  0  0
    8.1339    1.2214   -2.0313 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.0904    3.7732    0.0943 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.7603    3.2821    1.4367 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3660    0.4490    1.0377 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.9644    0.8727    1.4258 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0426   -0.8917    1.4982 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9504   -0.0076    2.5718 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  0  0  0
  2  3  2  0  0  0  0
  2  4  1  0  0  0  0
  4  5  1  0  0  0  0
  5  6  1  0  0  0  0
  6  7  1  0  0  0  0
  7  8  2  0  0  0  0
  7  9  1  0  0  0  0
  9 10  1  0  0  0  0
  9 11  1  0  0  0  0
 11 12  1  0  0  0  0
 11 13  1  1  0  0  0
 13 14  2  0  0  0  0
 14 15  1  0  0  0  0
 15 16  1  0  0  0  0
 15 17  2  0  0  0  0
 17 18  1  0  0  0  0
 18 19  1  0  0  0  0
 19 20  2  0  0  0  0
 20 21  1  0  0  0  0
 20 22  1  0  0  0  0
 22 23  2  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
 26 27  2  0  0  0  0
 25 28  2  0  0  0  0
 28 29  1  0  0  0  0
 11 30  1  0  0  0  0
 30 31  1  0  0  0  0
 30  5  1  0  0  0  0
 28 19  1  0  0  0  0
  1 32  1  0  0  0  0
  1 33  1  0  0  0  0
  1 34  1  0  0  0  0
  5 35  1  6  0  0  0
  6 36  1  0  0  0  0
  6 37  1  0  0  0  0
  9 38  1  1  0  0  0
 10 39  1  0  0  0  0
 10 40  1  0  0  0  0
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 12 42  1  0  0  0  0
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 12 44  1  0  0  0  0
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 21 53  1  0  0  0  0
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 24 57  1  0  0  0  0
 26 58  1  0  0  0  0
 29 59  1  0  0  0  0
 30 60  1  1  0  0  0
 31 61  1  0  0  0  0
 31 62  1  0  0  0  0
 31 63  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0003900

> <DATABASE_NAME>
NP-MRD

> <SMILES>
[H]OC1=C(C(O[H])=C(C([H])=O)C(=C1[H])C([H])([H])[H])C([H])([H])C(\[H])=C(\C(\[H])=C(/[H])[C@]1(C([H])([H])[H])[C@]([H])(C(=O)C([H])([H])[C@]([H])(OC(=O)C([H])([H])[H])[C@@]1([H])C([H])([H])[H])C([H])([H])[H])/C([H])([H])[H]

> <INCHI_IDENTIFIER>
InChI=1S/C25H32O6/c1-14(7-8-19-22(29)11-15(2)20(13-26)24(19)30)9-10-25(6)16(3)21(28)12-23(17(25)4)31-18(5)27/h7,9-11,13,16-17,23,29-30H,8,12H2,1-6H3/b10-9+,14-7+/t16-,17+,23-,25+/m0/s1

> <INCHI_KEY>
VSWRRSKSGIQJKK-CADSEURFSA-N

> <FORMULA>
C25H32O6

> <MOLECULAR_WEIGHT>
428.525

> <EXACT_MASS>
428.21988875

> <JCHEM_ACCEPTOR_COUNT>
5

> <JCHEM_ATOM_COUNT>
63

> <JCHEM_AVERAGE_POLARIZABILITY>
47.42151400822363

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(1S,2S,3S,4R)-3-[(1E,3E)-5-(3-formyl-2,6-dihydroxy-4-methylphenyl)-3-methylpenta-1,3-dien-1-yl]-2,3,4-trimethyl-5-oxocyclohexyl acetate

> <ALOGPS_LOGP>
4.41

> <JCHEM_LOGP>
5.338492275666669

> <ALOGPS_LOGS>
-4.99

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
2

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
9.074533334391575

> <JCHEM_PKA_STRONGEST_ACIDIC>
7.325817983825972

> <JCHEM_PKA_STRONGEST_BASIC>
-5.749669188877324

> <JCHEM_POLAR_SURFACE_AREA>
100.90000000000002

> <JCHEM_REFRACTIVITY>
122.18639999999998

> <JCHEM_ROTATABLE_BOND_COUNT>
7

> <JCHEM_RULE_OF_FIVE>
0

> <ALOGPS_SOLUBILITY>
4.39e-03 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(1S,2S,3S,4R)-3-[(1E,3E)-5-(3-formyl-2,6-dihydroxy-4-methylphenyl)-3-methylpenta-1,3-dien-1-yl]-2,3,4-trimethyl-5-oxocyclohexyl acetate

> <JCHEM_VEBER_RULE>
0

$$$$

     RDKit          3D

 63 64  0  0  0  0  0  0  0  0999 V2000
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   -3.7525   -2.3808   -1.9039 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7423   -1.4814    0.2372 C   0  0  1  0  0  0  0  0  0  0  0  0
   -3.7178   -2.5305    0.8023 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3871   -1.7197    0.8812 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4041   -0.8841    0.7424 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.9335   -1.0097    1.3130 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2250   -2.1709    2.1743 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.8503   -0.1018    1.1044 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2374   -0.1218    1.6243 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.2333    0.1204    0.5833 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.6205   -0.8240   -0.3135 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.1073   -2.1106   -0.3061 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.5658   -0.5651   -1.3076 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.1232    0.6775   -1.3853 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.1395    0.9856   -2.4397 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.7368    1.6627   -0.4702 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.3512    2.9882   -0.5786 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.2122    3.2635   -1.4661 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.8043    1.4063    0.5099 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.4066    2.3535    1.4207 O   0  0  0  0  0  0  0  0  0  0  0  0
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   -4.3600   -0.0522    1.5187 C   0  0  0  0  0  0  0  0  0  0  0  0
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   -1.8657    1.5450   -1.6391 H   0  0  0  0  0  0  0  0  0  0  0  0
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   -4.7109   -1.9690   -1.6263 H   0  0  0  0  0  0  0  0  0  0  0  0
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   -4.6799   -2.4900    0.3168 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2576   -3.5135    0.4836 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2273   -2.6093    1.4692 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6113    0.0020    0.1308 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.3092   -2.5266    2.7184 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.9174   -1.9084    3.0301 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5900   -3.0650    1.6440 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5347    0.7608    0.4708 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.4550   -1.1148    2.1195 H   0  0  0  0  0  0  0  0  0  0  0  0
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    3.4333   -2.4383    0.3455 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.8454   -1.3536   -2.0050 H   0  0  0  0  0  0  0  0  0  0  0  0
    7.2863    0.0554   -3.0462 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.7959    1.7460   -3.1605 H   0  0  0  0  0  0  0  0  0  0  0  0
    8.1339    1.2214   -2.0313 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.0904    3.7732    0.0943 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.7603    3.2821    1.4367 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3660    0.4490    1.0377 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.9644    0.8727    1.4258 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0426   -0.8917    1.4982 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9504   -0.0076    2.5718 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  2  0
  2  4  1  0
  4  5  1  0
  5  6  1  0
  6  7  1  0
  7  8  2  0
  7  9  1  0
  9 10  1  0
  9 11  1  0
 11 12  1  0
 11 13  1  1
 13 14  2  0
 14 15  1  0
 15 16  1  0
 15 17  2  0
 17 18  1  0
 18 19  1  0
 19 20  2  0
 20 21  1  0
 20 22  1  0
 22 23  2  0
 23 24  1  0
 23 25  1  0
 25 26  1  0
 26 27  2  0
 25 28  2  0
 28 29  1  0
 11 30  1  0
 30 31  1  0
 30  5  1  0
 28 19  1  0
  1 32  1  0
  1 33  1  0
  1 34  1  0
  5 35  1  6
  6 36  1  0
  6 37  1  0
  9 38  1  1
 10 39  1  0
 10 40  1  0
 10 41  1  0
 12 42  1  0
 12 43  1  0
 12 44  1  0
 13 45  1  0
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 17 50  1  0
 18 51  1  0
 18 52  1  0
 21 53  1  0
 22 54  1  0
 24 55  1  0
 24 56  1  0
 24 57  1  0
 26 58  1  0
 29 59  1  0
 30 60  1  1
 31 61  1  0
 31 62  1  0
 31 63  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      -5.480   3.954   0.180  0.00  0.00           C+0
HETATM    2  C   UNK     0      -5.224   2.575  -0.324  0.00  0.00           C+0
HETATM    3  O   UNK     0      -6.111   1.865  -0.861  0.00  0.00           O+0
HETATM    4  O   UNK     0      -3.961   2.029  -0.205  0.00  0.00           O+0
HETATM    5  C   UNK     0      -3.616   0.722  -0.654  0.00  0.00           C+0
HETATM    6  C   UNK     0      -2.638   0.756  -1.775  0.00  0.00           C+0
HETATM    7  C   UNK     0      -2.030  -0.592  -1.926  0.00  0.00           C+0
HETATM    8  O   UNK     0      -1.045  -0.737  -2.673  0.00  0.00           O+0
HETATM    9  C   UNK     0      -2.543  -1.799  -1.224  0.00  0.00           C+0
HETATM   10  C   UNK     0      -3.753  -2.381  -1.904  0.00  0.00           C+0
HETATM   11  C   UNK     0      -2.742  -1.481   0.237  0.00  0.00           C+0
HETATM   12  C   UNK     0      -3.718  -2.531   0.802  0.00  0.00           C+0
HETATM   13  C   UNK     0      -1.387  -1.720   0.881  0.00  0.00           C+0
HETATM   14  C   UNK     0      -0.404  -0.884   0.742  0.00  0.00           C+0
HETATM   15  C   UNK     0       0.934  -1.010   1.313  0.00  0.00           C+0
HETATM   16  C   UNK     0       1.225  -2.171   2.174  0.00  0.00           C+0
HETATM   17  C   UNK     0       1.850  -0.102   1.104  0.00  0.00           C+0
HETATM   18  C   UNK     0       3.237  -0.122   1.624  0.00  0.00           C+0
HETATM   19  C   UNK     0       4.233   0.120   0.583  0.00  0.00           C+0
HETATM   20  C   UNK     0       4.620  -0.824  -0.314  0.00  0.00           C+0
HETATM   21  O   UNK     0       4.107  -2.111  -0.306  0.00  0.00           O+0
HETATM   22  C   UNK     0       5.566  -0.565  -1.308  0.00  0.00           C+0
HETATM   23  C   UNK     0       6.123   0.678  -1.385  0.00  0.00           C+0
HETATM   24  C   UNK     0       7.139   0.986  -2.440  0.00  0.00           C+0
HETATM   25  C   UNK     0       5.737   1.663  -0.470  0.00  0.00           C+0
HETATM   26  C   UNK     0       6.351   2.988  -0.579  0.00  0.00           C+0
HETATM   27  O   UNK     0       7.212   3.264  -1.466  0.00  0.00           O+0
HETATM   28  C   UNK     0       4.804   1.406   0.510  0.00  0.00           C+0
HETATM   29  O   UNK     0       4.407   2.353   1.421  0.00  0.00           O+0
HETATM   30  C   UNK     0      -3.217  -0.106   0.530  0.00  0.00           C+0
HETATM   31  C   UNK     0      -4.360  -0.052   1.519  0.00  0.00           C+0
HETATM   32  H   UNK     0      -5.796   4.591  -0.697  0.00  0.00           H+0
HETATM   33  H   UNK     0      -6.333   3.942   0.878  0.00  0.00           H+0
HETATM   34  H   UNK     0      -4.575   4.359   0.656  0.00  0.00           H+0
HETATM   35  H   UNK     0      -4.563   0.317  -1.067  0.00  0.00           H+0
HETATM   36  H   UNK     0      -3.182   0.961  -2.719  0.00  0.00           H+0
HETATM   37  H   UNK     0      -1.866   1.545  -1.639  0.00  0.00           H+0
HETATM   38  H   UNK     0      -1.703  -2.564  -1.266  0.00  0.00           H+0
HETATM   39  H   UNK     0      -3.706  -3.498  -1.761  0.00  0.00           H+0
HETATM   40  H   UNK     0      -4.711  -1.969  -1.626  0.00  0.00           H+0
HETATM   41  H   UNK     0      -3.618  -2.189  -3.003  0.00  0.00           H+0
HETATM   42  H   UNK     0      -3.701  -2.538   1.891  0.00  0.00           H+0
HETATM   43  H   UNK     0      -4.680  -2.490   0.317  0.00  0.00           H+0
HETATM   44  H   UNK     0      -3.258  -3.514   0.484  0.00  0.00           H+0
HETATM   45  H   UNK     0      -1.227  -2.609   1.469  0.00  0.00           H+0
HETATM   46  H   UNK     0      -0.611   0.002   0.131  0.00  0.00           H+0
HETATM   47  H   UNK     0       0.309  -2.527   2.718  0.00  0.00           H+0
HETATM   48  H   UNK     0       1.917  -1.908   3.030  0.00  0.00           H+0
HETATM   49  H   UNK     0       1.590  -3.065   1.644  0.00  0.00           H+0
HETATM   50  H   UNK     0       1.535   0.761   0.471  0.00  0.00           H+0
HETATM   51  H   UNK     0       3.455  -1.115   2.119  0.00  0.00           H+0
HETATM   52  H   UNK     0       3.385   0.627   2.437  0.00  0.00           H+0
HETATM   53  H   UNK     0       3.433  -2.438   0.346  0.00  0.00           H+0
HETATM   54  H   UNK     0       5.845  -1.354  -2.005  0.00  0.00           H+0
HETATM   55  H   UNK     0       7.286   0.055  -3.046  0.00  0.00           H+0
HETATM   56  H   UNK     0       6.796   1.746  -3.160  0.00  0.00           H+0
HETATM   57  H   UNK     0       8.134   1.221  -2.031  0.00  0.00           H+0
HETATM   58  H   UNK     0       6.090   3.773   0.094  0.00  0.00           H+0
HETATM   59  H   UNK     0       4.760   3.282   1.437  0.00  0.00           H+0
HETATM   60  H   UNK     0      -2.366   0.449   1.038  0.00  0.00           H+0
HETATM   61  H   UNK     0      -4.964   0.873   1.426  0.00  0.00           H+0
HETATM   62  H   UNK     0      -5.043  -0.892   1.498  0.00  0.00           H+0
HETATM   63  H   UNK     0      -3.950  -0.008   2.572  0.00  0.00           H+0
CONECT    1    2   32   33   34                                             
CONECT    2    1    3    4                                                  
CONECT    3    2                                                            
CONECT    4    2    5                                                       
CONECT    5    4    6   30   35                                             
CONECT    6    5    7   36   37                                             
CONECT    7    6    8    9                                                  
CONECT    8    7                                                            
CONECT    9    7   10   11   38                                             
CONECT   10    9   39   40   41                                             
CONECT   11    9   12   13   30                                             
CONECT   12   11   42   43   44                                             
CONECT   13   11   14   45                                                  
CONECT   14   13   15   46                                                  
CONECT   15   14   16   17                                                  
CONECT   16   15   47   48   49                                             
CONECT   17   15   18   50                                                  
CONECT   18   17   19   51   52                                             
CONECT   19   18   20   28                                                  
CONECT   20   19   21   22                                                  
CONECT   21   20   53                                                       
CONECT   22   20   23   54                                                  
CONECT   23   22   24   25                                                  
CONECT   24   23   55   56   57                                             
CONECT   25   23   26   28                                                  
CONECT   26   25   27   58                                                  
CONECT   27   26                                                            
CONECT   28   25   29   19                                                  
CONECT   29   28   59                                                       
CONECT   30   11   31    5   60                                             
CONECT   31   30   61   62   63                                             
CONECT   32    1                                                            
CONECT   33    1                                                            
CONECT   34    1                                                            
CONECT   35    5                                                            
CONECT   36    6                                                            
CONECT   37    6                                                            
CONECT   38    9                                                            
CONECT   39   10                                                            
CONECT   40   10                                                            
CONECT   41   10                                                            
CONECT   42   12                                                            
CONECT   43   12                                                            
CONECT   44   12                                                            
CONECT   45   13                                                            
CONECT   46   14                                                            
CONECT   47   16                                                            
CONECT   48   16                                                            
CONECT   49   16                                                            
CONECT   50   17                                                            
CONECT   51   18                                                            
CONECT   52   18                                                            
CONECT   53   21                                                            
CONECT   54   22                                                            
CONECT   55   24                                                            
CONECT   56   24                                                            
CONECT   57   24                                                            
CONECT   58   26                                                            
CONECT   59   29                                                            
CONECT   60   30                                                            
CONECT   61   31                                                            
CONECT   62   31                                                            
CONECT   63   31                                                            
MASTER        0    0    0    0    0    0    0    0   63    0  128    0
END

RDKit          3D

63 64  0  0  0  0  0  0  0  0999 V2000
   -5.4799    3.9544    0.1798 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.2245    2.5746   -0.3236 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.1106    1.8647   -0.8607 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9609    2.0294   -0.2049 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6160    0.7224   -0.6539 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.6375    0.7564   -1.7751 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0304   -0.5921   -1.9261 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0453   -0.7372   -2.6729 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5427   -1.7994   -1.2236 C   0  0  2  0  0  0  0  0  0  0  0  0
   -3.7525   -2.3808   -1.9039 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7423   -1.4814    0.2372 C   0  0  1  0  0  0  0  0  0  0  0  0
   -3.7178   -2.5305    0.8023 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3871   -1.7197    0.8812 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4041   -0.8841    0.7424 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.9335   -1.0097    1.3130 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2250   -2.1709    2.1743 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.8503   -0.1018    1.1044 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2374   -0.1218    1.6243 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.2333    0.1204    0.5833 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.6205   -0.8240   -0.3135 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.1073   -2.1106   -0.3061 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.5658   -0.5651   -1.3076 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.1232    0.6775   -1.3853 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.1395    0.9856   -2.4397 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.7368    1.6627   -0.4702 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.3512    2.9882   -0.5786 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.2122    3.2635   -1.4661 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.8043    1.4063    0.5099 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.4066    2.3535    1.4207 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2173   -0.1063    0.5298 C   0  0  2  0  0  0  0  0  0  0  0  0
   -4.3600   -0.0522    1.5187 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.7960    4.5908   -0.6968 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.3335    3.9421    0.8783 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.5752    4.3593    0.6556 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.5631    0.3168   -1.0672 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1818    0.9611   -2.7193 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8657    1.5450   -1.6391 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7034   -2.5643   -1.2660 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7064   -3.4976   -1.7607 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.7109   -1.9690   -1.6263 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6181   -2.1892   -3.0027 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7012   -2.5383    1.8906 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6799   -2.4900    0.3168 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2576   -3.5135    0.4836 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2273   -2.6093    1.4692 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6113    0.0020    0.1308 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.3092   -2.5266    2.7184 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.9174   -1.9084    3.0301 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5900   -3.0650    1.6440 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5347    0.7608    0.4708 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.4550   -1.1148    2.1195 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.3854    0.6274    2.4368 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.4333   -2.4383    0.3455 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.8454   -1.3536   -2.0050 H   0  0  0  0  0  0  0  0  0  0  0  0
    7.2863    0.0554   -3.0462 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.7959    1.7460   -3.1605 H   0  0  0  0  0  0  0  0  0  0  0  0
    8.1339    1.2214   -2.0313 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.0904    3.7732    0.0943 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.7603    3.2821    1.4367 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3660    0.4490    1.0377 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.9644    0.8727    1.4258 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0426   -0.8917    1.4982 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9504   -0.0076    2.5718 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  2  0
  2  4  1  0
  4  5  1  0
  5  6  1  0
  6  7  1  0
  7  8  2  0
  7  9  1  0
  9 10  1  0
  9 11  1  0
 11 12  1  0
 11 13  1  1
 13 14  2  0
 14 15  1  0
 15 16  1  0
 15 17  2  0
 17 18  1  0
 18 19  1  0
 19 20  2  0
 20 21  1  0
 20 22  1  0
 22 23  2  0
 23 24  1  0
 23 25  1  0
 25 26  1  0
 26 27  2  0
 25 28  2  0
 28 29  1  0
 11 30  1  0
 30 31  1  0
 30  5  1  0
 28 19  1  0
  1 32  1  0
  1 33  1  0
  1 34  1  0
  5 35  1  6
  6 36  1  0
  6 37  1  0
  9 38  1  1
 10 39  1  0
 10 40  1  0
 10 41  1  0
 12 42  1  0
 12 43  1  0
 12 44  1  0
 13 45  1  0
 14 46  1  0
 16 47  1  0
 16 48  1  0
 16 49  1  0
 17 50  1  0
 18 51  1  0
 18 52  1  0
 21 53  1  0
 22 54  1  0
 24 55  1  0
 24 56  1  0
 24 57  1  0
 26 58  1  0
 29 59  1  0
 30 60  1  1
 31 61  1  0
 31 62  1  0
 31 63  1  0
M  END

View in JSmol View NMR Assignments

Synonyms

Value	Source
(1S,2S,3S,4R)-3-[(3E)-5-(3-Formyl-2,6-dihydroxy-4-methylphenyl)-3-methylpenta-1,3-dien-1-yl]-2,3,4-trimethyl-5-oxocyclohexyl acetic acid	Generator

Chemical Formula

C₂₅H₃₂O₆

Average Mass

428.5250 Da

Monoisotopic Mass

428.21989 Da

IUPAC Name

(1S,2S,3S,4R)-3-[(1E,3E)-5-(3-formyl-2,6-dihydroxy-4-methylphenyl)-3-methylpenta-1,3-dien-1-yl]-2,3,4-trimethyl-5-oxocyclohexyl acetate

Traditional Name

(1S,2S,3S,4R)-3-[(1E,3E)-5-(3-formyl-2,6-dihydroxy-4-methylphenyl)-3-methylpenta-1,3-dien-1-yl]-2,3,4-trimethyl-5-oxocyclohexyl acetate

CAS Registry Number

Not Available

SMILES

C[C@@H]1[C@H](CC(=O)[C@H](C)[C@@]1(C)\C=C\C(\C)=C\CC1=C(O)C=C(C)C(C=O)=C1O)OC(C)=O

InChI Identifier

InChI=1S/C25H32O6/c1-14(7-8-19-22(29)11-15(2)20(13-26)24(19)30)9-10-25(6)16(3)21(28)12-23(17(25)4)31-18(5)27/h7,9-11,13,16-17,23,29-30H,8,12H2,1-6H3/b10-9+,14-7+/t16-,17+,23-,25+/m0/s1

InChI Key

VSWRRSKSGIQJKK-CADSEURFSA-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
Cylindrocarpon lucidum	NPAtlas	11667727

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	4.41	ALOGPS
logP	5.34	ChemAxon
logS	-5	ALOGPS
pKa (Strongest Acidic)	7.33	ChemAxon
pKa (Strongest Basic)	-5.7	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	5	ChemAxon
Hydrogen Donor Count	2	ChemAxon
Polar Surface Area	100.9 Å²	ChemAxon
Rotatable Bond Count	7	ChemAxon
Refractivity	122.19 m³·mol⁻¹	ChemAxon
Polarizability	47.42 Å³	ChemAxon
Number of Rings	2	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	No	ChemAxon
Ghose Filter	Yes	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	No	ChemAxon

External Links

NPAtlas ID

NPA005789

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FoodDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

8701953

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

10526557

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Singh SB, Ball RG, Bills GF, Cascales C, Gibbs JB, Goetz MA, Hoogsteen K, Jenkins RG, Liesch JM, Lingham RB, Silverman KC, Zink DL: Chemistry and Biology of Cylindrols: Novel Inhibitors of Ras Farnesyl-Protein Transferase from Cylindrocarpon lucidum. J Org Chem. 1996 Nov 1;61(22):7727-7737. doi: 10.1021/jo961074p. [PubMed:11667727 ]

Showing NP-Card for Cylindrol B1 (NP0003900)

MOL for NP0003900 (Cylindrol B1)

3D MOL for NP0003900 (Cylindrol B1)

3D SDF for NP0003900 (Cylindrol B1)

3D-SDF for NP0003900 (Cylindrol B1)

PDB for NP0003900 (Cylindrol B1)

3D PDB for NP0003900 (Cylindrol B1)

SMILES for NP0003900 (Cylindrol B1)

INCHI for NP0003900 (Cylindrol B1)

Structure for NP0003900 (Cylindrol B1)

3D Structure for NP0003900 (Cylindrol B1)