NP-MRD: Showing NP-Card for Veraguamide F (NP0009880)

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Record Information

Version

1.0

Created at

2021-01-05 19:35:23 UTC

Updated at

2021-07-15 17:04:31 UTC

NP-MRD ID

NP0009880

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Veraguamide F

Provided By

NPAtlas

Description

(3S,6R,7S,10S,13S,16S,21aS)-16-benzyl-8-hydroxy-2,7,12-trimethyl-6-(pent-4-yn-1-yl)-3,10,13-tris(propan-2-yl)-1H,2H,3H,4H,6H,7H,10H,11H,12H,13H,14H,16H,17H,19H,20H,21H,21aH-pyrrolo[2,1-f]1,10-dioxa-4,7,13,16-tetraazacyclononadecane-1,4,11,14,17-pentone belongs to the class of organic compounds known as cyclic depsipeptides. These are natural or synthetic compounds having sequences of amino and hydroxy carboxylic acid residues (usually α-amino and α-hydroxy acids) connected in a ring. The residues are commonly but not necessarily regularly alternating. Veraguamide F is found in Symploca and Symploca hydnoides. It was first documented in 2011 (PMID: 21446699). Based on a literature review very few articles have been published on (3S,6R,7S,10S,13S,16S,21aS)-16-benzyl-8-hydroxy-2,7,12-trimethyl-6-(pent-4-yn-1-yl)-3,10,13-tris(propan-2-yl)-1H,2H,3H,4H,6H,7H,10H,11H,12H,13H,14H,16H,17H,19H,20H,21H,21aH-pyrrolo[2,1-f]1,10-dioxa-4,7,13,16-tetraazacyclononadecane-1,4,11,14,17-pentone.

Structure

MOL 3D MOL SDF 3D SDF PDB SMILES InChI


  Mrv1652307012120353D          

110112  0  0  0  0            999 V2000
   -8.5637   -0.6840    0.2599 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.4593   -0.2205    0.3891 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.0934    0.3700    0.5288 C   0  0  2  0  0  0  0  0  0  0  0  0
   -5.1856   -0.2483   -0.5224 C   0  0  1  0  0  0  0  0  0  0  0  0
   -3.8205    0.3305   -0.4416 C   0  0  2  0  0  0  0  0  0  0  0  0
   -3.1620    0.0927    0.8507 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.9206   -1.1858    1.2667 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1863   -2.2517    0.8992 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1287   -2.5635    1.5005 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5921   -3.1002   -0.2191 C   0  0  2  0  0  0  0  0  0  0  0  0
   -3.3560   -4.2665    0.3867 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.5527   -5.0687    1.3552 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.5843   -3.7492    1.0664 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5589   -3.5836   -1.1070 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1381   -4.1698   -2.3643 C   0  0  0  0  0  0  0  0  0  0  0  0
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    1.9713   -1.2199    0.8136 C   0  0  0  0  0  0  0  0  0  0  0  0
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    6.4719   -3.1813   -0.4991 C   0  0  0  0  0  0  0  0  0  0  0  0
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    5.3710   -1.1696   -1.1592 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6680    1.0472    0.1727 O   0  0  0  0  0  0  0  0  0  0  0  0
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    1.1316    2.3996    1.9315 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.5560    3.4175    0.4323 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.0767    4.0798    1.7197 C   0  0  1  0  0  0  0  0  0  0  0  0
    3.9522    3.0899    2.4803 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.8484    5.3250    1.4999 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.7842    4.3687   -0.3450 N   0  0  0  0  0  0  0  0  0  0  0  0
    2.5751    5.2582   -1.2147 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3944    4.5393   -0.3404 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0754    5.6995   -0.0570 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6670    3.5119   -0.6352 C   0  0  2  0  0  0  0  0  0  0  0  0
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   -0.4149    4.3325   -3.0039 C   0  0  0  0  0  0  0  0  0  0  0  0
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   -2.3556    2.4088    0.9272 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5413    2.6947    1.3263 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9496    1.0215    1.0531 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.4970    0.8244    2.5182 C   0  0  0  0  0  0  0  0  0  0  0  0
   -9.5382   -1.0799    0.1329 H   0  0  0  0  0  0  0  0  0  0  0  0
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   -5.2001   -1.3352   -0.3920 H   0  0  0  0  0  0  0  0  0  0  0  0
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   -1.7293   -5.6463    0.9153 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2278   -4.4781    2.2593 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.4569   -2.8009    1.6146 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.4251   -3.5850    0.3416 H   0  0  0  0  0  0  0  0  0  0  0  0
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   -2.0842   -3.4577   -3.2049 H   0  0  0  0  0  0  0  0  0  0  0  0
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    4.3690    1.0125   -0.2206 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.6495   -1.9096    2.0209 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.1211   -3.8010    1.5050 H   0  0  0  0  0  0  0  0  0  0  0  0
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    6.6316   -2.3260   -2.4183 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.1790   -0.4382   -1.9424 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.4419    3.1488   -0.1437 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.1900    4.2500    2.3626 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.5359    3.5732    3.2641 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.3739    2.2237    2.8536 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.7034    2.6610    1.7558 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.1468    6.1952    1.6109 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.4639    5.3897    0.6079 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.5702    5.4693    2.3697 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.1186    5.4617   -2.1947 H   0  0  0  0  0  0  0  0  0  0  0  0
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    2.6462    6.2226   -0.6893 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2735    2.5522   -0.9483 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8456    5.0913   -1.6130 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3866    3.4543   -1.6945 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2439    2.1222   -2.0754 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7751    3.3116   -3.3476 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1251    5.4106   -3.0380 H   0  0  0  0  0  0  0  0  0  0  0  0
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   -1.0139    4.1718   -3.9480 H   0  0  0  0  0  0  0  0  0  0  0  0
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  1  2  3  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  1  0  0  0  0
  6  7  1  0  0  0  0
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  8  9  2  0  0  0  0
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M  END

     RDKit          3D

110112  0  0  0  0  0  0  0  0999 V2000
   -8.5637   -0.6840    0.2599 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.4593   -0.2205    0.3891 C   0  0  0  0  0  0  0  0  0  0  0  0
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    1.9713   -1.2199    0.8136 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.7908   -1.0676    2.0375 O   0  0  0  0  0  0  0  0  0  0  0  0
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M  END


  Mrv1652307012120353D          

110112  0  0  0  0            999 V2000
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 52110  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0009880

> <DATABASE_NAME>
NP-MRD

> <SMILES>
[H]C#CC([H])([H])C([H])([H])C([H])([H])[C@@]1([H])OC(=O)[C@@]([H])(N(C(=O)[C@@]2([H])N(C(=O)[C@@]([H])(OC(=O)[C@@]([H])(N(C(=O)[C@@]([H])(N([H])C(=O)[C@@]1([H])C([H])([H])[H])C([H])(C([H])([H])[H])C([H])([H])[H])C([H])([H])[H])C([H])(C([H])([H])[H])C([H])([H])[H])C([H])([H])C1=C([H])C([H])=C([H])C([H])=C1[H])C([H])([H])C([H])([H])C2([H])[H])C([H])([H])[H])C([H])(C([H])([H])[H])C([H])([H])[H]

> <INCHI_IDENTIFIER>
InChI=1S/C40H58N4O8/c1-11-12-14-21-30-27(8)35(45)41-32(24(2)3)38(48)43(10)34(26(6)7)40(50)52-31(23-28-18-15-13-16-19-28)37(47)44-22-17-20-29(44)36(46)42(9)33(25(4)5)39(49)51-30/h1,13,15-16,18-19,24-27,29-34H,12,14,17,20-23H2,2-10H3,(H,41,45)/t27-,29-,30+,31-,32-,33-,34-/m0/s1

> <INCHI_KEY>
DIXVUYUBAUWGGM-GRSBAPKZSA-N

> <FORMULA>
C40H58N4O8

> <MOLECULAR_WEIGHT>
722.924

> <EXACT_MASS>
722.425464844

> <JCHEM_ACCEPTOR_COUNT>
6

> <JCHEM_ATOM_COUNT>
110

> <JCHEM_AVERAGE_POLARIZABILITY>
78.78112757560861

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(3S,6R,7S,10S,13S,16S,21aS)-16-benzyl-2,7,12-trimethyl-6-(pent-4-yn-1-yl)-3,10,13-tris(propan-2-yl)-octadecahydro-1H-pyrrolo[2,1-f]1,10-dioxa-4,7,13,16-tetraazacyclononadecane-1,4,8,11,14,17-hexone

> <ALOGPS_LOGP>
3.92

> <JCHEM_LOGP>
4.954920388

> <ALOGPS_LOGS>
-5.17

> <JCHEM_MDDR_LIKE_RULE>
1

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
18.39544205719719

> <JCHEM_PKA_STRONGEST_ACIDIC>
12.495786660484555

> <JCHEM_PKA_STRONGEST_BASIC>
-1.0963316883125036

> <JCHEM_POLAR_SURFACE_AREA>
142.63

> <JCHEM_REFRACTIVITY>
194.9605000000001

> <JCHEM_ROTATABLE_BOND_COUNT>
8

> <JCHEM_RULE_OF_FIVE>
0

> <ALOGPS_SOLUBILITY>
4.90e-03 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(3S,6R,7S,10S,13S,16S,21aS)-16-benzyl-3,10,13-triisopropyl-2,7,12-trimethyl-6-(pent-4-yn-1-yl)-decahydro-3H-pyrrolo[2,1-f]1,10-dioxa-4,7,13,16-tetraazacyclononadecane-1,4,8,11,14,17-hexone

> <JCHEM_VEBER_RULE>
0

$$$$

     RDKit          3D

110112  0  0  0  0  0  0  0  0999 V2000
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    3.4419    3.1488   -0.1437 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.1900    4.2500    2.3626 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.5359    3.5732    3.2641 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.3739    2.2237    2.8536 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.7034    2.6610    1.7558 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.1468    6.1952    1.6109 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.4639    5.3897    0.6079 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.5702    5.4693    2.3697 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.1186    5.4617   -2.1947 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.5524    4.7868   -1.4565 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.6462    6.2226   -0.6893 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2735    2.5522   -0.9483 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8456    5.0913   -1.6130 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3866    3.4543   -1.6945 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2439    2.1222   -2.0754 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7751    3.3116   -3.3476 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1251    5.4106   -3.0380 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.4513    3.6496   -2.9487 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0139    4.1718   -3.9480 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7931    4.4384    0.8946 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1616    0.6538    0.4102 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3359    1.8152    2.9828 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5386    0.2708    2.5569 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2383    0.2354    3.0822 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  3  0
  2  3  1  0
  3  4  1  0
  4  5  1  0
  5  6  1  0
  6  7  1  0
  7  8  1  0
  8  9  2  0
  8 10  1  0
 10 11  1  0
 11 12  1  0
 11 13  1  0
 10 14  1  0
 14 15  1  0
 14 16  1  0
 16 17  2  0
 16 18  1  0
 18 19  1  0
 19 20  1  0
 20 21  1  0
 21 22  1  0
 22 23  1  0
 23 24  2  0
 23 25  1  0
 25 26  1  0
 26 27  1  0
 27 28  2  0
 28 29  1  0
 29 30  2  0
 30 31  1  0
 31 32  2  0
 25 33  1  0
 33 34  1  0
 34 35  2  0
 34 36  1  0
 36 37  1  0
 37 38  1  0
 37 39  1  0
 36 40  1  0
 40 41  1  0
 40 42  1  0
 42 43  2  0
 42 44  1  0
 44 45  1  0
 45 46  1  0
 45 47  1  0
 44 48  1  0
 48 49  1  0
 49 50  2  0
 49 51  1  0
 51 52  1  0
 51  6  1  0
 22 18  1  0
 32 27  1  0
  1 53  1  0
  3 54  1  0
  3 55  1  0
  4 56  1  0
  4 57  1  0
  5 58  1  0
  5 59  1  0
  6 60  1  1
 10 61  1  6
 11 62  1  6
 12 63  1  0
 12 64  1  0
 12 65  1  0
 13 66  1  0
 13 67  1  0
 13 68  1  0
 15 69  1  0
 15 70  1  0
 15 71  1  0
 18 72  1  6
 19 73  1  0
 19 74  1  0
 20 75  1  0
 20 76  1  0
 21 77  1  0
 21 78  1  0
 25 79  1  6
 26 80  1  0
 26 81  1  0
 28 82  1  0
 29 83  1  0
 30 84  1  0
 31 85  1  0
 32 86  1  0
 36 87  1  6
 37 88  1  1
 38 89  1  0
 38 90  1  0
 38 91  1  0
 39 92  1  0
 39 93  1  0
 39 94  1  0
 41 95  1  0
 41 96  1  0
 41 97  1  0
 44 98  1  6
 45 99  1  1
 46100  1  0
 46101  1  0
 46102  1  0
 47103  1  0
 47104  1  0
 47105  1  0
 48106  1  0
 51107  1  6
 52108  1  0
 52109  1  0
 52110  1  0
M  END

HEADER    PROTEIN                                 01-JUL-21   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   01-JUL-21         0                                  
HETATM    1  C   UNK     0      -8.564  -0.684   0.260  0.00  0.00           C+0
HETATM    2  C   UNK     0      -7.459  -0.221   0.389  0.00  0.00           C+0
HETATM    3  C   UNK     0      -6.093   0.370   0.529  0.00  0.00           C+0
HETATM    4  C   UNK     0      -5.186  -0.248  -0.522  0.00  0.00           C+0
HETATM    5  C   UNK     0      -3.821   0.331  -0.442  0.00  0.00           C+0
HETATM    6  C   UNK     0      -3.162   0.093   0.851  0.00  0.00           C+0
HETATM    7  O   UNK     0      -2.921  -1.186   1.267  0.00  0.00           O+0
HETATM    8  C   UNK     0      -2.186  -2.252   0.899  0.00  0.00           C+0
HETATM    9  O   UNK     0      -1.129  -2.563   1.500  0.00  0.00           O+0
HETATM   10  C   UNK     0      -2.592  -3.100  -0.219  0.00  0.00           C+0
HETATM   11  C   UNK     0      -3.356  -4.266   0.387  0.00  0.00           C+0
HETATM   12  C   UNK     0      -2.553  -5.069   1.355  0.00  0.00           C+0
HETATM   13  C   UNK     0      -4.584  -3.749   1.066  0.00  0.00           C+0
HETATM   14  N   UNK     0      -1.559  -3.584  -1.107  0.00  0.00           N+0
HETATM   15  C   UNK     0      -2.138  -4.170  -2.364  0.00  0.00           C+0
HETATM   16  C   UNK     0      -0.171  -3.637  -0.962  0.00  0.00           C+0
HETATM   17  O   UNK     0       0.250  -4.875  -0.830  0.00  0.00           O+0
HETATM   18  C   UNK     0       0.910  -2.653  -0.930  0.00  0.00           C+0
HETATM   19  C   UNK     0       2.068  -3.301  -1.789  0.00  0.00           C+0
HETATM   20  C   UNK     0       2.611  -4.301  -0.754  0.00  0.00           C+0
HETATM   21  C   UNK     0       2.106  -3.860   0.595  0.00  0.00           C+0
HETATM   22  N   UNK     0       1.694  -2.490   0.249  0.00  0.00           N+0
HETATM   23  C   UNK     0       1.971  -1.220   0.814  0.00  0.00           C+0
HETATM   24  O   UNK     0       1.791  -1.068   2.038  0.00  0.00           O+0
HETATM   25  C   UNK     0       2.475  -0.053  -0.001  0.00  0.00           C+0
HETATM   26  C   UNK     0       3.910   0.155   0.354  0.00  0.00           C+0
HETATM   27  C   UNK     0       4.781  -1.004   0.091  0.00  0.00           C+0
HETATM   28  C   UNK     0       5.073  -1.972   1.027  0.00  0.00           C+0
HETATM   29  C   UNK     0       5.899  -3.042   0.752  0.00  0.00           C+0
HETATM   30  C   UNK     0       6.472  -3.181  -0.499  0.00  0.00           C+0
HETATM   31  C   UNK     0       6.193  -2.228  -1.445  0.00  0.00           C+0
HETATM   32  C   UNK     0       5.371  -1.170  -1.159  0.00  0.00           C+0
HETATM   33  O   UNK     0       1.668   1.047   0.173  0.00  0.00           O+0
HETATM   34  C   UNK     0       1.763   2.209   0.825  0.00  0.00           C+0
HETATM   35  O   UNK     0       1.132   2.400   1.932  0.00  0.00           O+0
HETATM   36  C   UNK     0       2.556   3.418   0.432  0.00  0.00           C+0
HETATM   37  C   UNK     0       3.077   4.080   1.720  0.00  0.00           C+0
HETATM   38  C   UNK     0       3.952   3.090   2.480  0.00  0.00           C+0
HETATM   39  C   UNK     0       3.848   5.325   1.500  0.00  0.00           C+0
HETATM   40  N   UNK     0       1.784   4.369  -0.345  0.00  0.00           N+0
HETATM   41  C   UNK     0       2.575   5.258  -1.215  0.00  0.00           C+0
HETATM   42  C   UNK     0       0.394   4.539  -0.340  0.00  0.00           C+0
HETATM   43  O   UNK     0      -0.075   5.699  -0.057  0.00  0.00           O+0
HETATM   44  C   UNK     0      -0.667   3.512  -0.635  0.00  0.00           C+0
HETATM   45  C   UNK     0      -1.392   4.121  -1.864  0.00  0.00           C+0
HETATM   46  C   UNK     0      -2.488   3.174  -2.272  0.00  0.00           C+0
HETATM   47  C   UNK     0      -0.415   4.332  -3.004  0.00  0.00           C+0
HETATM   48  N   UNK     0      -1.619   3.498   0.423  0.00  0.00           N+0
HETATM   49  C   UNK     0      -2.356   2.409   0.927  0.00  0.00           C+0
HETATM   50  O   UNK     0      -3.541   2.695   1.326  0.00  0.00           O+0
HETATM   51  C   UNK     0      -1.950   1.022   1.053  0.00  0.00           C+0
HETATM   52  C   UNK     0      -1.497   0.824   2.518  0.00  0.00           C+0
HETATM   53  H   UNK     0      -9.538  -1.080   0.133  0.00  0.00           H+0
HETATM   54  H   UNK     0      -5.780   0.120   1.571  0.00  0.00           H+0
HETATM   55  H   UNK     0      -6.169   1.444   0.320  0.00  0.00           H+0
HETATM   56  H   UNK     0      -5.200  -1.335  -0.392  0.00  0.00           H+0
HETATM   57  H   UNK     0      -5.652   0.054  -1.501  0.00  0.00           H+0
HETATM   58  H   UNK     0      -3.956   1.450  -0.541  0.00  0.00           H+0
HETATM   59  H   UNK     0      -3.188   0.075  -1.328  0.00  0.00           H+0
HETATM   60  H   UNK     0      -3.887   0.520   1.643  0.00  0.00           H+0
HETATM   61  H   UNK     0      -3.339  -2.597  -0.889  0.00  0.00           H+0
HETATM   62  H   UNK     0      -3.705  -4.980  -0.388  0.00  0.00           H+0
HETATM   63  H   UNK     0      -3.261  -5.832   1.787  0.00  0.00           H+0
HETATM   64  H   UNK     0      -1.729  -5.646   0.915  0.00  0.00           H+0
HETATM   65  H   UNK     0      -2.228  -4.478   2.259  0.00  0.00           H+0
HETATM   66  H   UNK     0      -4.457  -2.801   1.615  0.00  0.00           H+0
HETATM   67  H   UNK     0      -5.425  -3.585   0.342  0.00  0.00           H+0
HETATM   68  H   UNK     0      -4.979  -4.487   1.819  0.00  0.00           H+0
HETATM   69  H   UNK     0      -2.084  -3.458  -3.205  0.00  0.00           H+0
HETATM   70  H   UNK     0      -3.213  -4.378  -2.248  0.00  0.00           H+0
HETATM   71  H   UNK     0      -1.579  -5.078  -2.628  0.00  0.00           H+0
HETATM   72  H   UNK     0       0.677  -1.675  -1.407  0.00  0.00           H+0
HETATM   73  H   UNK     0       1.565  -3.828  -2.595  0.00  0.00           H+0
HETATM   74  H   UNK     0       2.793  -2.540  -2.067  0.00  0.00           H+0
HETATM   75  H   UNK     0       3.737  -4.163  -0.776  0.00  0.00           H+0
HETATM   76  H   UNK     0       2.454  -5.336  -1.015  0.00  0.00           H+0
HETATM   77  H   UNK     0       2.962  -3.885   1.311  0.00  0.00           H+0
HETATM   78  H   UNK     0       1.332  -4.453   1.055  0.00  0.00           H+0
HETATM   79  H   UNK     0       2.451  -0.320  -1.087  0.00  0.00           H+0
HETATM   80  H   UNK     0       4.002   0.390   1.442  0.00  0.00           H+0
HETATM   81  H   UNK     0       4.369   1.012  -0.221  0.00  0.00           H+0
HETATM   82  H   UNK     0       4.649  -1.910   2.021  0.00  0.00           H+0
HETATM   83  H   UNK     0       6.121  -3.801   1.505  0.00  0.00           H+0
HETATM   84  H   UNK     0       7.130  -4.035  -0.716  0.00  0.00           H+0
HETATM   85  H   UNK     0       6.632  -2.326  -2.418  0.00  0.00           H+0
HETATM   86  H   UNK     0       5.179  -0.438  -1.942  0.00  0.00           H+0
HETATM   87  H   UNK     0       3.442   3.149  -0.144  0.00  0.00           H+0
HETATM   88  H   UNK     0       2.190   4.250   2.363  0.00  0.00           H+0
HETATM   89  H   UNK     0       4.536   3.573   3.264  0.00  0.00           H+0
HETATM   90  H   UNK     0       3.374   2.224   2.854  0.00  0.00           H+0
HETATM   91  H   UNK     0       4.703   2.661   1.756  0.00  0.00           H+0
HETATM   92  H   UNK     0       3.147   6.195   1.611  0.00  0.00           H+0
HETATM   93  H   UNK     0       4.464   5.390   0.608  0.00  0.00           H+0
HETATM   94  H   UNK     0       4.570   5.469   2.370  0.00  0.00           H+0
HETATM   95  H   UNK     0       2.119   5.462  -2.195  0.00  0.00           H+0
HETATM   96  H   UNK     0       3.552   4.787  -1.456  0.00  0.00           H+0
HETATM   97  H   UNK     0       2.646   6.223  -0.689  0.00  0.00           H+0
HETATM   98  H   UNK     0      -0.274   2.552  -0.948  0.00  0.00           H+0
HETATM   99  H   UNK     0      -1.846   5.091  -1.613  0.00  0.00           H+0
HETATM  100  H   UNK     0      -3.387   3.454  -1.694  0.00  0.00           H+0
HETATM  101  H   UNK     0      -2.244   2.122  -2.075  0.00  0.00           H+0
HETATM  102  H   UNK     0      -2.775   3.312  -3.348  0.00  0.00           H+0
HETATM  103  H   UNK     0      -0.125   5.411  -3.038  0.00  0.00           H+0
HETATM  104  H   UNK     0       0.451   3.650  -2.949  0.00  0.00           H+0
HETATM  105  H   UNK     0      -1.014   4.172  -3.948  0.00  0.00           H+0
HETATM  106  H   UNK     0      -1.793   4.438   0.895  0.00  0.00           H+0
HETATM  107  H   UNK     0      -1.162   0.654   0.410  0.00  0.00           H+0
HETATM  108  H   UNK     0      -1.336   1.815   2.983  0.00  0.00           H+0
HETATM  109  H   UNK     0      -0.539   0.271   2.557  0.00  0.00           H+0
HETATM  110  H   UNK     0      -2.238   0.235   3.082  0.00  0.00           H+0
CONECT    1    2   53                                                       
CONECT    2    1    3                                                       
CONECT    3    2    4   54   55                                             
CONECT    4    3    5   56   57                                             
CONECT    5    4    6   58   59                                             
CONECT    6    5    7   51   60                                             
CONECT    7    6    8                                                       
CONECT    8    7    9   10                                                  
CONECT    9    8                                                            
CONECT   10    8   11   14   61                                             
CONECT   11   10   12   13   62                                             
CONECT   12   11   63   64   65                                             
CONECT   13   11   66   67   68                                             
CONECT   14   10   15   16                                                  
CONECT   15   14   69   70   71                                             
CONECT   16   14   17   18                                                  
CONECT   17   16                                                            
CONECT   18   16   19   22   72                                             
CONECT   19   18   20   73   74                                             
CONECT   20   19   21   75   76                                             
CONECT   21   20   22   77   78                                             
CONECT   22   21   23   18                                                  
CONECT   23   22   24   25                                                  
CONECT   24   23                                                            
CONECT   25   23   26   33   79                                             
CONECT   26   25   27   80   81                                             
CONECT   27   26   28   32                                                  
CONECT   28   27   29   82                                                  
CONECT   29   28   30   83                                                  
CONECT   30   29   31   84                                                  
CONECT   31   30   32   85                                                  
CONECT   32   31   27   86                                                  
CONECT   33   25   34                                                       
CONECT   34   33   35   36                                                  
CONECT   35   34                                                            
CONECT   36   34   37   40   87                                             
CONECT   37   36   38   39   88                                             
CONECT   38   37   89   90   91                                             
CONECT   39   37   92   93   94                                             
CONECT   40   36   41   42                                                  
CONECT   41   40   95   96   97                                             
CONECT   42   40   43   44                                                  
CONECT   43   42                                                            
CONECT   44   42   45   48   98                                             
CONECT   45   44   46   47   99                                             
CONECT   46   45  100  101  102                                             
CONECT   47   45  103  104  105                                             
CONECT   48   44   49  106                                                  
CONECT   49   48   50   51                                                  
CONECT   50   49                                                            
CONECT   51   49   52    6  107                                             
CONECT   52   51  108  109  110                                             
CONECT   53    1                                                            
CONECT   54    3                                                            
CONECT   55    3                                                            
CONECT   56    4                                                            
CONECT   57    4                                                            
CONECT   58    5                                                            
CONECT   59    5                                                            
CONECT   60    6                                                            
CONECT   61   10                                                            
CONECT   62   11                                                            
CONECT   63   12                                                            
CONECT   64   12                                                            
CONECT   65   12                                                            
CONECT   66   13                                                            
CONECT   67   13                                                            
CONECT   68   13                                                            
CONECT   69   15                                                            
CONECT   70   15                                                            
CONECT   71   15                                                            
CONECT   72   18                                                            
CONECT   73   19                                                            
CONECT   74   19                                                            
CONECT   75   20                                                            
CONECT   76   20                                                            
CONECT   77   21                                                            
CONECT   78   21                                                            
CONECT   79   25                                                            
CONECT   80   26                                                            
CONECT   81   26                                                            
CONECT   82   28                                                            
CONECT   83   29                                                            
CONECT   84   30                                                            
CONECT   85   31                                                            
CONECT   86   32                                                            
CONECT   87   36                                                            
CONECT   88   37                                                            
CONECT   89   38                                                            
CONECT   90   38                                                            
CONECT   91   38                                                            
CONECT   92   39                                                            
CONECT   93   39                                                            
CONECT   94   39                                                            
CONECT   95   41                                                            
CONECT   96   41                                                            
CONECT   97   41                                                            
CONECT   98   44                                                            
CONECT   99   45                                                            
CONECT  100   46                                                            
CONECT  101   46                                                            
CONECT  102   46                                                            
CONECT  103   47                                                            
CONECT  104   47                                                            
CONECT  105   47                                                            
CONECT  106   48                                                            
CONECT  107   51                                                            
CONECT  108   52                                                            
CONECT  109   52                                                            
CONECT  110   52                                                            
MASTER        0    0    0    0    0    0    0    0  110    0  224    0
END

RDKit          3D

110112  0  0  0  0  0  0  0  0999 V2000
   -8.5637   -0.6840    0.2599 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.4593   -0.2205    0.3891 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.0934    0.3700    0.5288 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.1856   -0.2483   -0.5224 C   0  0  0  0  0  0  0  0  0  0  0  0
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M  END

View in JSmol View NMR Assignments

Synonyms

Not Available

Chemical Formula

C₄₀H₅₈N₄O₈

Average Mass

722.9240 Da

Monoisotopic Mass

722.42546 Da

IUPAC Name

(3S,6R,7S,10S,13S,16S,21aS)-16-benzyl-2,7,12-trimethyl-6-(pent-4-yn-1-yl)-3,10,13-tris(propan-2-yl)-octadecahydro-1H-pyrrolo[2,1-f]1,10-dioxa-4,7,13,16-tetraazacyclononadecane-1,4,8,11,14,17-hexone

Traditional Name

(3S,6R,7S,10S,13S,16S,21aS)-16-benzyl-3,10,13-triisopropyl-2,7,12-trimethyl-6-(pent-4-yn-1-yl)-decahydro-3H-pyrrolo[2,1-f]1,10-dioxa-4,7,13,16-tetraazacyclononadecane-1,4,8,11,14,17-hexone

CAS Registry Number

Not Available

SMILES

CC(C)[C@@H]1NC(=O)[C@@H](C)[C@@H](CCCC#C)OC(=O)[C@H](C(C)C)N(C)C(=O)[C@@H]2CCCN2C(=O)[C@H](CC2=CC=CC=C2)OC(=O)[C@H](C(C)C)N(C)C1=O

InChI Identifier

InChI=1S/C40H58N4O8/c1-11-12-14-21-30-27(8)35(45)41-32(24(2)3)38(48)43(10)34(26(6)7)40(50)52-31(23-28-18-15-13-16-19-28)37(47)44-22-17-20-29(44)36(46)42(9)33(25(4)5)39(49)51-30/h1,13,15-16,18-19,24-27,29-34H,12,14,17,20-23H2,2-10H3,(H,41,45)/t27-,29-,30+,31-,32-,33-,34-/m0/s1

InChI Key

DIXVUYUBAUWGGM-GRSBAPKZSA-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
Symploca	NPAtlas	21446699
Symploca hydnoides	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as cyclic depsipeptides. These are natural or synthetic compounds having sequences of amino and hydroxy carboxylic acid residues (usually α-amino and α-hydroxy acids) connected in a ring. The residues are commonly but not necessarily regularly alternating.

Kingdom

Organic compounds

Super Class

Organic acids and derivatives

Class

Peptidomimetics

Sub Class

Depsipeptides

Direct Parent

Cyclic depsipeptides

Alternative Parents

Substituents

Cyclic depsipeptide
Macrolide lactam
Alpha-amino acid ester
Macrolactam
Macrolide
Alpha-amino acid or derivatives
Monocyclic benzene moiety
Dicarboxylic acid or derivatives
Benzenoid
Tertiary carboxylic acid amide
Pyrrolidine
Carboxamide group
Carboxylic acid ester
Lactam
Lactone
Secondary carboxylic acid amide
Acetylide
Carboxylic acid derivative
Oxacycle
Azacycle
Organoheterocyclic compound
Hydrocarbon derivative
Organic oxide
Organic oxygen compound
Organic nitrogen compound
Organopnictogen compound
Carbonyl group
Organooxygen compound
Organonitrogen compound
Aromatic heteropolycyclic compound

Molecular Framework

Aromatic heteropolycyclic compounds

External Descriptors

cyclodepsipeptide (CHEBI:67335 )

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	3.92	ALOGPS
logP	4.95	ChemAxon
logS	-5.2	ALOGPS
pKa (Strongest Acidic)	12.5	ChemAxon
pKa (Strongest Basic)	-1.1	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	6	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	142.63 Å²	ChemAxon
Rotatable Bond Count	8	ChemAxon
Refractivity	194.96 m³·mol⁻¹	ChemAxon
Polarizability	78.78 Å³	ChemAxon
Number of Rings	3	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	No	ChemAxon
Ghose Filter	No	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	Yes	ChemAxon

External Links

NPAtlas ID

NPA012253

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FoodDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

26398764

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

Not Available

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Salvador LA, Biggs JS, Paul VJ, Luesch H: Veraguamides A-G, cyclic hexadepsipeptides from a dolastatin 16-producing cyanobacterium Symploca cf. hydnoides from Guam. J Nat Prod. 2011 May 27;74(5):917-27. doi: 10.1021/np200076t. Epub 2011 Mar 29. [PubMed:21446699 ]

Showing NP-Card for Veraguamide F (NP0009880)

MOL for NP0009880 (Veraguamide F)

3D MOL for NP0009880 (Veraguamide F)

3D SDF for NP0009880 (Veraguamide F)

3D-SDF for NP0009880 (Veraguamide F)

PDB for NP0009880 (Veraguamide F)

3D PDB for NP0009880 (Veraguamide F)

SMILES for NP0009880 (Veraguamide F)

INCHI for NP0009880 (Veraguamide F)

Structure for NP0009880 (Veraguamide F)

3D Structure for NP0009880 (Veraguamide F)