NP-MRD: Showing NP-Card for Frankiamide (NP0003692)

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Record Information

Version

1.0

Created at

2020-12-09 00:52:26 UTC

Updated at

2021-07-15 16:47:07 UTC

NP-MRD ID

NP0003692

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Frankiamide

Provided By

NPAtlas

Description

Frankiamide is found in Frankia sp. and Pinus sylvestris. It was first documented in 2001 (PMID: 11375039). Based on a literature review very few articles have been published on 3-hydroxy-13,18-dimethyl-19-[1-oxo-1-(1H-pyrrol-2-yl)propan-2-yl]-20,21-dioxa-9-azatetracyclo[10.8.1.0¹,⁹.0²,⁷]Henicosa-2(7),3,5-triene-8,10-dione.

Structure

MOL 3D MOL SDF 3D SDF PDB SMILES InChI


  Mrv1652306242117493D          

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M  END

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M  END


  Mrv1652306242117493D          

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M  END
> <DATABASE_ID>
NP0003692

> <DATABASE_NAME>
NP-MRD

> <SMILES>
[H]OC1=C2C(=C([H])C([H])=C1[H])C(=O)N1C(=O)C([H])([H])[C@]3([H])O[C@]21O[C@@]([H])([C@@]([H])(C(=O)C1=C([H])C([H])=C([H])N1[H])C([H])([H])[H])[C@@]([H])(C([H])([H])[H])C([H])([H])C([H])([H])C([H])([H])C([H])([H])[C@@]3([H])C([H])([H])[H]

> <INCHI_IDENTIFIER>
InChI=1S/C27H32N2O6/c1-15-8-4-5-9-16(2)25(17(3)24(32)19-11-7-13-28-19)35-27-23-18(10-6-12-20(23)30)26(33)29(27)22(31)14-21(15)34-27/h6-7,10-13,15-17,21,25,28,30H,4-5,8-9,14H2,1-3H3/t15-,16+,17-,21+,25-,27+/m1/s1

> <INCHI_KEY>
VOVIXJKPXLCBEJ-UHFFFAOYSA-N

> <FORMULA>
C27H32N2O6

> <MOLECULAR_WEIGHT>
480.561

> <EXACT_MASS>
480.226036758

> <JCHEM_ACCEPTOR_COUNT>
6

> <JCHEM_ATOM_COUNT>
67

> <JCHEM_AVERAGE_POLARIZABILITY>
49.544676662945406

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(1S,12S,13R,18S,19R)-3-hydroxy-13,18-dimethyl-19-[(2S)-1-oxo-1-(1H-pyrrol-2-yl)propan-2-yl]-20,21-dioxa-9-azatetracyclo[10.8.1.0^{1,9}.0^{2,7}]henicosa-2,4,6-triene-8,10-dione

> <ALOGPS_LOGP>
3.86

> <JCHEM_LOGP>
5.008105349333334

> <ALOGPS_LOGS>
-4.22

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
5

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
13.958831463399722

> <JCHEM_PKA_STRONGEST_ACIDIC>
7.889629778894969

> <JCHEM_PKA_STRONGEST_BASIC>
-4.179192812653923

> <JCHEM_POLAR_SURFACE_AREA>
108.93000000000002

> <JCHEM_REFRACTIVITY>
129.1974

> <JCHEM_ROTATABLE_BOND_COUNT>
3

> <JCHEM_RULE_OF_FIVE>
0

> <ALOGPS_SOLUBILITY>
2.90e-02 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(1S,12S,13R,18S,19R)-3-hydroxy-13,18-dimethyl-19-[(2S)-1-oxo-1-(1H-pyrrol-2-yl)propan-2-yl]-20,21-dioxa-9-azatetracyclo[10.8.1.0^{1,9}.0^{2,7}]henicosa-2,4,6-triene-8,10-dione

> <JCHEM_VEBER_RULE>
0

$$$$

     RDKit          3D

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  1 37  1  0
  1 38  1  0
  2 39  1  6
  3 40  1  0
  3 41  1  0
  4 42  1  0
  4 43  1  0
  5 44  1  0
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  6 46  1  0
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 22 61  1  6
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 23 63  1  0
 30 64  1  0
 31 65  1  0
 32 66  1  0
 34 67  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      -4.629  -1.564  -1.336  0.00  0.00           C+0
HETATM    2  C   UNK     0      -3.181  -1.535  -0.937  0.00  0.00           C+0
HETATM    3  C   UNK     0      -2.978  -1.919   0.515  0.00  0.00           C+0
HETATM    4  C   UNK     0      -2.512  -3.334   0.689  0.00  0.00           C+0
HETATM    5  C   UNK     0      -1.140  -3.626   0.189  0.00  0.00           C+0
HETATM    6  C   UNK     0      -0.066  -2.773   0.843  0.00  0.00           C+0
HETATM    7  C   UNK     0       0.745  -2.082  -0.187  0.00  0.00           C+0
HETATM    8  C   UNK     0       2.033  -2.776  -0.571  0.00  0.00           C+0
HETATM    9  C   UNK     0       1.047  -0.630   0.075  0.00  0.00           C+0
HETATM   10  C   UNK     0       2.242  -0.502   0.993  0.00  0.00           C+0
HETATM   11  C   UNK     0       2.083  -1.103   2.342  0.00  0.00           C+0
HETATM   12  C   UNK     0       2.750   0.879   1.130  0.00  0.00           C+0
HETATM   13  O   UNK     0       2.642   1.442   2.273  0.00  0.00           O+0
HETATM   14  C   UNK     0       3.361   1.654   0.071  0.00  0.00           C+0
HETATM   15  C   UNK     0       3.636   1.255  -1.211  0.00  0.00           C+0
HETATM   16  C   UNK     0       4.247   2.285  -1.908  0.00  0.00           C+0
HETATM   17  C   UNK     0       4.336   3.320  -1.018  0.00  0.00           C+0
HETATM   18  N   UNK     0       3.810   2.945   0.157  0.00  0.00           N+0
HETATM   19  O   UNK     0       0.025   0.042   0.673  0.00  0.00           O+0
HETATM   20  C   UNK     0      -0.754   0.898  -0.108  0.00  0.00           C+0
HETATM   21  O   UNK     0      -1.978   0.269  -0.133  0.00  0.00           O+0
HETATM   22  C   UNK     0      -2.520  -0.179  -1.259  0.00  0.00           C+0
HETATM   23  C   UNK     0      -1.734  -0.391  -2.491  0.00  0.00           C+0
HETATM   24  C   UNK     0      -0.436   0.376  -2.528  0.00  0.00           C+0
HETATM   25  O   UNK     0       0.373   0.281  -3.438  0.00  0.00           O+0
HETATM   26  N   UNK     0      -0.249   1.233  -1.377  0.00  0.00           N+0
HETATM   27  C   UNK     0       0.378   2.491  -1.280  0.00  0.00           C+0
HETATM   28  O   UNK     0       1.103   3.035  -2.186  0.00  0.00           O+0
HETATM   29  C   UNK     0       0.064   3.072   0.022  0.00  0.00           C+0
HETATM   30  C   UNK     0       0.344   4.324   0.593  0.00  0.00           C+0
HETATM   31  C   UNK     0      -0.207   4.598   1.829  0.00  0.00           C+0
HETATM   32  C   UNK     0      -1.004   3.687   2.491  0.00  0.00           C+0
HETATM   33  C   UNK     0      -1.275   2.463   1.934  0.00  0.00           C+0
HETATM   34  O   UNK     0      -2.066   1.514   2.553  0.00  0.00           O+0
HETATM   35  C   UNK     0      -0.718   2.163   0.669  0.00  0.00           C+0
HETATM   36  H   UNK     0      -4.926  -2.600  -1.631  0.00  0.00           H+0
HETATM   37  H   UNK     0      -4.772  -0.944  -2.242  0.00  0.00           H+0
HETATM   38  H   UNK     0      -5.248  -1.208  -0.478  0.00  0.00           H+0
HETATM   39  H   UNK     0      -2.687  -2.364  -1.521  0.00  0.00           H+0
HETATM   40  H   UNK     0      -2.411  -1.166   1.070  0.00  0.00           H+0
HETATM   41  H   UNK     0      -4.011  -1.893   0.979  0.00  0.00           H+0
HETATM   42  H   UNK     0      -2.659  -3.604   1.760  0.00  0.00           H+0
HETATM   43  H   UNK     0      -3.216  -3.981   0.122  0.00  0.00           H+0
HETATM   44  H   UNK     0      -0.909  -4.673   0.404  0.00  0.00           H+0
HETATM   45  H   UNK     0      -1.103  -3.483  -0.892  0.00  0.00           H+0
HETATM   46  H   UNK     0      -0.626  -2.045   1.466  0.00  0.00           H+0
HETATM   47  H   UNK     0       0.584  -3.386   1.496  0.00  0.00           H+0
HETATM   48  H   UNK     0       0.137  -2.097  -1.128  0.00  0.00           H+0
HETATM   49  H   UNK     0       2.567  -3.253   0.253  0.00  0.00           H+0
HETATM   50  H   UNK     0       2.672  -2.089  -1.188  0.00  0.00           H+0
HETATM   51  H   UNK     0       1.821  -3.625  -1.297  0.00  0.00           H+0
HETATM   52  H   UNK     0       1.295  -0.162  -0.885  0.00  0.00           H+0
HETATM   53  H   UNK     0       3.106  -1.058   0.487  0.00  0.00           H+0
HETATM   54  H   UNK     0       2.440  -2.148   2.330  0.00  0.00           H+0
HETATM   55  H   UNK     0       1.075  -1.089   2.774  0.00  0.00           H+0
HETATM   56  H   UNK     0       2.739  -0.603   3.112  0.00  0.00           H+0
HETATM   57  H   UNK     0       3.441   0.296  -1.668  0.00  0.00           H+0
HETATM   58  H   UNK     0       4.573   2.255  -2.931  0.00  0.00           H+0
HETATM   59  H   UNK     0       4.770   4.304  -1.229  0.00  0.00           H+0
HETATM   60  H   UNK     0       3.745   3.532   1.013  0.00  0.00           H+0
HETATM   61  H   UNK     0      -3.406   0.492  -1.500  0.00  0.00           H+0
HETATM   62  H   UNK     0      -1.497  -1.446  -2.710  0.00  0.00           H+0
HETATM   63  H   UNK     0      -2.369  -0.068  -3.374  0.00  0.00           H+0
HETATM   64  H   UNK     0       0.972   4.997   0.032  0.00  0.00           H+0
HETATM   65  H   UNK     0      -0.003   5.570   2.296  0.00  0.00           H+0
HETATM   66  H   UNK     0      -1.406   3.979   3.470  0.00  0.00           H+0
HETATM   67  H   UNK     0      -2.454   1.748   3.455  0.00  0.00           H+0
CONECT    1    2   36   37   38                                             
CONECT    2    1    3   22   39                                             
CONECT    3    2    4   40   41                                             
CONECT    4    3    5   42   43                                             
CONECT    5    4    6   44   45                                             
CONECT    6    5    7   46   47                                             
CONECT    7    6    8    9   48                                             
CONECT    8    7   49   50   51                                             
CONECT    9    7   10   19   52                                             
CONECT   10    9   11   12   53                                             
CONECT   11   10   54   55   56                                             
CONECT   12   10   13   14                                                  
CONECT   13   12                                                            
CONECT   14   12   15   18                                                  
CONECT   15   14   16   57                                                  
CONECT   16   15   17   58                                                  
CONECT   17   16   18   59                                                  
CONECT   18   17   14   60                                                  
CONECT   19    9   20                                                       
CONECT   20   19   21   26   35                                             
CONECT   21   20   22                                                       
CONECT   22   21   23    2   61                                             
CONECT   23   22   24   62   63                                             
CONECT   24   23   25   26                                                  
CONECT   25   24                                                            
CONECT   26   24   27   20                                                  
CONECT   27   26   28   29                                                  
CONECT   28   27                                                            
CONECT   29   27   30   35                                                  
CONECT   30   29   31   64                                                  
CONECT   31   30   32   65                                                  
CONECT   32   31   33   66                                                  
CONECT   33   32   34   35                                                  
CONECT   34   33   67                                                       
CONECT   35   33   29   20                                                  
CONECT   36    1                                                            
CONECT   37    1                                                            
CONECT   38    1                                                            
CONECT   39    2                                                            
CONECT   40    3                                                            
CONECT   41    3                                                            
CONECT   42    4                                                            
CONECT   43    4                                                            
CONECT   44    5                                                            
CONECT   45    5                                                            
CONECT   46    6                                                            
CONECT   47    6                                                            
CONECT   48    7                                                            
CONECT   49    8                                                            
CONECT   50    8                                                            
CONECT   51    8                                                            
CONECT   52    9                                                            
CONECT   53   10                                                            
CONECT   54   11                                                            
CONECT   55   11                                                            
CONECT   56   11                                                            
CONECT   57   15                                                            
CONECT   58   16                                                            
CONECT   59   17                                                            
CONECT   60   18                                                            
CONECT   61   22                                                            
CONECT   62   23                                                            
CONECT   63   23                                                            
CONECT   64   30                                                            
CONECT   65   31                                                            
CONECT   66   32                                                            
CONECT   67   34                                                            
MASTER        0    0    0    0    0    0    0    0   67    0  142    0
END

RDKit          3D

67 71  0  0  0  0  0  0  0  0999 V2000
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    3.6362    1.2552   -1.2112 C   0  0  0  0  0  0  0  0  0  0  0  0
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  2  3  1  0
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 32 33  1  0
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 33 35  2  0
 22  2  1  0
 35 29  1  0
 18 14  1  0
 26 20  1  0
 35 20  1  0
  1 36  1  0
  1 37  1  0
  1 38  1  0
  2 39  1  6
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 31 65  1  0
 32 66  1  0
 34 67  1  0
M  END

View in JSmol View NMR Assignments

Synonyms

Not Available

Chemical Formula

C₂₇H₃₂N₂O₆

Average Mass

480.5610 Da

Monoisotopic Mass

480.22604 Da

IUPAC Name

(1S,12S,13R,18S,19R)-3-hydroxy-13,18-dimethyl-19-[(2S)-1-oxo-1-(1H-pyrrol-2-yl)propan-2-yl]-20,21-dioxa-9-azatetracyclo[10.8.1.0^{1,9}.0^{2,7}]henicosa-2,4,6-triene-8,10-dione

Traditional Name

(1S,12S,13R,18S,19R)-3-hydroxy-13,18-dimethyl-19-[(2S)-1-oxo-1-(1H-pyrrol-2-yl)propan-2-yl]-20,21-dioxa-9-azatetracyclo[10.8.1.0^{1,9}.0^{2,7}]henicosa-2,4,6-triene-8,10-dione

CAS Registry Number

Not Available

SMILES

CC(C1OC23OC(CC(=O)N2C(=O)C2=C3C(O)=CC=C2)C(C)CCCCC1C)C(=O)C1=CC=CN1

InChI Identifier

InChI=1S/C27H32N2O6/c1-15-8-4-5-9-16(2)25(17(3)24(32)19-11-7-13-28-19)35-27-23-18(10-6-12-20(23)30)26(33)29(27)22(31)14-21(15)34-27/h6-7,10-13,15-17,21,25,28,30H,4-5,8-9,14H2,1-3H3

InChI Key

VOVIXJKPXLCBEJ-UHFFFAOYSA-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
Frankia sp.	NPAtlas	11375039
Pinus sylvestris	LOTUS Database	35616633

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	3.86	ALOGPS
logP	5.01	ChemAxon
logS	-4.2	ALOGPS
pKa (Strongest Acidic)	7.89	ChemAxon
pKa (Strongest Basic)	-4.2	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	6	ChemAxon
Hydrogen Donor Count	2	ChemAxon
Polar Surface Area	108.93 Å²	ChemAxon
Rotatable Bond Count	3	ChemAxon
Refractivity	129.2 m³·mol⁻¹	ChemAxon
Polarizability	49.54 Å³	ChemAxon
Number of Rings	5	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	No	ChemAxon
Ghose Filter	No	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	No	ChemAxon

External Links

NPAtlas ID

NPA005377

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FoodDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

8633287

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

10457873

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Klika KD, Haansuu JP, Ovcharenko VV, Haahtela KK, Vuorela PM, Pihlaja K: Frankiamide, a highly unusual macrocycle containing the imide and orthoamide functionalities from the symbiotic actinomycete Frankia. J Org Chem. 2001 Jun 1;66(11):4065-8. doi: 10.1021/jo001789z. [PubMed:11375039 ]

Showing NP-Card for Frankiamide (NP0003692)

MOL for NP0003692 (Frankiamide)

3D MOL for NP0003692 (Frankiamide)

3D SDF for NP0003692 (Frankiamide)

3D-SDF for NP0003692 (Frankiamide)

PDB for NP0003692 (Frankiamide)

3D PDB for NP0003692 (Frankiamide)

SMILES for NP0003692 (Frankiamide)

INCHI for NP0003692 (Frankiamide)

Structure for NP0003692 (Frankiamide)

3D Structure for NP0003692 (Frankiamide)