NP-MRD: Showing NP-Card for 11-benzyl-9-hydroxy-3,6,8-trimethyl-3h,4h,5h,6h,8h,11h,14h,15h,16h,16ah-pyrrolo[2,1-c]1-oxa-4,7-diazacyclotetradecane-1,7,12-trione (NP0320389)

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Record Information

Version

2.0

Created at

2022-09-11 22:00:31 UTC

Updated at

2022-09-11 22:00:31 UTC

NP-MRD ID

NP0320389

Secondary Accession Numbers

None

Natural Product Identification

Common Name

11-benzyl-9-hydroxy-3,6,8-trimethyl-3h,4h,5h,6h,8h,11h,14h,15h,16h,16ah-pyrrolo[2,1-c]1-oxa-4,7-diazacyclotetradecane-1,7,12-trione

Description

11-Benzyl-9-hydroxy-3,6,8-trimethyl-1H,3H,4H,5H,6H,7H,8H,11H,12H,14H,15H,16H,16aH-pyrrolo[2,1-c]1-oxa-4,7-diazacyclotetradecane-1,7,12-trione 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. Based on a literature review very few articles have been published on 11-benzyl-9-hydroxy-3,6,8-trimethyl-1H,3H,4H,5H,6H,7H,8H,11H,12H,14H,15H,16H,16aH-pyrrolo[2,1-c]1-oxa-4,7-diazacyclotetradecane-1,7,12-trione.

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1652309122200002D          

 31 33  0  0  0  0            999 V2000
    6.1642    0.3496    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.9544   -0.4483    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.5406   -1.0289    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.3364   -0.8116    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.9226   -1.3922    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    8.7184   -1.1748    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.7128   -2.1901    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    8.2990   -2.7706    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    6.9170   -2.4074    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.3308   -1.8268    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.7072   -3.2053    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.2934   -3.7858    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.9114   -3.4226    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    5.3252   -2.8420    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.1155   -3.6399    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.7016   -4.2205    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.4975   -4.0032    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.0836   -4.5837    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.8739   -5.3816    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.0780   -5.5989    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.4919   -5.0184    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.5294   -3.0593    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.3196   -3.8572    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.9432   -2.4787    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    3.1196   -2.5258    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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  2  3  1  0  0  0  0
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  4  5  1  0  0  0  0
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M  END

     RDKit          3D

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M  END


  Mrv1652309122200002D          

 31 33  0  0  0  0            999 V2000
    6.1642    0.3496    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.9544   -0.4483    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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M  END
> <DATABASE_ID>
NP0320389

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CC1CCC(C)C(=O)C(C)C(O)=NC(CC2=CC=CC=C2)C(=O)N2CCCC2C(=O)O1

> <INCHI_IDENTIFIER>
InChI=1S/C24H32N2O5/c1-15-11-12-16(2)31-24(30)20-10-7-13-26(20)23(29)19(14-18-8-5-4-6-9-18)25-22(28)17(3)21(15)27/h4-6,8-9,15-17,19-20H,7,10-14H2,1-3H3,(H,25,28)

> <INCHI_KEY>
JFXPTGJYLLVAFU-UHFFFAOYSA-N

> <FORMULA>
C24H32N2O5

> <MOLECULAR_WEIGHT>
428.529

> <EXACT_MASS>
428.231122138

> <JCHEM_ACCEPTOR_COUNT>
5

> <JCHEM_ATOM_COUNT>
63

> <JCHEM_AVERAGE_POLARIZABILITY>
45.17677880186905

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
11-benzyl-9-hydroxy-3,6,8-trimethyl-1H,3H,4H,5H,6H,7H,8H,11H,12H,14H,15H,16H,16aH-pyrrolo[2,1-c]1-oxa-4,7-diazacyclotetradecane-1,7,12-trione

> <JCHEM_LOGP>
3.9940795983333337

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
13.676323294614647

> <JCHEM_PKA_STRONGEST_ACIDIC>
4.706209573440414

> <JCHEM_PKA_STRONGEST_BASIC>
1.4965615735799151

> <JCHEM_POLAR_SURFACE_AREA>
96.27

> <JCHEM_REFRACTIVITY>
115.79669999999999

> <JCHEM_ROTATABLE_BOND_COUNT>
2

> <JCHEM_RULE_OF_FIVE>
1

> <JCHEM_TRADITIONAL_IUPAC>
11-benzyl-9-hydroxy-3,6,8-trimethyl-3H,4H,5H,6H,8H,11H,14H,15H,16H,16aH-pyrrolo[2,1-c]1-oxa-4,7-diazacyclotetradecane-1,7,12-trione

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 12-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   12-SEP-22         0                                  
HETATM    1  C   UNK     0      11.506   0.653   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      11.115  -0.837   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0      12.209  -1.921   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      13.695  -1.515   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      14.789  -2.599   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0      16.274  -2.193   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0      14.397  -4.088   0.000  0.00  0.00           C+0
HETATM    8  O   UNK     0      15.491  -5.172   0.000  0.00  0.00           O+0
HETATM    9  C   UNK     0      12.912  -4.494   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0      11.818  -3.410   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0      12.520  -5.983   0.000  0.00  0.00           C+0
HETATM   12  O   UNK     0      13.614  -7.067   0.000  0.00  0.00           O+0
HETATM   13  N   UNK     0      11.035  -6.389   0.000  0.00  0.00           N+0
HETATM   14  C   UNK     0       9.940  -5.305   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       9.549  -6.794   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0      10.643  -7.878   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0      12.129  -7.473   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0      13.223  -8.556   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0      12.831 -10.046   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0      11.346 -10.451   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0      10.252  -9.368   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0       8.455  -5.711   0.000  0.00  0.00           C+0
HETATM   23  O   UNK     0       8.063  -7.200   0.000  0.00  0.00           O+0
HETATM   24  N   UNK     0       7.361  -4.627   0.000  0.00  0.00           N+0
HETATM   25  C   UNK     0       5.823  -4.715   0.000  0.00  0.00           C+0
HETATM   26  C   UNK     0       5.264  -3.280   0.000  0.00  0.00           C+0
HETATM   27  C   UNK     0       6.457  -2.305   0.000  0.00  0.00           C+0
HETATM   28  C   UNK     0       7.752  -3.138   0.000  0.00  0.00           C+0
HETATM   29  C   UNK     0       9.238  -2.732   0.000  0.00  0.00           C+0
HETATM   30  O   UNK     0      10.332  -3.816   0.000  0.00  0.00           O+0
HETATM   31  O   UNK     0       9.629  -1.242   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3   31                                                  
CONECT    3    2    4                                                       
CONECT    4    3    5                                                       
CONECT    5    4    6    7                                                  
CONECT    6    5                                                            
CONECT    7    5    8    9                                                  
CONECT    8    7                                                            
CONECT    9    7   10   11                                                  
CONECT   10    9                                                            
CONECT   11    9   12   13                                                  
CONECT   12   11                                                            
CONECT   13   11   14                                                       
CONECT   14   13   15   22                                                  
CONECT   15   14   16                                                       
CONECT   16   15   17   21                                                  
CONECT   17   16   18                                                       
CONECT   18   17   19                                                       
CONECT   19   18   20                                                       
CONECT   20   19   21                                                       
CONECT   21   20   16                                                       
CONECT   22   14   23   24                                                  
CONECT   23   22                                                            
CONECT   24   22   25   28                                                  
CONECT   25   24   26                                                       
CONECT   26   25   27                                                       
CONECT   27   26   28                                                       
CONECT   28   27   24   29                                                  
CONECT   29   28   30   31                                                  
CONECT   30   29                                                            
CONECT   31   29    2                                                       
MASTER        0    0    0    0    0    0    0    0   31    0   66    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₂₄H₃₂N₂O₅

Average Mass

428.5290 Da

Monoisotopic Mass

428.23112 Da

IUPAC Name

11-benzyl-9-hydroxy-3,6,8-trimethyl-1H,3H,4H,5H,6H,7H,8H,11H,12H,14H,15H,16H,16aH-pyrrolo[2,1-c]1-oxa-4,7-diazacyclotetradecane-1,7,12-trione

Traditional Name

11-benzyl-9-hydroxy-3,6,8-trimethyl-3H,4H,5H,6H,8H,11H,14H,15H,16H,16aH-pyrrolo[2,1-c]1-oxa-4,7-diazacyclotetradecane-1,7,12-trione

CAS Registry Number

Not Available

SMILES

CC1CCC(C)C(=O)C(C)C(O)=NC(CC2=CC=CC=C2)C(=O)N2CCCC2C(=O)O1

InChI Identifier

InChI=1S/C24H32N2O5/c1-15-11-12-16(2)31-24(30)20-10-7-13-26(20)23(29)19(14-18-8-5-4-6-9-18)25-22(28)17(3)21(15)27/h4-6,8-9,15-17,19-20H,7,10-14H2,1-3H3,(H,25,28)

InChI Key

JFXPTGJYLLVAFU-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, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 252 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 50 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 75 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 101 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 126 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 151 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 176 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 201 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 226 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum

Chemical Shift Submissions

Not Available

Species

Species of Origin

Not Available

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
Alpha-amino acid or derivatives
Monocyclic benzene moiety
Benzenoid
Cyclic carboximidic acid
Tertiary carboxylic acid amide
Pyrrolidine
Carboxamide group
Carboxylic acid ester
Ketone
Lactam
Lactone
Cyclic ketone
Carboxylic acid derivative
Oxacycle
Azacycle
Organoheterocyclic compound
Organic 1,3-dipolar compound
Propargyl-type 1,3-dipolar organic compound
Monocarboxylic acid or derivatives
Organic oxygen compound
Hydrocarbon derivative
Organopnictogen compound
Carbonyl group
Organic oxide
Organooxygen compound
Organic nitrogen compound
Organonitrogen compound
Aromatic heteropolycyclic compound

Molecular Framework

Aromatic heteropolycyclic compounds

External Descriptors

Not Available

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	3.99	ChemAxon
pKa (Strongest Acidic)	4.71	ChemAxon
pKa (Strongest Basic)	1.5	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	5	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	96.27 Å²	ChemAxon
Rotatable Bond Count	2	ChemAxon
Refractivity	115.8 m³·mol⁻¹	ChemAxon
Polarizability	45.18 Å³	ChemAxon
Number of Rings	3	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

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FoodDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

Not Available

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

162913471

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for 11-benzyl-9-hydroxy-3,6,8-trimethyl-3h,4h,5h,6h,8h,11h,14h,15h,16h,16ah-pyrrolo[2,1-c]1-oxa-4,7-diazacyclotetradecane-1,7,12-trione (NP0320389)

MOL for NP0320389 (11-benzyl-9-hydroxy-3,6,8-trimethyl-3h,4h,5h,6h,8h,11h,14h,15h,16h,16ah-pyrrolo[2,1-c]1-oxa-4,7-diazacyclotetradecane-1,7,12-trione)

3D MOL for NP0320389 (11-benzyl-9-hydroxy-3,6,8-trimethyl-3h,4h,5h,6h,8h,11h,14h,15h,16h,16ah-pyrrolo[2,1-c]1-oxa-4,7-diazacyclotetradecane-1,7,12-trione)

3D SDF for NP0320389 (11-benzyl-9-hydroxy-3,6,8-trimethyl-3h,4h,5h,6h,8h,11h,14h,15h,16h,16ah-pyrrolo[2,1-c]1-oxa-4,7-diazacyclotetradecane-1,7,12-trione)

3D-SDF for NP0320389 (11-benzyl-9-hydroxy-3,6,8-trimethyl-3h,4h,5h,6h,8h,11h,14h,15h,16h,16ah-pyrrolo[2,1-c]1-oxa-4,7-diazacyclotetradecane-1,7,12-trione)

PDB for NP0320389 (11-benzyl-9-hydroxy-3,6,8-trimethyl-3h,4h,5h,6h,8h,11h,14h,15h,16h,16ah-pyrrolo[2,1-c]1-oxa-4,7-diazacyclotetradecane-1,7,12-trione)

3D PDB for NP0320389 (11-benzyl-9-hydroxy-3,6,8-trimethyl-3h,4h,5h,6h,8h,11h,14h,15h,16h,16ah-pyrrolo[2,1-c]1-oxa-4,7-diazacyclotetradecane-1,7,12-trione)

SMILES for NP0320389 (11-benzyl-9-hydroxy-3,6,8-trimethyl-3h,4h,5h,6h,8h,11h,14h,15h,16h,16ah-pyrrolo[2,1-c]1-oxa-4,7-diazacyclotetradecane-1,7,12-trione)

INCHI for NP0320389 (11-benzyl-9-hydroxy-3,6,8-trimethyl-3h,4h,5h,6h,8h,11h,14h,15h,16h,16ah-pyrrolo[2,1-c]1-oxa-4,7-diazacyclotetradecane-1,7,12-trione)

Structure for NP0320389 (11-benzyl-9-hydroxy-3,6,8-trimethyl-3h,4h,5h,6h,8h,11h,14h,15h,16h,16ah-pyrrolo[2,1-c]1-oxa-4,7-diazacyclotetradecane-1,7,12-trione)

3D Structure for NP0320389 (11-benzyl-9-hydroxy-3,6,8-trimethyl-3h,4h,5h,6h,8h,11h,14h,15h,16h,16ah-pyrrolo[2,1-c]1-oxa-4,7-diazacyclotetradecane-1,7,12-trione)