NP-MRD: Showing NP-Card for (1r,8s,12s,13s,14s,16r,17r,18s)-18-benzyl-13,20-dihydroxy-6,8,14,16-tetramethyl-2,15-dioxa-19-azatetracyclo[10.8.0.0¹,¹⁷.0¹⁴,¹⁶]icosa-5,10,19-triene-3,7-dione (NP0248858)

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Record Information

Version

2.0

Created at

2022-09-07 11:15:47 UTC

Updated at

2022-09-07 11:15:48 UTC

NP-MRD ID

NP0248858

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(1r,8s,12s,13s,14s,16r,17r,18s)-18-benzyl-13,20-dihydroxy-6,8,14,16-tetramethyl-2,15-dioxa-19-azatetracyclo[10.8.0.0¹,¹⁷.0¹⁴,¹⁶]icosa-5,10,19-triene-3,7-dione

Description

Epoxycytochalasin Z17 belongs to the class of organic compounds known as macrolide lactams. These are cyclic polyketides containing both a cyclic amide and a cyclic ester group. (1r,8s,12s,13s,14s,16r,17r,18s)-18-benzyl-13,20-dihydroxy-6,8,14,16-tetramethyl-2,15-dioxa-19-azatetracyclo[10.8.0.0¹,¹⁷.0¹⁴,¹⁶]icosa-5,10,19-triene-3,7-dione was first documented in 2019 (PMID: 30875204). Based on a literature review very few articles have been published on Epoxycytochalasin Z17.

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1652309072213152D          

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M  END

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M  END


  Mrv1652309072213152D          

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 31 32  1  0  0  0  0
 32 33  1  6  0  0  0
 32 34  1  0  0  0  0
  2 34  1  0  0  0  0
 34 35  2  0  0  0  0
M  END
> <DATABASE_ID>
NP0248858

> <DATABASE_NAME>
NP-MRD

> <SMILES>
C[C@H]1CC=C[C@H]2[C@H](O)[C@]3(C)O[C@]3(C)[C@H]3[C@H](CC4=CC=CC=C4)N=C(O)[C@@]23OC(=O)CC=C(C)C1=O

> <INCHI_IDENTIFIER>
InChI=1S/C28H33NO6/c1-16-9-8-12-19-24(32)27(4)26(3,35-27)23-20(15-18-10-6-5-7-11-18)29-25(33)28(19,23)34-21(30)14-13-17(2)22(16)31/h5-8,10-13,16,19-20,23-24,32H,9,14-15H2,1-4H3,(H,29,33)/t16-,19-,20-,23+,24-,26+,27-,28+/m0/s1

> <INCHI_KEY>
RKAAAUXLURSKIV-IZGWTYEKSA-N

> <FORMULA>
C28H33NO6

> <MOLECULAR_WEIGHT>
479.573

> <EXACT_MASS>
479.230787787

> <JCHEM_ACCEPTOR_COUNT>
6

> <JCHEM_ATOM_COUNT>
68

> <JCHEM_AVERAGE_POLARIZABILITY>
51.284213544786724

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(1R,8S,12S,13S,14S,16R,17R,18S)-18-benzyl-13,20-dihydroxy-6,8,14,16-tetramethyl-2,15-dioxa-19-azatetracyclo[10.8.0.0^{1,17}.0^{14,16}]icosa-5,10,19-triene-3,7-dione

> <JCHEM_LOGP>
2.624405700580644

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
5

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
13.558111924666662

> <JCHEM_PKA_STRONGEST_ACIDIC>
1.7454629789145626

> <JCHEM_PKA_STRONGEST_BASIC>
4.576353978114471

> <JCHEM_POLAR_SURFACE_AREA>
108.72000000000001

> <JCHEM_REFRACTIVITY>
130.65339999999998

> <JCHEM_ROTATABLE_BOND_COUNT>
2

> <JCHEM_RULE_OF_FIVE>
1

> <JCHEM_TRADITIONAL_IUPAC>
(1R,8S,12S,13S,14S,16R,17R,18S)-18-benzyl-13,20-dihydroxy-6,8,14,16-tetramethyl-2,15-dioxa-19-azatetracyclo[10.8.0.0^{1,17}.0^{14,16}]icosa-5,10,19-triene-3,7-dione

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 07-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   07-SEP-22         0                                  
HETATM    1  C   UNK     0       2.683   0.005   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       1.261   0.597   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       1.062   2.124   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       2.285   3.059   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       3.707   2.468   0.000  0.00  0.00           C+0
HETATM    6  O   UNK     0       4.930   3.404   0.000  0.00  0.00           O+0
HETATM    7  O   UNK     0       3.877   0.725   0.000  0.00  0.00           O+0
HETATM    8  C   UNK     0       5.328   0.349   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       4.060   1.223   0.000  0.00  0.00           C+0
HETATM   10  O   UNK     0       2.607   0.712   0.000  0.00  0.00           O+0
HETATM   11  N   UNK     0       4.499   2.699   0.000  0.00  0.00           N+0
HETATM   12  C   UNK     0       6.039   2.737   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       6.913   4.005   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       6.252   5.396   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       4.717   5.519   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       4.056   6.910   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       4.931   8.178   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       6.466   8.055   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       7.127   6.664   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0       6.551   1.285   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0       7.973   0.693   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0       8.564   2.115   0.000  0.00  0.00           C+0
HETATM   23  O   UNK     0       9.395   0.102   0.000  0.00  0.00           O+0
HETATM   24  C   UNK     0       8.171  -0.834   0.000  0.00  0.00           C+0
HETATM   25  C   UNK     0       9.107  -2.057   0.000  0.00  0.00           C+0
HETATM   26  C   UNK     0       6.948  -1.769   0.000  0.00  0.00           C+0
HETATM   27  O   UNK     0       7.147  -3.297   0.000  0.00  0.00           O+0
HETATM   28  C   UNK     0       5.526  -1.178   0.000  0.00  0.00           C+0
HETATM   29  C   UNK     0       4.303  -2.113   0.000  0.00  0.00           C+0
HETATM   30  C   UNK     0       2.881  -1.522   0.000  0.00  0.00           C+0
HETATM   31  C   UNK     0       1.658  -2.458   0.000  0.00  0.00           C+0
HETATM   32  C   UNK     0       0.236  -1.866   0.000  0.00  0.00           C+0
HETATM   33  C   UNK     0      -0.987  -2.802   0.000  0.00  0.00           C+0
HETATM   34  C   UNK     0       0.038  -0.339   0.000  0.00  0.00           C+0
HETATM   35  O   UNK     0      -1.384   0.253   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3   34                                                  
CONECT    3    2    4                                                       
CONECT    4    3    5                                                       
CONECT    5    4    6    7                                                  
CONECT    6    5                                                            
CONECT    7    5    8                                                       
CONECT    8    7    9   20   28                                             
CONECT    9    8   10   11                                                  
CONECT   10    9                                                            
CONECT   11    9   12                                                       
CONECT   12   11   13   20                                                  
CONECT   13   12   14                                                       
CONECT   14   13   15   19                                                  
CONECT   15   14   16                                                       
CONECT   16   15   17                                                       
CONECT   17   16   18                                                       
CONECT   18   17   19                                                       
CONECT   19   18   14                                                       
CONECT   20   12    8   21                                                  
CONECT   21   20   22   23   24                                             
CONECT   22   21                                                            
CONECT   23   21   24                                                       
CONECT   24   23   21   25   26                                             
CONECT   25   24                                                            
CONECT   26   24   27   28                                                  
CONECT   27   26                                                            
CONECT   28   26    8   29                                                  
CONECT   29   28   30                                                       
CONECT   30   29   31                                                       
CONECT   31   30   32                                                       
CONECT   32   31   33   34                                                  
CONECT   33   32                                                            
CONECT   34   32    2   35                                                  
CONECT   35   34                                                            
MASTER        0    0    0    0    0    0    0    0   35    0   78    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₂₈H₃₃NO₆

Average Mass

479.5730 Da

Monoisotopic Mass

479.23079 Da

IUPAC Name

(1R,8S,12S,13S,14S,16R,17R,18S)-18-benzyl-13,20-dihydroxy-6,8,14,16-tetramethyl-2,15-dioxa-19-azatetracyclo[10.8.0.0^{1,17}.0^{14,16}]icosa-5,10,19-triene-3,7-dione

Traditional Name

(1R,8S,12S,13S,14S,16R,17R,18S)-18-benzyl-13,20-dihydroxy-6,8,14,16-tetramethyl-2,15-dioxa-19-azatetracyclo[10.8.0.0^{1,17}.0^{14,16}]icosa-5,10,19-triene-3,7-dione

CAS Registry Number

Not Available

SMILES

C[C@H]1CC=C[C@H]2[C@H](O)[C@]3(C)O[C@]3(C)[C@H]3[C@H](CC4=CC=CC=C4)N=C(O)[C@@]23OC(=O)CC=C(C)C1=O

InChI Identifier

InChI=1S/C28H33NO6/c1-16-9-8-12-19-24(32)27(4)26(3,35-27)23-20(15-18-10-6-5-7-11-18)29-25(33)28(19,23)34-21(30)14-13-17(2)22(16)31/h5-8,10-13,16,19-20,23-24,32H,9,14-15H2,1-4H3,(H,29,33)/t16-,19-,20-,23+,24-,26+,27-,28+/m0/s1

InChI Key

RKAAAUXLURSKIV-IZGWTYEKSA-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 macrolide lactams. These are cyclic polyketides containing both a cyclic amide and a cyclic ester group.

Kingdom

Organic compounds

Super Class

Phenylpropanoids and polyketides

Class

Macrolide lactams

Sub Class

Not Available

Direct Parent

Macrolide lactams

Alternative Parents

Substituents

Macrolide lactam
Macrolide
Macrolactam
Isoindolone
Isoindole or derivatives
Isoindoline
Oxepane
Benzenoid
2-pyrrolidone
Pyrrolidone
Monocyclic benzene moiety
Pyrrolidine
Cyclic alcohol
Cyclic ketone
Secondary carboxylic acid amide
Secondary alcohol
Lactone
Lactam
Ketone
Carboxylic acid ester
Carboxamide group
Oxacycle
Azacycle
Organoheterocyclic compound
Monocarboxylic acid or derivatives
Ether
Oxirane
Dialkyl ether
Carboxylic acid derivative
Organic nitrogen compound
Organic oxygen compound
Organopnictogen compound
Organic oxide
Hydrocarbon derivative
Organooxygen compound
Organonitrogen compound
Carbonyl group
Alcohol
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	2.62	ChemAxon
pKa (Strongest Acidic)	1.75	ChemAxon
pKa (Strongest Basic)	4.58	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	6	ChemAxon
Hydrogen Donor Count	2	ChemAxon
Polar Surface Area	108.72 Å²	ChemAxon
Rotatable Bond Count	2	ChemAxon
Refractivity	130.65 m³·mol⁻¹	ChemAxon
Polarizability	51.28 Å³	ChemAxon
Number of Rings	5	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	No	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

146682721

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Han WB, Zhai YJ, Gao Y, Zhou HY, Xiao J, Pescitelli G, Gao JM: Cytochalasins and an Abietane-Type Diterpenoid with Allelopathic Activities from the Endophytic Fungus Xylaria Species. J Agric Food Chem. 2019 Apr 3;67(13):3643-3650. doi: 10.1021/acs.jafc.9b00273. Epub 2019 Mar 22. [PubMed:30875204 ]
LOTUS database [Link]

Showing NP-Card for (1r,8s,12s,13s,14s,16r,17r,18s)-18-benzyl-13,20-dihydroxy-6,8,14,16-tetramethyl-2,15-dioxa-19-azatetracyclo[10.8.0.0¹,¹⁷.0¹⁴,¹⁶]icosa-5,10,19-triene-3,7-dione (NP0248858)

MOL for NP0248858 ((1r,8s,12s,13s,14s,16r,17r,18s)-18-benzyl-13,20-dihydroxy-6,8,14,16-tetramethyl-2,15-dioxa-19-azatetracyclo[10.8.0.0¹,¹⁷.0¹⁴,¹⁶]icosa-5,10,19-triene-3,7-dione)

3D MOL for NP0248858 ((1r,8s,12s,13s,14s,16r,17r,18s)-18-benzyl-13,20-dihydroxy-6,8,14,16-tetramethyl-2,15-dioxa-19-azatetracyclo[10.8.0.0¹,¹⁷.0¹⁴,¹⁶]icosa-5,10,19-triene-3,7-dione)

3D SDF for NP0248858 ((1r,8s,12s,13s,14s,16r,17r,18s)-18-benzyl-13,20-dihydroxy-6,8,14,16-tetramethyl-2,15-dioxa-19-azatetracyclo[10.8.0.0¹,¹⁷.0¹⁴,¹⁶]icosa-5,10,19-triene-3,7-dione)

3D-SDF for NP0248858 ((1r,8s,12s,13s,14s,16r,17r,18s)-18-benzyl-13,20-dihydroxy-6,8,14,16-tetramethyl-2,15-dioxa-19-azatetracyclo[10.8.0.0¹,¹⁷.0¹⁴,¹⁶]icosa-5,10,19-triene-3,7-dione)

PDB for NP0248858 ((1r,8s,12s,13s,14s,16r,17r,18s)-18-benzyl-13,20-dihydroxy-6,8,14,16-tetramethyl-2,15-dioxa-19-azatetracyclo[10.8.0.0¹,¹⁷.0¹⁴,¹⁶]icosa-5,10,19-triene-3,7-dione)

3D PDB for NP0248858 ((1r,8s,12s,13s,14s,16r,17r,18s)-18-benzyl-13,20-dihydroxy-6,8,14,16-tetramethyl-2,15-dioxa-19-azatetracyclo[10.8.0.0¹,¹⁷.0¹⁴,¹⁶]icosa-5,10,19-triene-3,7-dione)

SMILES for NP0248858 ((1r,8s,12s,13s,14s,16r,17r,18s)-18-benzyl-13,20-dihydroxy-6,8,14,16-tetramethyl-2,15-dioxa-19-azatetracyclo[10.8.0.0¹,¹⁷.0¹⁴,¹⁶]icosa-5,10,19-triene-3,7-dione)

INCHI for NP0248858 ((1r,8s,12s,13s,14s,16r,17r,18s)-18-benzyl-13,20-dihydroxy-6,8,14,16-tetramethyl-2,15-dioxa-19-azatetracyclo[10.8.0.0¹,¹⁷.0¹⁴,¹⁶]icosa-5,10,19-triene-3,7-dione)

Structure for NP0248858 ((1r,8s,12s,13s,14s,16r,17r,18s)-18-benzyl-13,20-dihydroxy-6,8,14,16-tetramethyl-2,15-dioxa-19-azatetracyclo[10.8.0.0¹,¹⁷.0¹⁴,¹⁶]icosa-5,10,19-triene-3,7-dione)

3D Structure for NP0248858 ((1r,8s,12s,13s,14s,16r,17r,18s)-18-benzyl-13,20-dihydroxy-6,8,14,16-tetramethyl-2,15-dioxa-19-azatetracyclo[10.8.0.0¹,¹⁷.0¹⁴,¹⁶]icosa-5,10,19-triene-3,7-dione)