NP-MRD: Showing NP-Card for (3s,6s,6ar,10s,12r,15r,15ar)-3-benzyl-1,6,12-trihydroxy-4,5,10,12-tetramethyl-11-oxo-3h,3ah,6h,6ah,9h,10h,15h-cycloundeca[d]isoindol-15-yl acetate (NP0164535)

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Record Information

Version

2.0

Created at

2022-09-02 23:25:58 UTC

Updated at

2022-09-02 23:25:58 UTC

NP-MRD ID

NP0164535

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(3s,6s,6ar,10s,12r,15r,15ar)-3-benzyl-1,6,12-trihydroxy-4,5,10,12-tetramethyl-11-oxo-3h,3ah,6h,6ah,9h,10h,15h-cycloundeca[d]isoindol-15-yl acetate

Description

Cytochalasin C belongs to the class of organic compounds known as isoindoles. These are heteropolycyclic compounds with a structure containing isoindole, a benzo-fused pyrrole. Based on a literature review very few articles have been published on Cytochalasin C.

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1652309032201252D          

 37 40  0  0  1  0            999 V2000
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M  END

     RDKit          3D

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M  END


  Mrv1652309032201252D          

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  8 11  1  0  0  0  0
 11 12  2  0  0  0  0
 11 13  1  0  0  0  0
 13 14  1  1  0  0  0
 13 15  1  0  0  0  0
 16 15  1  4  0  0  0
 16 17  2  0  0  0  0
 18 17  1  1  0  0  0
 18 19  1  0  0  0  0
 19 20  1  6  0  0  0
 19 21  1  0  0  0  0
 21 22  1  0  0  0  0
 21 23  2  0  0  0  0
 23 24  1  0  0  0  0
 23 25  1  0  0  0  0
 25 26  1  0  0  0  0
 26 27  1  6  0  0  0
 27 28  1  0  0  0  0
 28 29  2  0  0  0  0
 29 30  1  0  0  0  0
 30 31  2  0  0  0  0
 31 32  1  0  0  0  0
 32 33  2  0  0  0  0
 28 33  1  0  0  0  0
 26 34  1  0  0  0  0
 34 35  2  0  0  0  0
 35 36  1  0  0  0  0
 37 35  1  1  0  0  0
 25 37  1  0  0  0  0
  5 37  1  0  0  0  0
 18 37  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0164535

> <DATABASE_NAME>
NP-MRD

> <SMILES>
C[C@H]1CC=C[C@H]2[C@H](O)C(C)=C(C)C3[C@H](CC4=CC=CC=C4)N=C(O)[C@@]23[C@H](OC(C)=O)C=C[C@@](C)(O)C1=O

> <INCHI_IDENTIFIER>
InChI=1S/C30H37NO6/c1-17-10-9-13-22-26(33)19(3)18(2)25-23(16-21-11-7-6-8-12-21)31-28(35)30(22,25)24(37-20(4)32)14-15-29(5,36)27(17)34/h6-9,11-15,17,22-26,33,36H,10,16H2,1-5H3,(H,31,35)/t17-,22-,23-,24+,25?,26+,29+,30+/m0/s1

> <INCHI_KEY>
NAIODHJWOHMDJX-VBWDGLFXSA-N

> <FORMULA>
C30H37NO6

> <MOLECULAR_WEIGHT>
507.627

> <EXACT_MASS>
507.262087915

> <JCHEM_ACCEPTOR_COUNT>
6

> <JCHEM_ATOM_COUNT>
74

> <JCHEM_AVERAGE_POLARIZABILITY>
54.935774659006384

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(3S,6S,6aR,10S,12R,15R,15aR)-3-benzyl-1,6,12-trihydroxy-4,5,10,12-tetramethyl-11-oxo-3H,6H,6aH,9H,10H,11H,12H,15H,15bH-cycloundeca[e]isoindol-15-yl acetate

> <ALOGPS_LOGP>
3.29

> <JCHEM_LOGP>
3.0232504965537936

> <ALOGPS_LOGS>
-4.89

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
4

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
12.86686813381786

> <JCHEM_PKA_STRONGEST_ACIDIC>
3.1087515108469117

> <JCHEM_PKA_STRONGEST_BASIC>
5.45859616428836

> <JCHEM_POLAR_SURFACE_AREA>
116.42

> <JCHEM_REFRACTIVITY>
142.85040000000004

> <JCHEM_ROTATABLE_BOND_COUNT>
4

> <JCHEM_RULE_OF_FIVE>
0

> <ALOGPS_SOLUBILITY>
6.61e-03 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(3S,6S,6aR,10S,12R,15R,15aR)-3-benzyl-1,6,12-trihydroxy-4,5,10,12-tetramethyl-11-oxo-3H,6H,6aH,9H,10H,15H,15bH-cycloundeca[e]isoindol-15-yl acetate

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 03-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   03-SEP-22         0                                  
HETATM    1  C   UNK     0       4.493   1.314   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       2.980  -0.004   0.000  0.00  0.00           C+0
HETATM    3  O   UNK     0       1.378   0.801   0.000  0.00  0.00           O+0
HETATM    4  O   UNK     0       2.885  -1.896   0.000  0.00  0.00           O+0
HETATM    5  C   UNK     0       4.482  -2.625   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       4.941  -1.151   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       6.468  -1.349   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       6.752  -2.862   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       7.885  -1.547   0.000  0.00  0.00           C+0
HETATM   10  O   UNK     0       8.474  -2.683   0.000  0.00  0.00           O+0
HETATM   11  C   UNK     0       8.046  -3.942   0.000  0.00  0.00           C+0
HETATM   12  O   UNK     0       9.648  -4.353   0.000  0.00  0.00           O+0
HETATM   13  C   UNK     0       7.848  -5.470   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       8.883  -6.715   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       6.427  -6.062   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       5.203  -5.127   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       3.781  -5.720   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       2.557  -4.785   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       1.136  -5.377   0.000  0.00  0.00           C+0
HETATM   20  O   UNK     0       0.701  -6.929   0.000  0.00  0.00           O+0
HETATM   21  C   UNK     0      -0.088  -4.442   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0      -1.543  -5.129   0.000  0.00  0.00           C+0
HETATM   23  C   UNK     0       0.110  -2.915   0.000  0.00  0.00           C+0
HETATM   24  C   UNK     0      -1.433  -2.432   0.000  0.00  0.00           C+0
HETATM   25  C   UNK     0       1.531  -2.323   0.000  0.00  0.00           C+0
HETATM   26  C   UNK     0       2.042  -0.870   0.000  0.00  0.00           C+0
HETATM   27  C   UNK     0       0.683   0.129   0.000  0.00  0.00           C+0
HETATM   28  C   UNK     0       1.827   1.789   0.000  0.00  0.00           C+0
HETATM   29  C   UNK     0       1.137   3.165   0.000  0.00  0.00           C+0
HETATM   30  C   UNK     0       1.984   4.451   0.000  0.00  0.00           C+0
HETATM   31  C   UNK     0       3.521   4.361   0.000  0.00  0.00           C+0
HETATM   32  C   UNK     0       4.211   2.985   0.000  0.00  0.00           C+0
HETATM   33  C   UNK     0       3.365   1.698   0.000  0.00  0.00           C+0
HETATM   34  N   UNK     0       3.582  -0.907   0.000  0.00  0.00           N+0
HETATM   35  C   UNK     0       4.022  -2.383   0.000  0.00  0.00           C+0
HETATM   36  O   UNK     0       5.403  -3.371   0.000  0.00  0.00           O+0
HETATM   37  C   UNK     0       2.755  -3.258   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3    4                                                  
CONECT    3    2                                                            
CONECT    4    2    5                                                       
CONECT    5    4    6   37                                                  
CONECT    6    5    7                                                       
CONECT    7    6    8                                                       
CONECT    8    7    9   10   11                                             
CONECT    9    8                                                            
CONECT   10    8                                                            
CONECT   11    8   12   13                                                  
CONECT   12   11                                                            
CONECT   13   11   14   15                                                  
CONECT   14   13                                                            
CONECT   15   13   16                                                       
CONECT   16   15   17                                                       
CONECT   17   16   18                                                       
CONECT   18   17   19   37                                                  
CONECT   19   18   20   21                                                  
CONECT   20   19                                                            
CONECT   21   19   22   23                                                  
CONECT   22   21                                                            
CONECT   23   21   24   25                                                  
CONECT   24   23                                                            
CONECT   25   23   26   37                                                  
CONECT   26   25   27   34                                                  
CONECT   27   26   28                                                       
CONECT   28   27   29   33                                                  
CONECT   29   28   30                                                       
CONECT   30   29   31                                                       
CONECT   31   30   32                                                       
CONECT   32   31   33                                                       
CONECT   33   32   28                                                       
CONECT   34   26   35                                                       
CONECT   35   34   36   37                                                  
CONECT   36   35                                                            
CONECT   37   35   25    5   18                                             
MASTER        0    0    0    0    0    0    0    0   37    0   80    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₃₀H₃₇NO₆

Average Mass

507.6270 Da

Monoisotopic Mass

507.26209 Da

IUPAC Name

(3S,6S,6aR,10S,12R,15R,15aR)-3-benzyl-1,6,12-trihydroxy-4,5,10,12-tetramethyl-11-oxo-3H,6H,6aH,9H,10H,11H,12H,15H,15bH-cycloundeca[e]isoindol-15-yl acetate

Traditional Name

(3S,6S,6aR,10S,12R,15R,15aR)-3-benzyl-1,6,12-trihydroxy-4,5,10,12-tetramethyl-11-oxo-3H,6H,6aH,9H,10H,15H,15bH-cycloundeca[e]isoindol-15-yl acetate

CAS Registry Number

Not Available

SMILES

C[C@H]1CC=C[C@H]2[C@H](O)C(C)=C(C)C3[C@H](CC4=CC=CC=C4)N=C(O)[C@@]23[C@H](OC(C)=O)C=C[C@@](C)(O)C1=O

InChI Identifier

InChI=1S/C30H37NO6/c1-17-10-9-13-22-26(33)19(3)18(2)25-23(16-21-11-7-6-8-12-21)31-28(35)30(22,25)24(37-20(4)32)14-15-29(5,36)27(17)34/h6-9,11-15,17,22-26,33,36H,10,16H2,1-5H3,(H,31,35)/t17-,22-,23-,24+,25?,26+,29+,30+/m0/s1

InChI Key

NAIODHJWOHMDJX-VBWDGLFXSA-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 isoindoles. These are heteropolycyclic compounds with a structure containing isoindole, a benzo-fused pyrrole.

Kingdom

Organic compounds

Super Class

Organoheterocyclic compounds

Class

Isoindoles and derivatives

Sub Class

Isoindoles

Direct Parent

Isoindoles

Alternative Parents

Substituents

Isoindole
Benzenoid
Monocyclic benzene moiety
Acyloin
Cyclic carboximidic acid
Tertiary alcohol
Pyrroline
Cyclic ketone
Secondary alcohol
Ketone
Carboxylic acid ester
Azacycle
Organic 1,3-dipolar compound
Propargyl-type 1,3-dipolar organic compound
Polyol
Monocarboxylic acid or derivatives
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	3.29	ALOGPS
logP	3.02	ChemAxon
logS	-4.9	ALOGPS
pKa (Strongest Acidic)	3.11	ChemAxon
pKa (Strongest Basic)	5.46	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	6	ChemAxon
Hydrogen Donor Count	3	ChemAxon
Polar Surface Area	116.42 Å²	ChemAxon
Rotatable Bond Count	4	ChemAxon
Refractivity	142.85 m³·mol⁻¹	ChemAxon
Polarizability	54.94 Å³	ChemAxon
Number of Rings	4	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

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FoodDB ID

Not Available

KNApSAcK ID

C00011323

Chemspider ID

78430267

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

131668614

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for (3s,6s,6ar,10s,12r,15r,15ar)-3-benzyl-1,6,12-trihydroxy-4,5,10,12-tetramethyl-11-oxo-3h,3ah,6h,6ah,9h,10h,15h-cycloundeca[d]isoindol-15-yl acetate (NP0164535)

MOL for NP0164535 ((3s,6s,6ar,10s,12r,15r,15ar)-3-benzyl-1,6,12-trihydroxy-4,5,10,12-tetramethyl-11-oxo-3h,3ah,6h,6ah,9h,10h,15h-cycloundeca[d]isoindol-15-yl acetate)

3D MOL for NP0164535 ((3s,6s,6ar,10s,12r,15r,15ar)-3-benzyl-1,6,12-trihydroxy-4,5,10,12-tetramethyl-11-oxo-3h,3ah,6h,6ah,9h,10h,15h-cycloundeca[d]isoindol-15-yl acetate)

3D SDF for NP0164535 ((3s,6s,6ar,10s,12r,15r,15ar)-3-benzyl-1,6,12-trihydroxy-4,5,10,12-tetramethyl-11-oxo-3h,3ah,6h,6ah,9h,10h,15h-cycloundeca[d]isoindol-15-yl acetate)

3D-SDF for NP0164535 ((3s,6s,6ar,10s,12r,15r,15ar)-3-benzyl-1,6,12-trihydroxy-4,5,10,12-tetramethyl-11-oxo-3h,3ah,6h,6ah,9h,10h,15h-cycloundeca[d]isoindol-15-yl acetate)

PDB for NP0164535 ((3s,6s,6ar,10s,12r,15r,15ar)-3-benzyl-1,6,12-trihydroxy-4,5,10,12-tetramethyl-11-oxo-3h,3ah,6h,6ah,9h,10h,15h-cycloundeca[d]isoindol-15-yl acetate)

3D PDB for NP0164535 ((3s,6s,6ar,10s,12r,15r,15ar)-3-benzyl-1,6,12-trihydroxy-4,5,10,12-tetramethyl-11-oxo-3h,3ah,6h,6ah,9h,10h,15h-cycloundeca[d]isoindol-15-yl acetate)

SMILES for NP0164535 ((3s,6s,6ar,10s,12r,15r,15ar)-3-benzyl-1,6,12-trihydroxy-4,5,10,12-tetramethyl-11-oxo-3h,3ah,6h,6ah,9h,10h,15h-cycloundeca[d]isoindol-15-yl acetate)

INCHI for NP0164535 ((3s,6s,6ar,10s,12r,15r,15ar)-3-benzyl-1,6,12-trihydroxy-4,5,10,12-tetramethyl-11-oxo-3h,3ah,6h,6ah,9h,10h,15h-cycloundeca[d]isoindol-15-yl acetate)

Structure for NP0164535 ((3s,6s,6ar,10s,12r,15r,15ar)-3-benzyl-1,6,12-trihydroxy-4,5,10,12-tetramethyl-11-oxo-3h,3ah,6h,6ah,9h,10h,15h-cycloundeca[d]isoindol-15-yl acetate)

3D Structure for NP0164535 ((3s,6s,6ar,10s,12r,15r,15ar)-3-benzyl-1,6,12-trihydroxy-4,5,10,12-tetramethyl-11-oxo-3h,3ah,6h,6ah,9h,10h,15h-cycloundeca[d]isoindol-15-yl acetate)