NP-MRD: Showing NP-Card for (3s,3ar,4s,6as,10s,12r,15r,15as)-3-benzyl-1,12-dihydroxy-4,5,10,12-tetramethyl-3h,3ah,4h,6ah,9h,10h,11h,15h-cycloundeca[d]isoindol-15-yl acetate (NP0260271)

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Record Information

Version

2.0

Created at

2022-09-08 02:22:58 UTC

Updated at

2022-09-08 02:22:58 UTC

NP-MRD ID

NP0260271

Secondary Accession Numbers

None

Natural Product Identification

Common Name

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

Description

RKS-1778 belongs to the class of organic compounds known as cytochalasans. These are fungal metabolites structurally characterized by the presence of an isoindolone nucleus fused to a macrocyclic ring, which can either a lactone, as in cytochalasin B, a carbonate, as in cytochalasin E, or a carbocycle, as in cytochalasin D, H, and K. Based on a literature review very few articles have been published on RKS-1778.

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1652309082204222D          

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     RDKit          3D

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  Mrv1652309082204222D          

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 19 20  1  0  0  0  0
 19 21  1  0  0  0  0
 21 22  1  1  0  0  0
 21 23  1  0  0  0  0
 23 24  1  1  0  0  0
 24 25  1  6  0  0  0
 25 26  1  0  0  0  0
 26 27  2  0  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
 26 31  1  0  0  0  0
 24 32  1  0  0  0  0
 32 33  2  0  0  0  0
 33 34  1  0  0  0  0
 35 33  1  1  0  0  0
 17 35  1  0  0  0  0
  5 35  1  0  0  0  0
 23 35  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0260271

> <DATABASE_NAME>
NP-MRD

> <SMILES>
C[C@H]1[C@H]2[C@H](CC3=CC=CC=C3)N=C(O)[C@@]22[C@H](C=C1C)\C=C\C[C@H](C)C[C@@](C)(O)\C=C\[C@H]2OC(C)=O

> <INCHI_IDENTIFIER>
InChI=1S/C30H39NO4/c1-19-10-9-13-24-16-20(2)21(3)27-25(17-23-11-7-6-8-12-23)31-28(33)30(24,27)26(35-22(4)32)14-15-29(5,34)18-19/h6-9,11-16,19,21,24-27,34H,10,17-18H2,1-5H3,(H,31,33)/b13-9+,15-14+/t19-,21+,24-,25-,26+,27-,29-,30+/m0/s1

> <INCHI_KEY>
LYHWACCLUSDGME-HTGZJUKKSA-N

> <FORMULA>
C30H39NO4

> <MOLECULAR_WEIGHT>
477.645

> <EXACT_MASS>
477.28790874

> <JCHEM_ACCEPTOR_COUNT>
4

> <JCHEM_ATOM_COUNT>
74

> <JCHEM_AVERAGE_POLARIZABILITY>
54.418129915495435

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

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

> <JCHEM_LOGP>
4.383777619124688

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
4

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
14.672194144542722

> <JCHEM_PKA_STRONGEST_ACIDIC>
3.3386180151053257

> <JCHEM_PKA_STRONGEST_BASIC>
5.747973200435559

> <JCHEM_POLAR_SURFACE_AREA>
79.12

> <JCHEM_REFRACTIVITY>
141.1134

> <JCHEM_ROTATABLE_BOND_COUNT>
4

> <JCHEM_RULE_OF_FIVE>
1

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

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 08-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   08-SEP-22         0                                  
HETATM    1  C   UNK     0       2.994   0.799   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       1.746  -0.104   0.000  0.00  0.00           C+0
HETATM    3  O   UNK     0       0.340   0.525   0.000  0.00  0.00           O+0
HETATM    4  O   UNK     0       1.917  -1.766   0.000  0.00  0.00           O+0
HETATM    5  C   UNK     0       3.171  -3.186   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       4.543  -2.474   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       5.291  -1.128   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       6.802  -1.423   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       7.301   0.130   0.000  0.00  0.00           C+0
HETATM   10  O   UNK     0       8.457  -1.299   0.000  0.00  0.00           O+0
HETATM   11  C   UNK     0       6.989  -2.951   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       8.211  -4.112   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       9.829  -3.784   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       7.916  -5.623   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       6.460  -6.124   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       5.298  -5.113   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       3.842  -5.613   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       3.547  -7.125   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       2.090  -7.625   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0       1.751  -9.183   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0       0.929  -6.614   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0      -0.533  -7.280   0.000  0.00  0.00           C+0
HETATM   23  C   UNK     0       1.224  -5.103   0.000  0.00  0.00           C+0
HETATM   24  C   UNK     0       0.298  -3.872   0.000  0.00  0.00           C+0
HETATM   25  C   UNK     0      -1.366  -4.002   0.000  0.00  0.00           C+0
HETATM   26  C   UNK     0      -2.034  -2.577   0.000  0.00  0.00           C+0
HETATM   27  C   UNK     0      -3.569  -2.446   0.000  0.00  0.00           C+0
HETATM   28  C   UNK     0      -4.223  -1.052   0.000  0.00  0.00           C+0
HETATM   29  C   UNK     0      -3.342   0.211   0.000  0.00  0.00           C+0
HETATM   30  C   UNK     0      -1.807   0.080   0.000  0.00  0.00           C+0
HETATM   31  C   UNK     0      -1.154  -1.314   0.000  0.00  0.00           C+0
HETATM   32  N   UNK     0       1.182  -2.611   0.000  0.00  0.00           N+0
HETATM   33  C   UNK     0       2.654  -3.062   0.000  0.00  0.00           C+0
HETATM   34  O   UNK     0       3.251  -1.359   0.000  0.00  0.00           O+0
HETATM   35  C   UNK     0       2.680  -4.602   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   35                                                  
CONECT    6    5    7                                                       
CONECT    7    6    8                                                       
CONECT    8    7    9   10   11                                             
CONECT    9    8                                                            
CONECT   10    8                                                            
CONECT   11    8   12                                                       
CONECT   12   11   13   14                                                  
CONECT   13   12                                                            
CONECT   14   12   15                                                       
CONECT   15   14   16                                                       
CONECT   16   15   17                                                       
CONECT   17   16   18   35                                                  
CONECT   18   17   19                                                       
CONECT   19   18   20   21                                                  
CONECT   20   19                                                            
CONECT   21   19   22   23                                                  
CONECT   22   21                                                            
CONECT   23   21   24   35                                                  
CONECT   24   23   25   32                                                  
CONECT   25   24   26                                                       
CONECT   26   25   27   31                                                  
CONECT   27   26   28                                                       
CONECT   28   27   29                                                       
CONECT   29   28   30                                                       
CONECT   30   29   31                                                       
CONECT   31   30   26                                                       
CONECT   32   24   33                                                       
CONECT   33   32   34   35                                                  
CONECT   34   33                                                            
CONECT   35   33   17    5   23                                             
MASTER        0    0    0    0    0    0    0    0   35    0   76    0
END

View in JSmol

Synonyms

Value	Source
21-Acetoxy-18-hydroxy-10-phenyl-5,6,16,18-tetramethyl(11)cytochalasa-6,13,19-trien-1-one	MeSH

Chemical Formula

C₃₀H₃₉NO₄

Average Mass

477.6450 Da

Monoisotopic Mass

477.28791 Da

IUPAC Name

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

Traditional Name

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

CAS Registry Number

Not Available

SMILES

C[C@H]1[C@H]2[C@H](CC3=CC=CC=C3)N=C(O)[C@@]22[C@H](C=C1C)\C=C\C[C@H](C)C[C@@](C)(O)\C=C\[C@H]2OC(C)=O

InChI Identifier

InChI=1S/C30H39NO4/c1-19-10-9-13-24-16-20(2)21(3)27-25(17-23-11-7-6-8-12-23)31-28(33)30(24,27)26(35-22(4)32)14-15-29(5,34)18-19/h6-9,11-16,19,21,24-27,34H,10,17-18H2,1-5H3,(H,31,33)/b13-9+,15-14+/t19-,21+,24-,25-,26+,27-,29-,30+/m0/s1

InChI Key

LYHWACCLUSDGME-HTGZJUKKSA-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 cytochalasans. These are fungal metabolites structurally characterized by the presence of an isoindolone nucleus fused to a macrocyclic ring, which can either a lactone, as in cytochalasin B, a carbonate, as in cytochalasin E, or a carbocycle, as in cytochalasin D, H, and K.

Kingdom

Organic compounds

Super Class

Alkaloids and derivatives

Class

Cytochalasans

Sub Class

Not Available

Direct Parent

Cytochalasans

Alternative Parents

Substituents

Carbocyclic cytochalasan skeleton
Cytochalasan
Isoindolone
Isoindoline
Isoindole
Isoindole or derivatives
Monocyclic benzene moiety
Pyrrolidone
2-pyrrolidone
Benzenoid
Tertiary alcohol
Pyrrolidine
Secondary carboxylic acid amide
Carboxamide group
Lactam
Carboxylic acid ester
Organoheterocyclic compound
Monocarboxylic acid or derivatives
Azacycle
Carboxylic acid derivative
Alcohol
Organopnictogen compound
Organic oxygen compound
Organic nitrogen compound
Organic oxide
Hydrocarbon derivative
Organonitrogen compound
Organooxygen compound
Carbonyl group
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	4.38	ChemAxon
pKa (Strongest Acidic)	3.34	ChemAxon
pKa (Strongest Basic)	5.75	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	4	ChemAxon
Hydrogen Donor Count	2	ChemAxon
Polar Surface Area	79.12 Å²	ChemAxon
Rotatable Bond Count	4	ChemAxon
Refractivity	141.11 m³·mol⁻¹	ChemAxon
Polarizability	54.42 Å³	ChemAxon
Number of Rings	4	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

C00042920

Chemspider ID

8023613

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

9847900

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for (3s,3ar,4s,6as,10s,12r,15r,15as)-3-benzyl-1,12-dihydroxy-4,5,10,12-tetramethyl-3h,3ah,4h,6ah,9h,10h,11h,15h-cycloundeca[d]isoindol-15-yl acetate (NP0260271)

MOL for NP0260271 ((3s,3ar,4s,6as,10s,12r,15r,15as)-3-benzyl-1,12-dihydroxy-4,5,10,12-tetramethyl-3h,3ah,4h,6ah,9h,10h,11h,15h-cycloundeca[d]isoindol-15-yl acetate)

3D MOL for NP0260271 ((3s,3ar,4s,6as,10s,12r,15r,15as)-3-benzyl-1,12-dihydroxy-4,5,10,12-tetramethyl-3h,3ah,4h,6ah,9h,10h,11h,15h-cycloundeca[d]isoindol-15-yl acetate)

3D SDF for NP0260271 ((3s,3ar,4s,6as,10s,12r,15r,15as)-3-benzyl-1,12-dihydroxy-4,5,10,12-tetramethyl-3h,3ah,4h,6ah,9h,10h,11h,15h-cycloundeca[d]isoindol-15-yl acetate)

3D-SDF for NP0260271 ((3s,3ar,4s,6as,10s,12r,15r,15as)-3-benzyl-1,12-dihydroxy-4,5,10,12-tetramethyl-3h,3ah,4h,6ah,9h,10h,11h,15h-cycloundeca[d]isoindol-15-yl acetate)

PDB for NP0260271 ((3s,3ar,4s,6as,10s,12r,15r,15as)-3-benzyl-1,12-dihydroxy-4,5,10,12-tetramethyl-3h,3ah,4h,6ah,9h,10h,11h,15h-cycloundeca[d]isoindol-15-yl acetate)

3D PDB for NP0260271 ((3s,3ar,4s,6as,10s,12r,15r,15as)-3-benzyl-1,12-dihydroxy-4,5,10,12-tetramethyl-3h,3ah,4h,6ah,9h,10h,11h,15h-cycloundeca[d]isoindol-15-yl acetate)

SMILES for NP0260271 ((3s,3ar,4s,6as,10s,12r,15r,15as)-3-benzyl-1,12-dihydroxy-4,5,10,12-tetramethyl-3h,3ah,4h,6ah,9h,10h,11h,15h-cycloundeca[d]isoindol-15-yl acetate)

INCHI for NP0260271 ((3s,3ar,4s,6as,10s,12r,15r,15as)-3-benzyl-1,12-dihydroxy-4,5,10,12-tetramethyl-3h,3ah,4h,6ah,9h,10h,11h,15h-cycloundeca[d]isoindol-15-yl acetate)

Structure for NP0260271 ((3s,3ar,4s,6as,10s,12r,15r,15as)-3-benzyl-1,12-dihydroxy-4,5,10,12-tetramethyl-3h,3ah,4h,6ah,9h,10h,11h,15h-cycloundeca[d]isoindol-15-yl acetate)

3D Structure for NP0260271 ((3s,3ar,4s,6as,10s,12r,15r,15as)-3-benzyl-1,12-dihydroxy-4,5,10,12-tetramethyl-3h,3ah,4h,6ah,9h,10h,11h,15h-cycloundeca[d]isoindol-15-yl acetate)