NP-MRD: Showing NP-Card for (6s,8r)-4-ethyl-5,6,8-trimethyl-1h,6h,7h,8h-cyclopenta[g]indole (NP0192826)

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Record Information

Version

2.0

Created at

2022-09-04 10:07:41 UTC

Updated at

2022-09-04 10:07:41 UTC

NP-MRD ID

NP0192826

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(6s,8r)-4-ethyl-5,6,8-trimethyl-1h,6h,7h,8h-cyclopenta[g]indole

Description

Herbindole B belongs to the class of organic compounds known as indoles. Indoles are compounds containing an indole moiety, which consists of pyrrole ring fused to benzene to form 2,3-benzopyrrole. (6s,8r)-4-ethyl-5,6,8-trimethyl-1h,6h,7h,8h-cyclopenta[g]indole was first documented in 2005 (PMID: 15787470). Based on a literature review a small amount of articles have been published on Herbindole B (PMID: 26516291) (PMID: 17256909) (PMID: 27570932) (PMID: 27145857).

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 38 40  0  0  0  0  0  0  0  0999 V2000
    3.7872   -0.8240   -1.0755 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.0234   -0.8712    0.2264 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6617   -0.3074    0.0920 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.5450   -1.1121    0.0121 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7703   -2.5850    0.0293 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7532   -0.6005   -0.1131 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9370    0.7657   -0.1630 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1852    1.5893   -0.0832 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3191    2.9412   -0.1029 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.6155    3.2825    0.0043 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.3562    2.1050    0.0974 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4534    1.0515    0.0418 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3649    1.0203   -0.3270 C   0  0  2  0  0  0  0  0  0  0  0  0
   -2.8446    2.3319    0.2256 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0011   -0.1664    0.3313 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0793   -1.2911   -0.1886 C   0  0  2  0  0  0  0  0  0  0  0  0
   -2.1551   -2.4612    0.7689 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.0562   -1.8430   -1.4265 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.7310   -0.2753   -0.9120 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.1678   -0.3665   -1.8729 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.9963   -1.9076    0.6126 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.5391   -0.2205    0.9991 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0388   -3.1347   -0.4892 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.9916   -2.9728    1.0291 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.6694   -2.7606   -0.6397 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4428    3.6468   -0.1867 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.0808    4.2545    0.0231 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.4274    2.0370    0.1945 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6840    0.9751   -1.4084 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4313    2.6014    1.1978 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7434    3.0956   -0.5656 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9607    2.2193    0.3702 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8619   -0.0838    1.4342 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0438   -0.3439    0.0446 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3954   -1.5187   -1.2065 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2859   -2.5346    1.4384 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2755   -3.3814    0.1683 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0776   -2.3546    1.4196 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  3 12  2  0
 12 11  1  0
 11 10  2  0
 10  9  1  0
  9  8  1  0
  8  7  2  0
  7 13  1  0
 13 14  1  0
 13 15  1  0
 15 16  1  0
 16 17  1  0
 16  6  1  0
  6  4  2  0
  4  5  1  0
  4  3  1  0
  8 12  1  0
  6  7  1  0
  1 18  1  0
  1 19  1  0
  1 20  1  0
  2 21  1  0
  2 22  1  0
 11 28  1  0
 10 27  1  0
  9 26  1  0
 13 29  1  6
 14 30  1  0
 14 31  1  0
 14 32  1  0
 15 33  1  0
 15 34  1  0
 16 35  1  6
 17 36  1  0
 17 37  1  0
 17 38  1  0
  5 23  1  0
  5 24  1  0
  5 25  1  0
M  END


  Mrv1652309042212072D          

 17 19  0  0  1  0            999 V2000
    1.4571    2.4826    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2821    2.4826    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6946    1.7681    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5196    1.7681    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9321    2.4826    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9321    1.0536    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5196    0.3391    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6946    0.3391    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1426   -0.2740    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.3889    0.0616    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4752    0.8821    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2821    1.0536    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.0717   -0.2740    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.9001   -1.0809    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.8253    0.0616    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.7391    0.8821    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    5.3522    1.4341    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  0  0  0
  2  3  1  0  0  0  0
  3  4  1  0  0  0  0
  4  5  1  0  0  0  0
  4  6  2  0  0  0  0
  6  7  1  0  0  0  0
  7  8  2  0  0  0  0
  8  9  1  0  0  0  0
  9 10  1  0  0  0  0
 10 11  2  0  0  0  0
 11 12  1  0  0  0  0
  3 12  2  0  0  0  0
  8 12  1  0  0  0  0
  7 13  1  0  0  0  0
 13 14  1  1  0  0  0
 13 15  1  0  0  0  0
 15 16  1  0  0  0  0
  6 16  1  0  0  0  0
 16 17  1  1  0  0  0
M  END
> <DATABASE_ID>
NP0192826

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CCC1=C2C=CNC2=C2[C@H](C)C[C@H](C)C2=C1C

> <INCHI_IDENTIFIER>
InChI=1S/C16H21N/c1-5-12-11(4)14-9(2)8-10(3)15(14)16-13(12)6-7-17-16/h6-7,9-10,17H,5,8H2,1-4H3/t9-,10+/m0/s1

> <INCHI_KEY>
SLBKOSASZGXKPE-VHSXEESVSA-N

> <FORMULA>
C16H21N

> <MOLECULAR_WEIGHT>
227.351

> <EXACT_MASS>
227.16739968

> <JCHEM_ACCEPTOR_COUNT>
0

> <JCHEM_ATOM_COUNT>
38

> <JCHEM_AVERAGE_POLARIZABILITY>
27.946911970582153

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(6S,8R)-4-ethyl-5,6,8-trimethyl-1H,6H,7H,8H-cyclopenta[g]indole

> <JCHEM_LOGP>
5.1251429863333335

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA_STRONGEST_ACIDIC>
17.393648297978856

> <JCHEM_POLAR_SURFACE_AREA>
15.79

> <JCHEM_REFRACTIVITY>
73.8063

> <JCHEM_ROTATABLE_BOND_COUNT>
1

> <JCHEM_RULE_OF_FIVE>
0

> <JCHEM_TRADITIONAL_IUPAC>
(6S,8R)-4-ethyl-5,6,8-trimethyl-1H,6H,7H,8H-cyclopenta[g]indole

> <JCHEM_VEBER_RULE>
1

$$$$

HEADER    PROTEIN                                 04-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   04-SEP-22         0                                  
HETATM    1  C   UNK     0       2.720   4.634   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       4.260   4.634   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       5.030   3.300   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       6.570   3.300   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       7.340   4.634   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       7.340   1.967   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       6.570   0.633   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       5.030   0.633   0.000  0.00  0.00           C+0
HETATM    9  N   UNK     0       4.000  -0.511   0.000  0.00  0.00           N+0
HETATM   10  C   UNK     0       2.593   0.115   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       2.754   1.647   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       4.260   1.967   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       7.600  -0.511   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       7.280  -2.018   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       9.007   0.115   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       8.846   1.647   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       9.991   2.677   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3                                                       
CONECT    3    2    4   12                                                  
CONECT    4    3    5    6                                                  
CONECT    5    4                                                            
CONECT    6    4    7   16                                                  
CONECT    7    6    8   13                                                  
CONECT    8    7    9   12                                                  
CONECT    9    8   10                                                       
CONECT   10    9   11                                                       
CONECT   11   10   12                                                       
CONECT   12   11    3    8                                                  
CONECT   13    7   14   15                                                  
CONECT   14   13                                                            
CONECT   15   13   16                                                       
CONECT   16   15    6   17                                                  
CONECT   17   16                                                            
MASTER        0    0    0    0    0    0    0    0   17    0   38    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₆H₂₁N

Average Mass

227.3510 Da

Monoisotopic Mass

227.16740 Da

IUPAC Name

(6S,8R)-4-ethyl-5,6,8-trimethyl-1H,6H,7H,8H-cyclopenta[g]indole

Traditional Name

(6S,8R)-4-ethyl-5,6,8-trimethyl-1H,6H,7H,8H-cyclopenta[g]indole

CAS Registry Number

Not Available

SMILES

CCC1=C2C=CNC2=C2[C@H](C)C[C@H](C)C2=C1C

InChI Identifier

InChI=1S/C16H21N/c1-5-12-11(4)14-9(2)8-10(3)15(14)16-13(12)6-7-17-16/h6-7,9-10,17H,5,8H2,1-4H3/t9-,10+/m0/s1

InChI Key

SLBKOSASZGXKPE-VHSXEESVSA-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 indoles. Indoles are compounds containing an indole moiety, which consists of pyrrole ring fused to benzene to form 2,3-benzopyrrole.

Kingdom

Organic compounds

Super Class

Organoheterocyclic compounds

Class

Indoles and derivatives

Sub Class

Indoles

Direct Parent

Indoles

Alternative Parents

Substituents

Indole
Indane
Benzenoid
Heteroaromatic compound
Pyrrole
Azacycle
Organic nitrogen compound
Organopnictogen compound
Hydrocarbon derivative
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	5.13	ChemAxon
pKa (Strongest Acidic)	17.39	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	0	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	15.79 Å²	ChemAxon
Rotatable Bond Count	1	ChemAxon
Refractivity	73.81 m³·mol⁻¹	ChemAxon
Polarizability	27.95 Å³	ChemAxon
Number of Rings	3	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	No	ChemAxon
Ghose Filter	Yes	ChemAxon
Veber's Rule	Yes	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

9588413

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

11413526

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Chandrasoma N, Pathmanathan S, Buszek KR: A Practical, Multi-gram Synthesis of (+/-)-Herbindole A, (+/-)-Herbindole B, and (+/-)-Herbindole C from a Common Intermediate via 6,7-Indole Aryne Cycloaddition and Pd(0)-Catalyzed Cross-Coupling Reactions. Tetrahedron Lett. 2015 Jun 3;56(23):3507-3510. doi: 10.1016/j.tetlet.2015.02.064. [PubMed:26516291 ]
Jackson SK, Kerr MA: Total synthesis of (+/-)-herbindole A, (+/-)-herbindole B, and (+/-)-cis-trikentrin A. J Org Chem. 2007 Feb 16;72(4):1405-11. doi: 10.1021/jo062350v. Epub 2007 Jan 26. [PubMed:17256909 ]
Leal RA, Bischof C, Lee YV, Sawano S, McAtee CC, Latimer LN, Russ ZN, Dueber JE, Yu JQ, Sarpong R: Application of a Palladium-Catalyzed C-H Functionalization/Indolization Method to Syntheses of cis-Trikentrin A and Herbindole B. Angew Chem Int Ed Engl. 2016 Sep 19;55(39):11824-8. doi: 10.1002/anie.201605475. Epub 2016 Aug 29. [PubMed:27570932 ]
Karmakar R, Wang KP, Yun SY, Mamidipalli P, Lee D: Hydrohalogenative aromatization of multiynes promoted by ruthenium alkylidene complexes. Org Biomol Chem. 2016 Jun 7;14(21):4782-8. doi: 10.1039/c6ob00524a. Epub 2016 May 5. [PubMed:27145857 ]
Jackson SK, Banfield SC, Kerr MA: Total synthesis of (+/-)-herbindole B and (+/-)-cis-trikentrin B. Org Lett. 2005 Mar 31;7(7):1215-8. doi: 10.1021/ol047498k. [PubMed:15787470 ]
LOTUS database [Link]

Showing NP-Card for (6s,8r)-4-ethyl-5,6,8-trimethyl-1h,6h,7h,8h-cyclopenta[g]indole (NP0192826)

MOL for NP0192826 ((6s,8r)-4-ethyl-5,6,8-trimethyl-1h,6h,7h,8h-cyclopenta[g]indole)

3D MOL for NP0192826 ((6s,8r)-4-ethyl-5,6,8-trimethyl-1h,6h,7h,8h-cyclopenta[g]indole)

3D SDF for NP0192826 ((6s,8r)-4-ethyl-5,6,8-trimethyl-1h,6h,7h,8h-cyclopenta[g]indole)

3D-SDF for NP0192826 ((6s,8r)-4-ethyl-5,6,8-trimethyl-1h,6h,7h,8h-cyclopenta[g]indole)

PDB for NP0192826 ((6s,8r)-4-ethyl-5,6,8-trimethyl-1h,6h,7h,8h-cyclopenta[g]indole)

3D PDB for NP0192826 ((6s,8r)-4-ethyl-5,6,8-trimethyl-1h,6h,7h,8h-cyclopenta[g]indole)

SMILES for NP0192826 ((6s,8r)-4-ethyl-5,6,8-trimethyl-1h,6h,7h,8h-cyclopenta[g]indole)

INCHI for NP0192826 ((6s,8r)-4-ethyl-5,6,8-trimethyl-1h,6h,7h,8h-cyclopenta[g]indole)

Structure for NP0192826 ((6s,8r)-4-ethyl-5,6,8-trimethyl-1h,6h,7h,8h-cyclopenta[g]indole)

3D Structure for NP0192826 ((6s,8r)-4-ethyl-5,6,8-trimethyl-1h,6h,7h,8h-cyclopenta[g]indole)