NP-MRD: Showing NP-Card for 3-{9h-pyrido[3,4-b]indol-1-yl}isoquinoline (NP0302035)

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Record Information

Version

2.0

Created at

2022-09-10 15:20:36 UTC

Updated at

2022-09-10 15:20:37 UTC

NP-MRD ID

NP0302035

Secondary Accession Numbers

None

Natural Product Identification

Common Name

3-{9h-pyrido[3,4-b]indol-1-yl}isoquinoline

Description

Nitramarine belongs to the class of organic compounds known as harmala alkaloids. Harmala alkaloids are compounds with a structure based on harmaline, harmine, harmalol, harman or a derivative of those parents. These parents are beta-carbolines, consisting of a pyrimidine fused to the pyrrole moiety of an indole to form a pyrido[3,4-b]indole. 3-{9h-pyrido[3,4-b]indol-1-yl}isoquinoline is found in Nitraria komarovii. 3-{9h-pyrido[3,4-b]indol-1-yl}isoquinoline was first documented in 2013 (PMID: 23215629). Based on a literature review very few articles have been published on Nitramarine.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 36 40  0  0  0  0  0  0  0  0999 V2000
   -6.0232    0.4651   -0.0844 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.8011    0.1973   -1.4230 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.5088    0.0117   -1.8766 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4234    0.0847   -1.0345 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1187   -0.1032   -1.4957 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0671   -0.0190   -0.6078 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3249   -0.2133   -1.0661 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.5708   -0.4770   -2.3730 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.7934   -0.6688   -2.8893 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8840   -0.5971   -2.0518 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6723   -0.3308   -0.7170 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3951   -0.1372   -0.2142 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4937    0.0994    1.0913 N   0  0  0  0  0  0  0  0  0  0  0  0
    2.7954    0.0622    1.4349 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4599    0.2339    2.6287 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.8353    0.1410    2.7054 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.5951   -0.1294    1.5765 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.9462   -0.3045    0.3707 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5639   -0.2052    0.3254 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3602    0.2429    0.6701 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5940    0.4315    1.1643 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6623    0.3524    0.2964 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.9477    0.5436    0.7831 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.0434    0.6134    0.2831 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.6590    0.1412   -2.0800 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3213   -0.1978   -2.9184 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9633   -0.3118   -2.5456 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.9723   -0.8783   -3.9344 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.9007   -0.7404   -2.3945 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.7228    0.2826    1.7493 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.8549    0.4447    3.5035 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.3516    0.2806    3.6660 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.6650   -0.1910    1.6927 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.5401   -0.5168   -0.5169 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7682    0.6437    2.2256 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0757    0.7498    1.8317 H   0  0  0  0  0  0  0  0  0  0  0  0
 13 14  1  0
 14 19  2  0
 19 18  1  0
 18 17  2  0
 17 16  1  0
 16 15  2  0
 19 11  1  0
 11 12  2  0
 12  7  1  0
  7  8  2  0
  8  9  1  0
  9 10  2  0
  7  6  1  0
  6  5  2  0
  5  4  1  0
  4  3  2  0
  3  2  1  0
  2  1  2  0
  1 23  1  0
 23 22  2  0
 22 21  1  0
 21 20  2  0
 12 13  1  0
 20  6  1  0
 15 14  1  0
 10 11  1  0
 22  4  1  0
 13 30  1  0
 18 34  1  0
 17 33  1  0
 16 32  1  0
 15 31  1  0
  9 28  1  0
 10 29  1  0
  5 27  1  0
  3 26  1  0
  2 25  1  0
  1 24  1  0
 23 36  1  0
 21 35  1  0
M  END


  Mrv1652309102217202D          

 23 27  0  0  0  0            999 V2000
   -0.3502   -4.7329    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3502   -3.9079    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3642   -3.4954    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0787   -3.9079    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.7932   -3.4954    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.5077   -3.9079    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2221   -3.4954    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9366   -3.9079    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    4.6511   -3.4954    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.6511   -2.6704    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9366   -2.2579    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2221   -2.6704    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6090   -2.1184    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    2.9446   -1.3647    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6090   -0.6110    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.0940    0.0564    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9144   -0.0298    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.2500   -0.7835    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7651   -1.4509    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.5077   -4.7329    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.7932   -5.1454    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0787   -4.7329    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3642   -5.1454    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0  0  0  0
  2  3  1  0  0  0  0
  3  4  2  0  0  0  0
  4  5  1  0  0  0  0
  5  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  2  0  0  0  0
 10 11  1  0  0  0  0
 11 12  2  0  0  0  0
  7 12  1  0  0  0  0
 12 13  1  0  0  0  0
 13 14  1  0  0  0  0
 14 15  1  0  0  0  0
 15 16  2  0  0  0  0
 16 17  1  0  0  0  0
 17 18  2  0  0  0  0
 18 19  1  0  0  0  0
 14 19  2  0  0  0  0
 11 19  1  0  0  0  0
  6 20  1  0  0  0  0
 20 21  2  0  0  0  0
 21 22  1  0  0  0  0
  4 22  1  0  0  0  0
 22 23  2  0  0  0  0
  1 23  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0302035

> <DATABASE_NAME>
NP-MRD

> <SMILES>
N1C2=C(C=CC=C2)C2=C1C(=NC=C2)C1=CC2=CC=CC=C2C=N1

> <INCHI_IDENTIFIER>
InChI=1S/C20H13N3/c1-2-6-14-12-22-18(11-13(14)5-1)20-19-16(9-10-21-20)15-7-3-4-8-17(15)23-19/h1-12,23H

> <INCHI_KEY>
XCVKCPXFKRDYKB-UHFFFAOYSA-N

> <FORMULA>
C20H13N3

> <MOLECULAR_WEIGHT>
295.345

> <EXACT_MASS>
295.110947431

> <JCHEM_ACCEPTOR_COUNT>
2

> <JCHEM_ATOM_COUNT>
36

> <JCHEM_AVERAGE_POLARIZABILITY>
33.10268974944956

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
3-{9H-pyrido[3,4-b]indol-1-yl}isoquinoline

> <JCHEM_LOGP>
4.063943605333334

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
5

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA_STRONGEST_ACIDIC>
12.6498844521196

> <JCHEM_PKA_STRONGEST_BASIC>
3.4890528192669374

> <JCHEM_POLAR_SURFACE_AREA>
41.57

> <JCHEM_REFRACTIVITY>
90.0008

> <JCHEM_ROTATABLE_BOND_COUNT>
1

> <JCHEM_RULE_OF_FIVE>
1

> <JCHEM_TRADITIONAL_IUPAC>
3-{9H-pyrido[3,4-b]indol-1-yl}isoquinoline

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 10-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   10-SEP-22         0                                  
HETATM    1  C   UNK     0      -0.654  -8.835   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      -0.654  -7.295   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       0.680  -6.525   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       2.014  -7.295   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       3.347  -6.525   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       4.681  -7.295   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       6.015  -6.525   0.000  0.00  0.00           C+0
HETATM    8  N   UNK     0       7.348  -7.295   0.000  0.00  0.00           N+0
HETATM    9  C   UNK     0       8.682  -6.525   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       8.682  -4.985   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       7.348  -4.215   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       6.015  -4.985   0.000  0.00  0.00           C+0
HETATM   13  N   UNK     0       4.870  -3.954   0.000  0.00  0.00           N+0
HETATM   14  C   UNK     0       5.497  -2.547   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       4.870  -1.141   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       5.775   0.105   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       7.307  -0.056   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       7.933  -1.463   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       7.028  -2.708   0.000  0.00  0.00           C+0
HETATM   20  N   UNK     0       4.681  -8.835   0.000  0.00  0.00           N+0
HETATM   21  C   UNK     0       3.347  -9.605   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0       2.014  -8.835   0.000  0.00  0.00           C+0
HETATM   23  C   UNK     0       0.680  -9.605   0.000  0.00  0.00           C+0
CONECT    1    2   23                                                       
CONECT    2    1    3                                                       
CONECT    3    2    4                                                       
CONECT    4    3    5   22                                                  
CONECT    5    4    6                                                       
CONECT    6    5    7   20                                                  
CONECT    7    6    8   12                                                  
CONECT    8    7    9                                                       
CONECT    9    8   10                                                       
CONECT   10    9   11                                                       
CONECT   11   10   12   19                                                  
CONECT   12   11    7   13                                                  
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   11                                                  
CONECT   20    6   21                                                       
CONECT   21   20   22                                                       
CONECT   22   21    4   23                                                  
CONECT   23   22    1                                                       
MASTER        0    0    0    0    0    0    0    0   23    0   54    0
END

View in JSmol

Synonyms

Value	Source
1-(2-Quinolyl)-9H-pyrido(3,4-b)indole	MeSH

Chemical Formula

C₂₀H₁₃N₃

Average Mass

295.3450 Da

Monoisotopic Mass

295.11095 Da

IUPAC Name

3-{9H-pyrido[3,4-b]indol-1-yl}isoquinoline

Traditional Name

3-{9H-pyrido[3,4-b]indol-1-yl}isoquinoline

CAS Registry Number

Not Available

SMILES

N1C2=C(C=CC=C2)C2=C1C(=NC=C2)C1=CC2=CC=CC=C2C=N1

InChI Identifier

InChI=1S/C20H13N3/c1-2-6-14-12-22-18(11-13(14)5-1)20-19-16(9-10-21-20)15-7-3-4-8-17(15)23-19/h1-12,23H

InChI Key

XCVKCPXFKRDYKB-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

Species Name	Source	Reference
Nitraria komarovii	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as harmala alkaloids. Harmala alkaloids are compounds with a structure based on harmaline, harmine, harmalol, harman or a derivative of those parents. These parents are beta-carbolines, consisting of a pyrimidine fused to the pyrrole moiety of an indole to form a pyrido[3,4-b]indole.

Kingdom

Organic compounds

Super Class

Alkaloids and derivatives

Class

Harmala alkaloids

Sub Class

Not Available

Direct Parent

Harmala alkaloids

Alternative Parents

Substituents

Harman
Pyridoindole
Beta-carboline
Bipyridine
Isoquinoline
Indole or derivatives
Indole
Benzenoid
Pyridine
Heteroaromatic compound
Pyrrole
Azacycle
Organoheterocyclic compound
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	4.06	ChemAxon
pKa (Strongest Acidic)	12.65	ChemAxon
pKa (Strongest Basic)	3.49	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	2	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	41.57 Å²	ChemAxon
Rotatable Bond Count	1	ChemAxon
Refractivity	90 m³·mol⁻¹	ChemAxon
Polarizability	33.1 Å³	ChemAxon
Number of Rings	5	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

111528

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

125317

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Ramesh S, Nagarajan R: A formal synthesis of lavendamycin methyl ester, nitramarine, and their analogues: a Povarov approach. J Org Chem. 2013 Jan 18;78(2):545-58. doi: 10.1021/jo302389s. Epub 2012 Dec 20. [PubMed:23215629 ]
LOTUS database [Link]

Showing NP-Card for 3-{9h-pyrido[3,4-b]indol-1-yl}isoquinoline (NP0302035)

MOL for NP0302035 (3-{9h-pyrido[3,4-b]indol-1-yl}isoquinoline)

3D MOL for NP0302035 (3-{9h-pyrido[3,4-b]indol-1-yl}isoquinoline)

3D SDF for NP0302035 (3-{9h-pyrido[3,4-b]indol-1-yl}isoquinoline)

3D-SDF for NP0302035 (3-{9h-pyrido[3,4-b]indol-1-yl}isoquinoline)

PDB for NP0302035 (3-{9h-pyrido[3,4-b]indol-1-yl}isoquinoline)

3D PDB for NP0302035 (3-{9h-pyrido[3,4-b]indol-1-yl}isoquinoline)

SMILES for NP0302035 (3-{9h-pyrido[3,4-b]indol-1-yl}isoquinoline)

INCHI for NP0302035 (3-{9h-pyrido[3,4-b]indol-1-yl}isoquinoline)

Structure for NP0302035 (3-{9h-pyrido[3,4-b]indol-1-yl}isoquinoline)

3D Structure for NP0302035 (3-{9h-pyrido[3,4-b]indol-1-yl}isoquinoline)