NP-MRD: Showing NP-Card for 5-{7-bromo-9h-pyrido[3,4-b]indol-1-yl}-2-methyl-1,2-oxazolidine (NP0295752)

Jump To Section:

Identification Spectra BioTaxonomy ChemoTaxonomy Physical properties Links References XML

Record Information

Version

2.0

Created at

2022-09-10 04:54:59 UTC

Updated at

2022-09-10 04:55:00 UTC

NP-MRD ID

NP0295752

Secondary Accession Numbers

None

Natural Product Identification

Common Name

5-{7-bromo-9h-pyrido[3,4-b]indol-1-yl}-2-methyl-1,2-oxazolidine

Description

Plakortamine D 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. Plakortamine D is a moderately basic compound (based on its pKa).

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 34 37  0  0  0  0  0  0  0  0999 V2000
   -4.6406    0.0839    0.9930 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6365    1.1272    0.9724 N   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6801    1.6413   -0.4081 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9200    0.4538   -1.0410 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7179    0.6003   -0.0622 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.7509   -0.4627   -0.2534 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1000   -1.6940   -0.6296 N   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1648   -2.6794   -0.8002 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1801   -2.4584   -0.5948 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5678   -1.1807   -0.2015 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.6009   -0.2158   -0.0368 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2739    0.9015    0.2979 N   0  0  0  0  0  0  0  0  0  0  0  0
    2.6039    0.6829    0.3469 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7092    1.5046    0.6020 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.9972    1.0219    0.5412 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.5288    2.1086    0.9042 Br  0  0  0  0  0  0  0  0  0  0  0  0
    5.1846   -0.3106    0.2206 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.1171   -1.1507   -0.0320 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8076   -0.6482    0.0287 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4002    0.6036    1.1623 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.1911   -0.9120    0.9950 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.2151    0.1774    1.9206 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.3264    0.1670    0.1084 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0778    2.5480   -0.5277 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6989    1.6749   -0.8010 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6066    0.6459   -2.0595 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4205   -0.4751   -0.8272 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3322    1.6251   -0.2238 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4377   -3.6818   -1.0985 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.9523   -3.2074   -0.7127 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.7969    1.8093    0.4930 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.5670    2.5443    0.8407 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.1992   -0.6642    0.1721 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.2307   -2.1805   -0.2889 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  3  4  1  0
  4  5  1  0
  5 20  1  0
  5  6  1  0
  6  7  2  0
  7  8  1  0
  8  9  2  0
  9 10  1  0
 10 11  2  0
 11 12  1  0
 12 13  1  0
 13 19  2  0
 19 18  1  0
 18 17  2  0
 17 15  1  0
 15 16  1  0
 15 14  2  0
 20  2  1  0
 11  6  1  0
 14 13  1  0
 19 10  1  0
  1 21  1  0
  1 22  1  0
  1 23  1  0
  3 24  1  0
  3 25  1  0
  4 26  1  0
  4 27  1  0
  5 28  1  6
  8 29  1  0
  9 30  1  0
 12 31  1  0
 18 34  1  0
 17 33  1  0
 14 32  1  0
M  END


  Mrv1533004261513012D          

 20 23  0  0  0  0            999 V2000
    0.9666   -5.6619    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7117   -4.8773    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0729   -4.6223    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0729   -3.7973    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7117   -3.5424    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1966   -4.2098    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.9666   -2.7578    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4146   -2.1447    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    0.6695   -1.3601    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4765   -1.1885    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0285   -1.8016    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8535   -1.8016    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4056   -1.1885    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.2125   -1.3601    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.4675   -2.1447    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.2744   -2.3162    0.0000 Br  0  0  0  0  0  0  0  0  0  0  0  0
    3.9154   -2.7578    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1085   -2.5862    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4410   -3.0712    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.7736   -2.5862    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
  5  6  1  0  0  0  0
  2  6  1  0  0  0  0
  5  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  1  0  0  0  0
 12 13  1  0  0  0  0
 13 14  2  0  0  0  0
 14 15  1  0  0  0  0
 15 16  1  0  0  0  0
 15 17  2  0  0  0  0
 17 18  1  0  0  0  0
 12 18  2  0  0  0  0
 18 19  1  0  0  0  0
 19 20  1  0  0  0  0
  7 20  1  0  0  0  0
 11 20  2  0  0  0  0
M  END
> <DATABASE_ID>
NP0295752

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CN1CCC(O1)C1=NC=CC2=C1NC1=C2C=CC(Br)=C1

> <INCHI_IDENTIFIER>
InChI=1S/C15H14BrN3O/c1-19-7-5-13(20-19)15-14-11(4-6-17-15)10-3-2-9(16)8-12(10)18-14/h2-4,6,8,13,18H,5,7H2,1H3

> <INCHI_KEY>
FJNATDQAXALGTR-UHFFFAOYSA-N

> <FORMULA>
C15H14BrN3O

> <MOLECULAR_WEIGHT>
332.201

> <EXACT_MASS>
331.032025

> <JCHEM_ACCEPTOR_COUNT>
3

> <JCHEM_ATOM_COUNT>
34

> <JCHEM_AVERAGE_POLARIZABILITY>
32.01883429240014

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
5-{7-bromo-9H-pyrido[3,4-b]indol-1-yl}-2-methyl-1,2-oxazolidine

> <ALOGPS_LOGP>
3.12

> <JCHEM_LOGP>
2.378290655666667

> <ALOGPS_LOGS>
-3.81

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
4

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA_STRONGEST_ACIDIC>
12.525529812667816

> <JCHEM_PKA_STRONGEST_BASIC>
2.8776254197977296

> <JCHEM_POLAR_SURFACE_AREA>
41.15

> <JCHEM_REFRACTIVITY>
80.55250000000002

> <JCHEM_ROTATABLE_BOND_COUNT>
1

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
5.20e-02 g/l

> <JCHEM_TRADITIONAL_IUPAC>
5-{7-bromo-9H-pyrido[3,4-b]indol-1-yl}-2-methyl-1,2-oxazolidine

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 26-APR-15   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   26-APR-15         0                                  
HETATM    1  C   UNK     0       1.804 -10.569   0.000  0.00  0.00           C+0
HETATM    2  N   UNK     0       1.328  -9.104   0.000  0.00  0.00           N+0
HETATM    3  C   UNK     0      -0.136  -8.628   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      -0.136  -7.088   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       1.328  -6.612   0.000  0.00  0.00           C+0
HETATM    6  O   UNK     0       2.234  -7.858   0.000  0.00  0.00           O+0
HETATM    7  C   UNK     0       1.804  -5.148   0.000  0.00  0.00           C+0
HETATM    8  N   UNK     0       0.774  -4.003   0.000  0.00  0.00           N+0
HETATM    9  C   UNK     0       1.250  -2.539   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       2.756  -2.219   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       3.787  -3.363   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       5.327  -3.363   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       6.357  -2.219   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       7.863  -2.539   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       8.339  -4.003   0.000  0.00  0.00           C+0
HETATM   16 Br   UNK     0       9.846  -4.324   0.000  0.00  0.00          Br+0
HETATM   17  C   UNK     0       7.309  -5.148   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       5.802  -4.828   0.000  0.00  0.00           C+0
HETATM   19  N   UNK     0       4.557  -5.733   0.000  0.00  0.00           N+0
HETATM   20  C   UNK     0       3.311  -4.828   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3    6                                                  
CONECT    3    2    4                                                       
CONECT    4    3    5                                                       
CONECT    5    4    6    7                                                  
CONECT    6    5    2                                                       
CONECT    7    5    8   20                                                  
CONECT    8    7    9                                                       
CONECT    9    8   10                                                       
CONECT   10    9   11                                                       
CONECT   11   10   12   20                                                  
CONECT   12   11   13   18                                                  
CONECT   13   12   14                                                       
CONECT   14   13   15                                                       
CONECT   15   14   16   17                                                  
CONECT   16   15                                                            
CONECT   17   15   18                                                       
CONECT   18   17   12   19                                                  
CONECT   19   18   20                                                       
CONECT   20   19    7   11                                                  
MASTER        0    0    0    0    0    0    0    0   20    0   46    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₅H₁₄BrN₃O

Average Mass

332.2010 Da

Monoisotopic Mass

331.03202 Da

IUPAC Name

5-{7-bromo-9H-pyrido[3,4-b]indol-1-yl}-2-methyl-1,2-oxazolidine

Traditional Name

5-{7-bromo-9H-pyrido[3,4-b]indol-1-yl}-2-methyl-1,2-oxazolidine

CAS Registry Number

Not Available

SMILES

CN1CCC(O1)C1=NC=CC2=C1NC1=C2C=CC(Br)=C1

InChI Identifier

InChI=1S/C15H14BrN3O/c1-19-7-5-13(20-19)15-14-11(4-6-17-15)10-3-2-9(16)8-12(10)18-14/h2-4,6,8,13,18H,5,7H2,1H3

InChI Key

FJNATDQAXALGTR-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

Not Available

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
Beta-carboline
Pyridoindole
Indole
Indole or derivatives
Aryl bromide
Aryl halide
Pyridine
Benzenoid
Pyrrole
Isoxazolidine
Heteroaromatic compound
Oxacycle
Organoheterocyclic compound
N-organohydroxylamine
Azacycle
Organooxygen compound
Organonitrogen compound
Organobromide
Organohalogen compound
Hydrocarbon derivative
Organic oxygen compound
Organic nitrogen 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	3.12	ALOGPS
logP	2.38	ChemAxon
logS	-3.8	ALOGPS
pKa (Strongest Acidic)	12.53	ChemAxon
pKa (Strongest Basic)	2.88	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	3	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	41.15 Å²	ChemAxon
Rotatable Bond Count	1	ChemAxon
Refractivity	80.55 m³·mol⁻¹	ChemAxon
Polarizability	32.02 Å³	ChemAxon
Number of Rings	4	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

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

10359382

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for 5-{7-bromo-9h-pyrido[3,4-b]indol-1-yl}-2-methyl-1,2-oxazolidine (NP0295752)

MOL for NP0295752 (5-{7-bromo-9h-pyrido[3,4-b]indol-1-yl}-2-methyl-1,2-oxazolidine)

3D MOL for NP0295752 (5-{7-bromo-9h-pyrido[3,4-b]indol-1-yl}-2-methyl-1,2-oxazolidine)

3D SDF for NP0295752 (5-{7-bromo-9h-pyrido[3,4-b]indol-1-yl}-2-methyl-1,2-oxazolidine)

3D-SDF for NP0295752 (5-{7-bromo-9h-pyrido[3,4-b]indol-1-yl}-2-methyl-1,2-oxazolidine)

PDB for NP0295752 (5-{7-bromo-9h-pyrido[3,4-b]indol-1-yl}-2-methyl-1,2-oxazolidine)

3D PDB for NP0295752 (5-{7-bromo-9h-pyrido[3,4-b]indol-1-yl}-2-methyl-1,2-oxazolidine)

SMILES for NP0295752 (5-{7-bromo-9h-pyrido[3,4-b]indol-1-yl}-2-methyl-1,2-oxazolidine)

INCHI for NP0295752 (5-{7-bromo-9h-pyrido[3,4-b]indol-1-yl}-2-methyl-1,2-oxazolidine)

Structure for NP0295752 (5-{7-bromo-9h-pyrido[3,4-b]indol-1-yl}-2-methyl-1,2-oxazolidine)

3D Structure for NP0295752 (5-{7-bromo-9h-pyrido[3,4-b]indol-1-yl}-2-methyl-1,2-oxazolidine)