NP-MRD: Showing NP-Card for n-[4-(5-bromo-1h-indol-3-yl)-3,4,5,6-tetrahydropyrimidin-2-yl]ethanimidic acid (NP0240117)

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Record Information

Version

2.0

Created at

2022-09-06 23:51:15 UTC

Updated at

2022-09-06 23:51:15 UTC

NP-MRD ID

NP0240117

Secondary Accession Numbers

None

Natural Product Identification

Common Name

n-[4-(5-bromo-1h-indol-3-yl)-3,4,5,6-tetrahydropyrimidin-2-yl]ethanimidic acid

Description

N-[6-(5-bromo-1H-indol-3-yl)-1,4,5,6-tetrahydropyrimidin-2-yl]ethanimidic acid belongs to the class of organic compounds known as 3-alkylindoles. 3-Alkylindoles are compounds containing an indole moiety that carries an alkyl chain at the 3-position. N-[6-(5-bromo-1H-indol-3-yl)-1,4,5,6-tetrahydropyrimidin-2-yl]ethanimidic acid is a moderately basic compound (based on its pKa).

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 35 37  0  0  0  0  0  0  0  0999 V2000
    5.3617    0.1377   -0.2267 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.7678    0.1622    1.1102 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.6057    0.2480    2.1017 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.4336    0.1095    1.4538 N   0  0  0  0  0  0  0  0  0  0  0  0
    2.4044   -0.1691    0.7464 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.5896   -0.4804   -0.6394 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.5785    0.1310   -1.5186 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.2742   -0.4031   -1.1018 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0113   -0.6361    0.3371 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.2401    0.1658    0.6549 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4382    1.2711    1.4019 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7792    1.5269    1.4581 N   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4251    0.5681    0.7380 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.7733    0.3948    0.4214 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.1880   -0.6416   -0.4112 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.2362   -1.4863   -0.9097 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.7184   -2.9322   -2.0771 Br  0  0  0  0  0  0  0  0  0  0  0  0
   -2.9137   -1.3070   -0.5918 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4726   -0.2842    0.2332 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0766   -0.1946    1.2129 N   0  0  0  0  0  0  0  0  0  0  0  0
    5.6394   -0.9044   -0.5869 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.3767    0.6509   -0.2179 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.8081    0.7120   -0.9966 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.3445   -1.0928   -1.0020 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.6301    1.2353   -1.5152 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7965   -0.2221   -2.5656 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1619   -1.4107   -1.6762 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5408    0.2076   -1.5695 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2325   -1.6763    0.5647 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6308    1.8475    1.8769 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2016    2.3081    1.9693 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.5283    1.0427    0.8058 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.2322   -0.7438   -0.6546 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1476   -1.9676   -0.9884 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.8606    0.1122    2.1630 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  2  0
  2  4  1  0
  4  5  2  0
  5  6  1  0
  6  7  1  0
  7  8  1  0
  8  9  1  0
  9 20  1  0
  9 10  1  0
 10 11  2  0
 11 12  1  0
 12 13  1  0
 13 14  2  0
 14 15  1  0
 15 16  2  0
 16 17  1  0
 16 18  1  0
 18 19  2  0
 20  5  1  0
 19 10  1  0
 19 13  1  0
  1 21  1  0
  1 22  1  0
  1 23  1  0
  6 24  1  0
  7 25  1  0
  7 26  1  0
  8 27  1  0
  8 28  1  0
  9 29  1  6
 20 35  1  0
 11 30  1  0
 12 31  1  0
 14 32  1  0
 15 33  1  0
 18 34  1  0
M  END


  Mrv1533004251515442D          

 20 22  0  0  0  0            999 V2000
    3.0919   -4.6024    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.5399   -3.9893    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.7948   -3.2047    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.7329   -4.1608    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.1809   -3.5477    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3739   -3.7192    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1781   -3.1062    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0768   -2.3215    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8838   -2.1500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4358   -2.7631    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.1387   -1.3654    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.6538   -0.6979    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1387   -0.0305    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.9233   -0.2854    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6378    0.1271    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.3523   -0.2854    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.3523   -1.1104    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.0668   -1.5229    0.0000 Br  0  0  0  0  0  0  0  0  0  0  0  0
    2.6378   -1.5229    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9233   -1.1104    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  0  0  0
  2  3  2  0  0  0  0
  4  2  1  4  0  0  0
  4  5  2  0  0  0  0
  5  6  1  0  0  0  0
  6  7  1  0  0  0  0
  7  8  1  0  0  0  0
  8  9  1  0  0  0  0
  9 10  1  0  0  0  0
  5 10  1  0  0  0  0
  9 11  1  0  0  0  0
 11 12  2  0  0  0  0
 12 13  1  0  0  0  0
 13 14  1  0  0  0  0
 14 15  2  0  0  0  0
 15 16  1  0  0  0  0
 16 17  2  0  0  0  0
 17 18  1  0  0  0  0
 17 19  1  0  0  0  0
 19 20  2  0  0  0  0
 11 20  1  0  0  0  0
 14 20  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0240117

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CC(=O)N=C1NCCC(N1)C1=CNC2=CC=C(Br)C=C12

> <INCHI_IDENTIFIER>
InChI=1S/C14H15BrN4O/c1-8(20)18-14-16-5-4-13(19-14)11-7-17-12-3-2-9(15)6-10(11)12/h2-3,6-7,13,17H,4-5H2,1H3,(H2,16,18,19,20)

> <INCHI_KEY>
BXUVFNWDBMCEKT-UHFFFAOYSA-N

> <FORMULA>
C14H15BrN4O

> <MOLECULAR_WEIGHT>
335.205

> <EXACT_MASS>
334.042924

> <JCHEM_ACCEPTOR_COUNT>
4

> <JCHEM_ATOM_COUNT>
35

> <JCHEM_AVERAGE_POLARIZABILITY>
31.578493916771453

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
N-[4-(5-bromo-1H-indol-3-yl)-1,3-diazinan-2-ylidene]acetamide

> <ALOGPS_LOGP>
2.50

> <JCHEM_LOGP>
1.3950743673333326

> <ALOGPS_LOGS>
-3.73

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
16.861851735443732

> <JCHEM_PKA_STRONGEST_ACIDIC>
15.792956471930314

> <JCHEM_PKA_STRONGEST_BASIC>
2.0429913106128037

> <JCHEM_POLAR_SURFACE_AREA>
69.28

> <JCHEM_REFRACTIVITY>
80.2475

> <JCHEM_ROTATABLE_BOND_COUNT>
1

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
6.21e-02 g/l

> <JCHEM_TRADITIONAL_IUPAC>
N-[4-(5-bromo-1H-indol-3-yl)-1,3-diazinan-2-ylidene]acetamide

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 25-APR-15   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   25-APR-15         0                                  
HETATM    1  C   UNK     0       5.772  -8.591   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       4.741  -7.447   0.000  0.00  0.00           C+0
HETATM    3  O   UNK     0       5.217  -5.982   0.000  0.00  0.00           O+0
HETATM    4  N   UNK     0       3.235  -7.767   0.000  0.00  0.00           N+0
HETATM    5  C   UNK     0       2.204  -6.622   0.000  0.00  0.00           C+0
HETATM    6  N   UNK     0       0.698  -6.943   0.000  0.00  0.00           N+0
HETATM    7  C   UNK     0      -0.333  -5.798   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       0.143  -4.334   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       1.650  -4.013   0.000  0.00  0.00           C+0
HETATM   10  N   UNK     0       2.680  -5.158   0.000  0.00  0.00           N+0
HETATM   11  C   UNK     0       2.126  -2.549   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       1.220  -1.303   0.000  0.00  0.00           C+0
HETATM   13  N   UNK     0       2.126  -0.057   0.000  0.00  0.00           N+0
HETATM   14  C   UNK     0       3.590  -0.533   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       4.924   0.237   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       6.258  -0.533   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       6.258  -2.073   0.000  0.00  0.00           C+0
HETATM   18 Br   UNK     0       7.591  -2.843   0.000  0.00  0.00          Br+0
HETATM   19  C   UNK     0       4.924  -2.843   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0       3.590  -2.073   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   10                                                  
CONECT    6    5    7                                                       
CONECT    7    6    8                                                       
CONECT    8    7    9                                                       
CONECT    9    8   10   11                                                  
CONECT   10    9    5                                                       
CONECT   11    9   12   20                                                  
CONECT   12   11   13                                                       
CONECT   13   12   14                                                       
CONECT   14   13   15   20                                                  
CONECT   15   14   16                                                       
CONECT   16   15   17                                                       
CONECT   17   16   18   19                                                  
CONECT   18   17                                                            
CONECT   19   17   20                                                       
CONECT   20   19   11   14                                                  
MASTER        0    0    0    0    0    0    0    0   20    0   44    0
END

View in JSmol

Synonyms

Value	Source
N-[6-(5-Bromo-1H-indol-3-yl)-1,4,5,6-tetrahydropyrimidin-2-yl]ethanimidate	Generator

Chemical Formula

C₁₄H₁₅BrN₄O

Average Mass

335.2050 Da

Monoisotopic Mass

334.04292 Da

IUPAC Name

N-[4-(5-bromo-1H-indol-3-yl)-1,3-diazinan-2-ylidene]acetamide

Traditional Name

N-[4-(5-bromo-1H-indol-3-yl)-1,3-diazinan-2-ylidene]acetamide

CAS Registry Number

Not Available

SMILES

CC(=O)N=C1NCCC(N1)C1=CNC2=CC=C(Br)C=C12

InChI Identifier

InChI=1S/C14H15BrN4O/c1-8(20)18-14-16-5-4-13(19-14)11-7-17-12-3-2-9(15)6-10(11)12/h2-3,6-7,13,17H,4-5H2,1H3,(H2,16,18,19,20)

InChI Key

BXUVFNWDBMCEKT-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 3-alkylindoles. 3-Alkylindoles are compounds containing an indole moiety that carries an alkyl chain at the 3-position.

Kingdom

Organic compounds

Super Class

Organoheterocyclic compounds

Class

Indoles and derivatives

Sub Class

Indoles

Direct Parent

3-alkylindoles

Alternative Parents

Substituents

3-alkylindole
Aryl bromide
Aryl halide
Hydropyrimidine
1,4,5,6-tetrahydropyrimidine
Substituted pyrrole
Benzenoid
Heteroaromatic compound
Acetamide
Pyrrole
Guanidine
Organic 1,3-dipolar compound
Azacycle
Propargyl-type 1,3-dipolar organic compound
Carboxylic acid derivative
Carboximidamide
Organobromide
Organohalogen compound
Carbonyl group
Hydrocarbon derivative
Organonitrogen compound
Organooxygen compound
Organic nitrogen compound
Organic oxygen compound
Organic oxide
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	2.5	ALOGPS
logP	1.4	ChemAxon
logS	-3.7	ALOGPS
pKa (Strongest Acidic)	15.79	ChemAxon
pKa (Strongest Basic)	2.04	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	4	ChemAxon
Hydrogen Donor Count	3	ChemAxon
Polar Surface Area	69.28 Å²	ChemAxon
Rotatable Bond Count	1	ChemAxon
Refractivity	80.25 m³·mol⁻¹	ChemAxon
Polarizability	31.58 Å³	ChemAxon
Number of Rings	3	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

16718384

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for n-[4-(5-bromo-1h-indol-3-yl)-3,4,5,6-tetrahydropyrimidin-2-yl]ethanimidic acid (NP0240117)

MOL for NP0240117 (n-[4-(5-bromo-1h-indol-3-yl)-3,4,5,6-tetrahydropyrimidin-2-yl]ethanimidic acid)

3D MOL for NP0240117 (n-[4-(5-bromo-1h-indol-3-yl)-3,4,5,6-tetrahydropyrimidin-2-yl]ethanimidic acid)

3D SDF for NP0240117 (n-[4-(5-bromo-1h-indol-3-yl)-3,4,5,6-tetrahydropyrimidin-2-yl]ethanimidic acid)

3D-SDF for NP0240117 (n-[4-(5-bromo-1h-indol-3-yl)-3,4,5,6-tetrahydropyrimidin-2-yl]ethanimidic acid)

PDB for NP0240117 (n-[4-(5-bromo-1h-indol-3-yl)-3,4,5,6-tetrahydropyrimidin-2-yl]ethanimidic acid)

3D PDB for NP0240117 (n-[4-(5-bromo-1h-indol-3-yl)-3,4,5,6-tetrahydropyrimidin-2-yl]ethanimidic acid)

SMILES for NP0240117 (n-[4-(5-bromo-1h-indol-3-yl)-3,4,5,6-tetrahydropyrimidin-2-yl]ethanimidic acid)

INCHI for NP0240117 (n-[4-(5-bromo-1h-indol-3-yl)-3,4,5,6-tetrahydropyrimidin-2-yl]ethanimidic acid)

Structure for NP0240117 (n-[4-(5-bromo-1h-indol-3-yl)-3,4,5,6-tetrahydropyrimidin-2-yl]ethanimidic acid)

3D Structure for NP0240117 (n-[4-(5-bromo-1h-indol-3-yl)-3,4,5,6-tetrahydropyrimidin-2-yl]ethanimidic acid)