NP-MRD: Showing NP-Card for (2r)-1-[2-hydroxy-3-(propan-2-ylidene)indol-6-yl]-3-methylbutane-2,3-diol (NP0326871)

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Record Information

Version

2.0

Created at

2022-09-12 08:53:29 UTC

Updated at

2022-09-12 08:53:29 UTC

NP-MRD ID

NP0326871

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(2r)-1-[2-hydroxy-3-(propan-2-ylidene)indol-6-yl]-3-methylbutane-2,3-diol

Description

RK-270B belongs to the class of organic compounds known as indolines. Indolines are compounds containing an indole moiety, which consists of pyrrolidine ring fused to benzene to form 2,3-dihydroindole. Based on a literature review very few articles have been published on RK-270B.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 41 42  0  0  0  0  0  0  0  0999 V2000
    4.5667    1.7315   -0.2152 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.5556    0.3200    0.1593 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.8798   -0.3260    0.5236 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5219   -0.4861    0.2242 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4982   -1.9085    0.5998 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.6279   -2.6644    0.9651 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.2894   -2.3321    0.5373 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.3803   -1.3150    0.1344 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0005   -1.3188   -0.0649 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6179   -0.1404   -0.4684 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0669   -0.1633   -0.6725 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8529    0.1804    0.5687 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.5554    1.4520    1.0452 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3247    0.2084    0.1585 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.7554   -1.0923   -0.4608 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.1923    0.6071    1.3334 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.4204    1.1979   -0.8360 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.0815    1.0092   -0.6733 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4451    0.9750   -0.4664 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1383   -0.1563   -0.0644 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.0170    2.3919    0.4917 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.2708    1.8835   -1.2839 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.6372    2.1136   -0.1619 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.7143    0.3869    0.4026 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.7877   -0.7197    1.5393 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.9949   -1.1652   -0.1928 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.0506   -3.3252    0.3326 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5343   -2.2425    0.1038 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3178    0.6053   -1.4432 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3884   -1.1672   -1.0039 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7075   -0.5401    1.3803 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7874    2.1684    0.4304 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3817   -1.9295    0.1808 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3691   -1.1464   -1.4967 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.8670   -1.0906   -0.4925 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.0942   -0.0051    1.3243 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.4888    1.6685    1.2237 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6688    0.4828    2.3015 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6698    2.0692   -0.4321 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4212    1.9048   -0.9849 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.0254    1.8784   -0.6230 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  2  4  2  3
  4  5  1  0
  5  6  1  0
  5  7  2  0
  7  8  1  0
  8  9  2  0
  9 10  1  0
 10 11  1  0
 11 12  1  0
 12 13  1  0
 12 14  1  0
 14 15  1  0
 14 16  1  0
 14 17  1  0
 10 18  2  0
 18 19  1  0
 19 20  2  0
 20  4  1  0
 20  8  1  0
  1 21  1  0
  1 22  1  0
  1 23  1  0
  3 24  1  0
  3 25  1  0
  3 26  1  0
  6 27  1  0
  9 28  1  0
 11 29  1  0
 11 30  1  0
 12 31  1  1
 13 32  1  0
 15 33  1  0
 15 34  1  0
 15 35  1  0
 16 36  1  0
 16 37  1  0
 16 38  1  0
 17 39  1  0
 18 40  1  0
 19 41  1  0
M  END


  Mrv1652309122210532D          

 20 21  0  0  1  0            999 V2000
    1.4358   -2.7631    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
    0.0768   -2.3215    0.0000 C   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
   -0.1712   -0.6979    0.0000 O   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
    4.0668    0.1271    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.7812   -0.2854    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    4.7812   -1.1104    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.4957    0.1271    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.2102    0.5396    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.9082   -0.5874    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.0832    0.8415    0.0000 O   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
    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  1  0  0  0  0
  2  4  2  0  0  0  0
  4  5  1  0  0  0  0
  5  6  1  0  0  0  0
  5  7  2  0  0  0  0
  7  8  1  0  0  0  0
  8  9  2  0  0  0  0
  9 10  1  0  0  0  0
 10 11  1  0  0  0  0
 11 12  1  0  0  0  0
 12 13  1  6  0  0  0
 12 14  1  0  0  0  0
 14 15  1  0  0  0  0
 14 16  1  0  0  0  0
 14 17  1  0  0  0  0
 10 18  2  0  0  0  0
 18 19  1  0  0  0  0
 19 20  2  0  0  0  0
  8 20  1  0  0  0  0
  4 20  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0326871

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CC(C)=C1C(O)=NC2=CC(C[C@@H](O)C(C)(C)O)=CC=C12

> <INCHI_IDENTIFIER>
InChI=1S/C16H21NO3/c1-9(2)14-11-6-5-10(7-12(11)17-15(14)19)8-13(18)16(3,4)20/h5-7,13,18,20H,8H2,1-4H3,(H,17,19)/t13-/m1/s1

> <INCHI_KEY>
KMOAZNJTMYDDGX-CYBMUJFWSA-N

> <FORMULA>
C16H21NO3

> <MOLECULAR_WEIGHT>
275.348

> <EXACT_MASS>
275.15214354

> <JCHEM_ACCEPTOR_COUNT>
4

> <JCHEM_ATOM_COUNT>
41

> <JCHEM_AVERAGE_POLARIZABILITY>
31.261126159392408

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(2R)-1-[2-hydroxy-3-(propan-2-ylidene)-3H-indol-6-yl]-3-methylbutane-2,3-diol

> <JCHEM_LOGP>
1.4952833178516922

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
2

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
13.720381240238172

> <JCHEM_PKA_STRONGEST_ACIDIC>
-1.1219172460055313

> <JCHEM_PKA_STRONGEST_BASIC>
14.85188085826362

> <JCHEM_POLAR_SURFACE_AREA>
73.05000000000001

> <JCHEM_REFRACTIVITY>
81.2638

> <JCHEM_ROTATABLE_BOND_COUNT>
3

> <JCHEM_RULE_OF_FIVE>
1

> <JCHEM_TRADITIONAL_IUPAC>
(2R)-1-[2-hydroxy-3-(propan-2-ylidene)indol-6-yl]-3-methylbutane-2,3-diol

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 12-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   12-SEP-22         0                                  
HETATM    1  C   UNK     0       2.680  -5.158   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       1.650  -4.013   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       0.143  -4.334   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       2.126  -2.549   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       1.220  -1.303   0.000  0.00  0.00           C+0
HETATM    6  O   UNK     0      -0.320  -1.303   0.000  0.00  0.00           O+0
HETATM    7  N   UNK     0       2.126  -0.057   0.000  0.00  0.00           N+0
HETATM    8  C   UNK     0       3.590  -0.533   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       4.924   0.237   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       6.258  -0.533   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       7.591   0.237   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       8.925  -0.533   0.000  0.00  0.00           C+0
HETATM   13  O   UNK     0       8.925  -2.073   0.000  0.00  0.00           O+0
HETATM   14  C   UNK     0      10.259   0.237   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0      11.592   1.007   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0      11.029  -1.097   0.000  0.00  0.00           C+0
HETATM   17  O   UNK     0       9.489   1.571   0.000  0.00  0.00           O+0
HETATM   18  C   UNK     0       6.258  -2.073   0.000  0.00  0.00           C+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   20                                                  
CONECT    5    4    6    7                                                  
CONECT    6    5                                                            
CONECT    7    5    8                                                       
CONECT    8    7    9   20                                                  
CONECT    9    8   10                                                       
CONECT   10    9   11   18                                                  
CONECT   11   10   12                                                       
CONECT   12   11   13   14                                                  
CONECT   13   12                                                            
CONECT   14   12   15   16   17                                             
CONECT   15   14                                                            
CONECT   16   14                                                            
CONECT   17   14                                                            
CONECT   18   10   19                                                       
CONECT   19   18   20                                                       
CONECT   20   19    8    4                                                  
MASTER        0    0    0    0    0    0    0    0   20    0   42    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₆H₂₁NO₃

Average Mass

275.3480 Da

Monoisotopic Mass

275.15214 Da

IUPAC Name

(2R)-1-[2-hydroxy-3-(propan-2-ylidene)-3H-indol-6-yl]-3-methylbutane-2,3-diol

Traditional Name

(2R)-1-[2-hydroxy-3-(propan-2-ylidene)indol-6-yl]-3-methylbutane-2,3-diol

CAS Registry Number

Not Available

SMILES

CC(C)=C1C(O)=NC2=CC(C[C@@H](O)C(C)(C)O)=CC=C12

InChI Identifier

InChI=1S/C16H21NO3/c1-9(2)14-11-6-5-10(7-12(11)17-15(14)19)8-13(18)16(3,4)20/h5-7,13,18,20H,8H2,1-4H3,(H,17,19)/t13-/m1/s1

InChI Key

KMOAZNJTMYDDGX-CYBMUJFWSA-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 indolines. Indolines are compounds containing an indole moiety, which consists of pyrrolidine ring fused to benzene to form 2,3-dihydroindole.

Kingdom

Organic compounds

Super Class

Organoheterocyclic compounds

Class

Indoles and derivatives

Sub Class

Indolines

Direct Parent

Indolines

Alternative Parents

Substituents

Dihydroindole
Benzenoid
Tertiary alcohol
1,2-diol
Carboxamide group
Lactam
Secondary alcohol
Secondary carboxylic acid amide
Carboxylic acid derivative
Azacycle
Organooxygen compound
Organonitrogen compound
Organic oxide
Organopnictogen compound
Organic nitrogen compound
Organic oxygen compound
Carbonyl group
Hydrocarbon derivative
Alcohol
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	1.5	ChemAxon
pKa (Strongest Acidic)	-1.1	ChemAxon
pKa (Strongest Basic)	14.85	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	4	ChemAxon
Hydrogen Donor Count	3	ChemAxon
Polar Surface Area	73.05 Å²	ChemAxon
Rotatable Bond Count	3	ChemAxon
Refractivity	81.26 m³·mol⁻¹	ChemAxon
Polarizability	31.26 Å³	ChemAxon
Number of Rings	2	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

59701977

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

122216289

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for (2r)-1-[2-hydroxy-3-(propan-2-ylidene)indol-6-yl]-3-methylbutane-2,3-diol (NP0326871)

MOL for NP0326871 ((2r)-1-[2-hydroxy-3-(propan-2-ylidene)indol-6-yl]-3-methylbutane-2,3-diol)

3D MOL for NP0326871 ((2r)-1-[2-hydroxy-3-(propan-2-ylidene)indol-6-yl]-3-methylbutane-2,3-diol)

3D SDF for NP0326871 ((2r)-1-[2-hydroxy-3-(propan-2-ylidene)indol-6-yl]-3-methylbutane-2,3-diol)

3D-SDF for NP0326871 ((2r)-1-[2-hydroxy-3-(propan-2-ylidene)indol-6-yl]-3-methylbutane-2,3-diol)

PDB for NP0326871 ((2r)-1-[2-hydroxy-3-(propan-2-ylidene)indol-6-yl]-3-methylbutane-2,3-diol)

3D PDB for NP0326871 ((2r)-1-[2-hydroxy-3-(propan-2-ylidene)indol-6-yl]-3-methylbutane-2,3-diol)

SMILES for NP0326871 ((2r)-1-[2-hydroxy-3-(propan-2-ylidene)indol-6-yl]-3-methylbutane-2,3-diol)

INCHI for NP0326871 ((2r)-1-[2-hydroxy-3-(propan-2-ylidene)indol-6-yl]-3-methylbutane-2,3-diol)

Structure for NP0326871 ((2r)-1-[2-hydroxy-3-(propan-2-ylidene)indol-6-yl]-3-methylbutane-2,3-diol)

3D Structure for NP0326871 ((2r)-1-[2-hydroxy-3-(propan-2-ylidene)indol-6-yl]-3-methylbutane-2,3-diol)