NP-MRD: Showing NP-Card for Pimelylcarnitine (NP0092176)

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Record Information

Version

2.0

Created at

2022-05-11 18:59:24 UTC

Updated at

2022-05-11 18:59:24 UTC

NP-MRD ID

NP0092176

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Pimelylcarnitine

Description

Pimelylcarnitine belongs to the class of organic compounds known as tricarboxylic acids and derivatives. These are carboxylic acids containing exactly three carboxyl groups. Pimelylcarnitine is an extremely weak basic (essentially neutral) compound (based on its pKa).

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 46 45  0  0  0  0  0  0  0  0999 V2000
   -2.7332   -0.0477   -1.8368 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6016   -0.7040   -0.5741 N   0  0  2  0  0  4  0  0  0  0  0  0
   -1.5822   -1.7591   -0.7530 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.8121   -1.4082   -0.1867 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1057    0.1556    0.4769 C   0  0  2  0  0  0  0  0  0  0  0  0
   -2.6379    1.5473    0.4739 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.1193    1.6755    0.6280 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.4877    3.1151    0.5962 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5903    3.9651    0.4648 O   0  0  0  0  0  0  0  0  0  0  0  0
   -5.8035    3.5449    0.7093 O   0  0  0  0  0  1  0  0  0  0  0  0
   -0.6863    0.1197    0.5417 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.0473   -0.4035    1.5704 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5438   -0.8960    2.5450 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.5301   -0.3791    1.5164 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9673    0.2053    0.2088 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4509    0.2998    0.0422 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.0929   -1.0755    0.1257 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.5968   -0.9157   -0.0324 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.9188   -0.3056   -1.3455 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.5561   -0.8110   -2.4296 O   0  0  0  0  0  0  0  0  0  0  0  0
    6.6525    0.8809   -1.3536 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4399   -0.7595   -2.6374 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0088    0.7962   -1.8879 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7609    0.2754   -2.1014 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0307   -2.4668   -1.4778 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3167   -2.2349    0.2104 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6984   -1.3104   -1.2675 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6575   -1.1911   -0.8406 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0952   -1.0417    0.8460 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6566   -2.4995   -0.0357 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4497   -0.3236    1.4394 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2769    2.1729   -0.3638 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2033    2.0391    1.3980 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.7247    1.0741   -0.0776 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.4583    1.3284    1.6527 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.9610    0.2045    2.3519 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.9403   -1.4218    1.6043 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4981   -0.3952   -0.6077 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5161    1.2330    0.1330 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.6578    0.6801   -0.9871 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.9142    0.9373    0.7990 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.6761   -1.6955   -0.6715 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.9221   -1.4890    1.1321 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.0219   -1.9353    0.0118 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.9895   -0.3371    0.8012 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.5716    1.5567   -0.5873 H   0  0  0  0  0  0  0  0  0  0  0  0
  2  1  1  6
  2  3  1  0
  2  4  1  0
  2  5  1  0
  5  6  1  0
  6  7  1  0
  7  8  1  0
  8 10  1  0
  8  9  2  0
  5 11  1  0
 11 12  1  0
 12 13  2  0
 12 14  1  0
 14 15  1  0
 15 16  1  0
 16 17  1  0
 17 18  1  0
 18 19  1  0
 19 21  1  0
 19 20  2  0
  1 22  1  0
  1 23  1  0
  1 24  1  0
  3 25  1  0
  3 26  1  0
  3 27  1  0
  4 28  1  0
  4 29  1  0
  4 30  1  0
  5 31  1  1
  6 32  1  0
  6 33  1  0
  7 34  1  0
  7 35  1  0
 14 36  1  0
 14 37  1  0
 15 38  1  0
 15 39  1  0
 16 40  1  0
 16 41  1  0
 17 42  1  0
 17 43  1  0
 18 44  1  0
 18 45  1  0
 21 46  1  0
M  CHG  2   2   1  10  -1
M  END


  Mrv0541 02241223162D          

 21 20  0  0  1  0            999 V2000
    1.4586    1.3184    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2836    1.3184    0.0000 N   0  3  0  0  0  0  0  0  0  0  0  0
    3.1086    1.3184    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2836    0.4934    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2836    2.1434    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.5691    2.5559    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8546    2.1434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1401    2.5559    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5743    2.1434    0.0000 O   0  5  0  0  0  0  0  0  0  0  0  0
    0.1401    3.3809    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.9980    2.5559    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.7125    2.1434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7125    1.3184    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.4270    2.5559    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.1414    2.1434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.8559    2.5559    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.5704    2.1434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.2849    2.5559    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.9993    2.1434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    8.7138    2.5559    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    7.9993    1.3184    0.0000 O   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  1  0  0  0  0
  2  5  1  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
  8 10  2  0  0  0  0
  5 11  1  6  0  0  0
 11 12  1  0  0  0  0
 12 13  2  0  0  0  0
 12 14  1  0  0  0  0
 14 15  1  0  0  0  0
 15 16  1  0  0  0  0
 16 17  1  0  0  0  0
 17 18  1  0  0  0  0
 18 19  1  0  0  0  0
 19 20  1  0  0  0  0
 19 21  2  0  0  0  0
M  CHG  2   2   1   9  -1
M  END
> <DATABASE_ID>
NP0092176

> <DATABASE_NAME>
NP-MRD

> <SMILES>
C[N+](C)(C)[C@H](CCC([O-])=O)OC(=O)CCCCCC(O)=O

> <INCHI_IDENTIFIER>
InChI=1S/C14H25NO6/c1-15(2,3)11(9-10-13(18)19)21-14(20)8-6-4-5-7-12(16)17/h11H,4-10H2,1-3H3,(H-,16,17,18,19)/t11-/m0/s1

> <INCHI_KEY>
AUWRHMAICBSXMC-NSHDSACASA-N

> <FORMULA>
C14H25NO6

> <MOLECULAR_WEIGHT>
303.3514

> <EXACT_MASS>
303.168187537

> <JCHEM_ACCEPTOR_COUNT>
5

> <JCHEM_AVERAGE_POLARIZABILITY>
32.37079163994415

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(4S)-4-[(6-carboxyhexanoyl)oxy]-4-(trimethylazaniumyl)butanoate

> <ALOGPS_LOGP>
-0.84

> <JCHEM_LOGP>
-2.9617411564717457

> <ALOGPS_LOGS>
-4.26

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
0

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-1

> <JCHEM_PKA>
4.285740034769975

> <JCHEM_PKA_STRONGEST_ACIDIC>
3.528016653366708

> <JCHEM_PKA_STRONGEST_BASIC>
-7.1850416064831055

> <JCHEM_POLAR_SURFACE_AREA>
103.73000000000002

> <JCHEM_REFRACTIVITY>
97.26589999999999

> <JCHEM_ROTATABLE_BOND_COUNT>
12

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
1.95e-02 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(4S)-4-[(6-carboxyhexanoyl)oxy]-4-(trimethylammonio)butanoate

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 24-FEB-12   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   24-FEB-12         0                                  
HETATM    1  C   UNK     0       2.723   2.461   0.000  0.00  0.00           C+0
HETATM    2  N   UNK     0       4.263   2.461   0.000  0.00  0.00           N+1
HETATM    3  C   UNK     0       5.803   2.461   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       4.263   0.921   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       4.263   4.001   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       2.929   4.771   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       1.595   4.001   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       0.262   4.771   0.000  0.00  0.00           C+0
HETATM    9  O   UNK     0      -1.072   4.001   0.000  0.00  0.00           O-1
HETATM   10  O   UNK     0       0.262   6.311   0.000  0.00  0.00           O+0
HETATM   11  O   UNK     0       5.596   4.771   0.000  0.00  0.00           O+0
HETATM   12  C   UNK     0       6.930   4.001   0.000  0.00  0.00           C+0
HETATM   13  O   UNK     0       6.930   2.461   0.000  0.00  0.00           O+0
HETATM   14  C   UNK     0       8.264   4.771   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       9.597   4.001   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0      10.931   4.771   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0      12.265   4.001   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0      13.598   4.771   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0      14.932   4.001   0.000  0.00  0.00           C+0
HETATM   20  O   UNK     0      16.266   4.771   0.000  0.00  0.00           O+0
HETATM   21  O   UNK     0      14.932   2.461   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3    4    5                                             
CONECT    3    2                                                            
CONECT    4    2                                                            
CONECT    5    2    6   11                                                  
CONECT    6    5    7                                                       
CONECT    7    6    8                                                       
CONECT    8    7    9   10                                                  
CONECT    9    8                                                            
CONECT   10    8                                                            
CONECT   11    5   12                                                       
CONECT   12   11   13   14                                                  
CONECT   13   12                                                            
CONECT   14   12   15                                                       
CONECT   15   14   16                                                       
CONECT   16   15   17                                                       
CONECT   17   16   18                                                       
CONECT   18   17   19                                                       
CONECT   19   18   20   21                                                  
CONECT   20   19                                                            
CONECT   21   19                                                            
MASTER        0    0    0    0    0    0    0    0   21    0   40    0
END

View in JSmol

Synonyms

Value	Source
Heptanedioylcarnitine	HMDB
Pimelyl-L-carnitine	HMDB
(4S)-4-[(6-Carboxyhexanoyl)oxy]-4-(trimethylazaniumyl)butanoic acid	Generator

Chemical Formula

C₁₄H₂₅NO₆

Average Mass

303.3514 Da

Monoisotopic Mass

303.16819 Da

IUPAC Name

(4S)-4-[(6-carboxyhexanoyl)oxy]-4-(trimethylazaniumyl)butanoate

Traditional Name

(4S)-4-[(6-carboxyhexanoyl)oxy]-4-(trimethylammonio)butanoate

CAS Registry Number

Not Available

SMILES

C[N+](C)(C)[C@H](CCC([O-])=O)OC(=O)CCCCCC(O)=O

InChI Identifier

InChI=1S/C14H25NO6/c1-15(2,3)11(9-10-13(18)19)21-14(20)8-6-4-5-7-12(16)17/h11H,4-10H2,1-3H3,(H-,16,17,18,19)/t11-/m0/s1

InChI Key

AUWRHMAICBSXMC-NSHDSACASA-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, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 252 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 50 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 75 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 101 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 126 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 151 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 176 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 201 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 226 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, D₂O, 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
Anas platyrhynchos	FooDB	FooDB
Anatidae	FooDB	FooDB
Anser anser	FooDB	FooDB
Bison bison	FooDB	FooDB
Bos taurus	FooDB	FooDB
Bos taurus X Bison bison	FooDB	FooDB
Bubalus bubalis	FooDB	FooDB
Capra aegagrus hircus	FooDB	FooDB
Cervidae	FooDB	FooDB
Cervus canadensis	FooDB	FooDB
Columba	FooDB	FooDB
Columbidae	FooDB	FooDB
Dromaius novaehollandiae	FooDB	FooDB
Equus caballus	FooDB	FooDB
Gallus gallus	FooDB	FooDB
Lagopus muta	FooDB	FooDB
Leporidae	FooDB	FooDB
Lepus timidus	FooDB	FooDB
Melanitta fusca	FooDB	FooDB
Meleagris gallopavo	FooDB	FooDB
Numida meleagris	FooDB	FooDB
Odocoileus	FooDB	FooDB
Oryctolagus	FooDB	FooDB
Ovis aries	FooDB	FooDB
Phasianidae	FooDB	FooDB
Phasianus colchicus	FooDB	FooDB
Struthio camelus	FooDB	FooDB
Sus scrofa	FooDB	FooDB
Sus scrofa domestica	FooDB	FooDB

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as tricarboxylic acids and derivatives. These are carboxylic acids containing exactly three carboxyl groups.

Kingdom

Organic compounds

Super Class

Organic acids and derivatives

Class

Carboxylic acids and derivatives

Sub Class

Tricarboxylic acids and derivatives

Direct Parent

Tricarboxylic acids and derivatives

Alternative Parents

Substituents

Tricarboxylic acid or derivatives
Fatty acid ester
Fatty acyl
Tetraalkylammonium salt
Carboxylic acid salt
Carboxylic acid ester
Carboxylic acid
Hydrocarbon derivative
Organopnictogen compound
Organic salt
Organic oxygen compound
Organooxygen compound
Organonitrogen compound
Organic nitrogen compound
Carbonyl group
Organic oxide
Aliphatic acyclic compound

Molecular Framework

Aliphatic acyclic 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	-0.84	ALOGPS
logP	-3	ChemAxon
logS	-4.3	ALOGPS
pKa (Strongest Acidic)	3.53	ChemAxon
pKa (Strongest Basic)	-7.2	ChemAxon
Physiological Charge	-1	ChemAxon
Hydrogen Acceptor Count	5	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	103.73 Å²	ChemAxon
Rotatable Bond Count	12	ChemAxon
Refractivity	97.27 m³·mol⁻¹	ChemAxon
Polarizability	32.37 Å³	ChemAxon
Number of Rings	0	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	No	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

FDB029388

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

53481675

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Not Available

Showing NP-Card for Pimelylcarnitine (NP0092176)

MOL for NP0092176 (Pimelylcarnitine)

3D MOL for NP0092176 (Pimelylcarnitine)

3D SDF for NP0092176 (Pimelylcarnitine)

3D-SDF for NP0092176 (Pimelylcarnitine)

PDB for NP0092176 (Pimelylcarnitine)

3D PDB for NP0092176 (Pimelylcarnitine)

SMILES for NP0092176 (Pimelylcarnitine)

INCHI for NP0092176 (Pimelylcarnitine)

Structure for NP0092176 (Pimelylcarnitine)

3D Structure for NP0092176 (Pimelylcarnitine)