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Record Information

Version

5.0

Status

Detected but not Quantified

Creation Date

2017-08-02 20:47:27 UTC

Update Date

2022-03-07 03:18:01 UTC

HMDB ID

HMDB0094722

Secondary Accession Numbers

HMDB94722

Metabolite Identification

Common Name

5-hydroxyhexanoylglycine

Description

5-hydroxyhexanoylglycine belongs to the class of organic compounds known as n-acyl-alpha amino acids. N-acyl-alpha amino acids are compounds containing an alpha amino acid which bears an acyl group at its terminal nitrogen atom. Based on a literature review very few articles have been published on 5-hydroxyhexanoylglycine.

Structure

MOL 3D MOL SDF 3D SDF PDB 3D PDB SMILES InChI

HEADER    PROTEIN                                 02-AUG-17   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   02-AUG-17         0                                  
HETATM    1  C   UNK     0      -1.127   0.000   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       2.874   0.770   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       1.540   0.000   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       4.207  -0.000   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       8.208   0.770   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       0.206   0.770   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       5.541   0.770   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       9.542  -0.000   0.000  0.00  0.00           C+0
HETATM    9  N   UNK     0       6.875  -0.000   0.000  0.00  0.00           N+0
HETATM   10  O   UNK     0       0.206   2.310   0.000  0.00  0.00           O+0
HETATM   11  O   UNK     0       5.541   2.310   0.000  0.00  0.00           O+0
HETATM   12  O   UNK     0      10.876   0.770   0.000  0.00  0.00           O+0
HETATM   13  O   UNK     0       9.542  -1.540   0.000  0.00  0.00           O+0
CONECT    1    6                                                            
CONECT    2    3    4                                                       
CONECT    3    2    6                                                       
CONECT    4    2    7                                                       
CONECT    5    8    9                                                       
CONECT    6    1    3   10                                                  
CONECT    7    4    9   11                                                  
CONECT    8    5   12   13                                                  
CONECT    9    5    7                                                       
CONECT   10    6                                                            
CONECT   11    7                                                            
CONECT   12    8                                                            
CONECT   13    8                                                            
MASTER        0    0    0    0    0    0    0    0   13    0   24    0
END

COMPND    HMDB0094722
HETATM    1  C1  UNL     1      -4.252   1.120  -0.057  1.00  0.00           C  
HETATM    2  C2  UNL     1      -2.831   0.865   0.318  1.00  0.00           C  
HETATM    3  O1  UNL     1      -2.754   0.202   1.536  1.00  0.00           O  
HETATM    4  C3  UNL     1      -2.100  -0.001  -0.706  1.00  0.00           C  
HETATM    5  C4  UNL     1      -0.691  -0.159  -0.179  1.00  0.00           C  
HETATM    6  C5  UNL     1       0.172  -1.003  -1.091  1.00  0.00           C  
HETATM    7  C6  UNL     1       1.516  -1.076  -0.459  1.00  0.00           C  
HETATM    8  O2  UNL     1       1.661  -1.625   0.808  1.00  0.00           O  
HETATM    9  N1  UNL     1       2.519  -0.616  -1.126  1.00  0.00           N  
HETATM   10  C7  UNL     1       3.816  -0.674  -0.543  1.00  0.00           C  
HETATM   11  C8  UNL     1       4.477   0.654  -0.454  1.00  0.00           C  
HETATM   12  O3  UNL     1       5.640   0.657   0.060  1.00  0.00           O  
HETATM   13  O4  UNL     1       3.916   1.830  -0.881  1.00  0.00           O  
HETATM   14  H1  UNL     1      -4.590   2.035   0.487  1.00  0.00           H  
HETATM   15  H2  UNL     1      -4.396   1.327  -1.130  1.00  0.00           H  
HETATM   16  H3  UNL     1      -4.887   0.295   0.320  1.00  0.00           H  
HETATM   17  H4  UNL     1      -2.265   1.833   0.336  1.00  0.00           H  
HETATM   18  H5  UNL     1      -3.571  -0.317   1.650  1.00  0.00           H  
HETATM   19  H6  UNL     1      -2.553  -1.030  -0.747  1.00  0.00           H  
HETATM   20  H7  UNL     1      -2.097   0.453  -1.704  1.00  0.00           H  
HETATM   21  H8  UNL     1      -0.202   0.834  -0.075  1.00  0.00           H  
HETATM   22  H9  UNL     1      -0.694  -0.624   0.812  1.00  0.00           H  
HETATM   23  H10 UNL     1       0.232  -0.595  -2.113  1.00  0.00           H  
HETATM   24  H11 UNL     1      -0.257  -2.035  -1.170  1.00  0.00           H  
HETATM   25  H12 UNL     1       1.894  -2.606   0.912  1.00  0.00           H  
HETATM   26  H13 UNL     1       4.462  -1.277  -1.248  1.00  0.00           H  
HETATM   27  H14 UNL     1       3.779  -1.142   0.436  1.00  0.00           H  
HETATM   28  H15 UNL     1       4.054   2.675  -0.346  1.00  0.00           H  
CONECT    1    2   14   15   16
CONECT    2    3    4   17
CONECT    3   18
CONECT    4    5   19   20
CONECT    5    6   21   22
CONECT    6    7   23   24
CONECT    7    8    9    9
CONECT    8   25
CONECT    9   10
CONECT   10   11   26   27
CONECT   11   12   12   13
CONECT   13   28
END

View in JSmol View NMR Assignments View Stereo Labels

Synonyms

Value	Source
2-[(1,5-Dihydroxyhexylidene)amino]acetate	HMDB

Chemical Formula

C₈H₁₅NO₄

Average Molecular Weight

189.211

Monoisotopic Molecular Weight

189.100107967

IUPAC Name

2-[(1,5-dihydroxyhexylidene)amino]acetic acid

Traditional Name

[(1,5-dihydroxyhexylidene)amino]acetic acid

CAS Registry Number

Not Available

SMILES

CC(O)CCCC(O)=NCC(O)=O

InChI Identifier

InChI=1S/C8H15NO4/c1-6(10)3-2-4-7(11)9-5-8(12)13/h6,10H,2-5H2,1H3,(H,9,11)(H,12,13)

InChI Key

YAFMZZZZHXVTEJ-UHFFFAOYSA-N

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as n-acyl-alpha amino acids. N-acyl-alpha amino acids are compounds containing an alpha amino acid which bears an acyl group at its terminal nitrogen atom.

Kingdom

Organic compounds

Super Class

Organic acids and derivatives

Class

Carboxylic acids and derivatives

Sub Class

Amino acids, peptides, and analogues

Direct Parent

N-acyl-alpha amino acids

Alternative Parents

Substituents

N-acyl-alpha-amino acid
Secondary alcohol
Carboximidic acid
Carboximidic acid derivative
Carboxylic acid
Monocarboxylic acid or derivatives
Organic 1,3-dipolar compound
Propargyl-type 1,3-dipolar organic compound
Alcohol
Organooxygen compound
Organonitrogen compound
Hydrocarbon derivative
Organic oxide
Organopnictogen compound
Organic oxygen compound
Organic nitrogen compound
Carbonyl group
Aliphatic acyclic compound

Molecular Framework

Aliphatic acyclic compounds

External Descriptors

Not Available

Ontology

Not Available

Urine (PMID: 20971021)

Source

Exogenous

Exogenous (HMDB: HMDB0094722)

Process

Not Available

Role

Not Available

Physical Properties

State

Not Available

Experimental Molecular 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

Experimental Chromatographic Properties

Not Available

Predicted Molecular Properties

Property	Value	Source
logP	-0.15	ALOGPS
logP	0.061	ChemAxon
logS	-1.8	ALOGPS
pKa (Strongest Acidic)	4.08	ChemAxon
pKa (Strongest Basic)	1.86	ChemAxon
Physiological Charge	-1	ChemAxon
Hydrogen Acceptor Count	5	ChemAxon
Hydrogen Donor Count	3	ChemAxon
Polar Surface Area	90.12 Å²	ChemAxon
Rotatable Bond Count	6	ChemAxon
Refractivity	46.15 m³·mol⁻¹	ChemAxon
Polarizability	19.77 Å³	ChemAxon
Number of Rings	0	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	Yes	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	No	ChemAxon

Predicted Chromatographic Properties

Predicted Collision Cross Sections

Predictor	Adduct Type	CCS Value (Å²)	Reference
DarkChem	[M+H]+	144.524	31661259
DarkChem	[M-H]-	140.256	31661259
DeepCCS	[M+H]+	137.474	30932474
DeepCCS	[M-H]-	133.645	30932474
DeepCCS	[M-2H]-	170.769	30932474
DeepCCS	[M+Na]+	146.357	30932474
AllCCS	[M+H]+	143.7	32859911
AllCCS	[M+H-H2O]+	140.0	32859911
AllCCS	[M+NH4]+	147.2	32859911
AllCCS	[M+Na]+	148.2	32859911
AllCCS	[M-H]-	142.3	32859911
AllCCS	[M+Na-2H]-	143.6	32859911
AllCCS	[M+HCOO]-	145.2	32859911

Predicted Kovats Retention Indices

Underivatized

Metabolite	SMILES	Kovats RI Value	Column Type	Reference
5-hydroxyhexanoylglycine	CC(O)CCCC(O)=NCC(O)=O	2832.4	Standard polar	33892256
5-hydroxyhexanoylglycine	CC(O)CCCC(O)=NCC(O)=O	1563.9	Standard non polar	33892256
5-hydroxyhexanoylglycine	CC(O)CCCC(O)=NCC(O)=O	1743.1	Semi standard non polar	33892256

Derivatized

Derivative Name / Structure	SMILES	Kovats RI Value	Column Type	Reference
5-hydroxyhexanoylglycine,1TMS,isomer #1	CC(CCCC(O)=NCC(=O)O)O[Si](C)(C)C	1802.2	Semi standard non polar	33892256
5-hydroxyhexanoylglycine,1TMS,isomer #2	CC(O)CCCC(=NCC(=O)O)O[Si](C)(C)C	1793.1	Semi standard non polar	33892256
5-hydroxyhexanoylglycine,1TMS,isomer #3	CC(O)CCCC(O)=NCC(=O)O[Si](C)(C)C	1778.6	Semi standard non polar	33892256
5-hydroxyhexanoylglycine,2TMS,isomer #1	CC(CCCC(=NCC(=O)O)O[Si](C)(C)C)O[Si](C)(C)C	1837.5	Semi standard non polar	33892256
5-hydroxyhexanoylglycine,2TMS,isomer #2	CC(CCCC(O)=NCC(=O)O[Si](C)(C)C)O[Si](C)(C)C	1831.6	Semi standard non polar	33892256
5-hydroxyhexanoylglycine,2TMS,isomer #3	CC(O)CCCC(=NCC(=O)O[Si](C)(C)C)O[Si](C)(C)C	1818.9	Semi standard non polar	33892256
5-hydroxyhexanoylglycine,3TMS,isomer #1	CC(CCCC(=NCC(=O)O[Si](C)(C)C)O[Si](C)(C)C)O[Si](C)(C)C	1881.3	Semi standard non polar	33892256
5-hydroxyhexanoylglycine,1TBDMS,isomer #1	CC(CCCC(O)=NCC(=O)O)O[Si](C)(C)C(C)(C)C	2041.7	Semi standard non polar	33892256
5-hydroxyhexanoylglycine,1TBDMS,isomer #2	CC(O)CCCC(=NCC(=O)O)O[Si](C)(C)C(C)(C)C	2021.3	Semi standard non polar	33892256
5-hydroxyhexanoylglycine,1TBDMS,isomer #3	CC(O)CCCC(O)=NCC(=O)O[Si](C)(C)C(C)(C)C	1999.7	Semi standard non polar	33892256
5-hydroxyhexanoylglycine,2TBDMS,isomer #1	CC(CCCC(=NCC(=O)O)O[Si](C)(C)C(C)(C)C)O[Si](C)(C)C(C)(C)C	2283.3	Semi standard non polar	33892256
5-hydroxyhexanoylglycine,2TBDMS,isomer #2	CC(CCCC(O)=NCC(=O)O[Si](C)(C)C(C)(C)C)O[Si](C)(C)C(C)(C)C	2274.3	Semi standard non polar	33892256
5-hydroxyhexanoylglycine,2TBDMS,isomer #3	CC(O)CCCC(=NCC(=O)O[Si](C)(C)C(C)(C)C)O[Si](C)(C)C(C)(C)C	2205.3	Semi standard non polar	33892256
5-hydroxyhexanoylglycine,3TBDMS,isomer #1	CC(CCCC(=NCC(=O)O[Si](C)(C)C(C)(C)C)O[Si](C)(C)C(C)(C)C)O[Si](C)(C)C(C)(C)C	2436.5	Semi standard non polar	33892256

Spectra

GC-MS Spectra

Spectrum Type	Description	Splash Key	Deposition Date	Source	View
Predicted GC-MS	Predicted GC-MS Spectrum - 5-hydroxyhexanoylglycine GC-MS (Non-derivatized) - 70eV, Positive	splash10-00dl-9300000000-bf12309eb3e886699977	2017-09-14	Wishart Lab	View Spectrum
Predicted GC-MS	Predicted GC-MS Spectrum - 5-hydroxyhexanoylglycine GC-MS (3 TMS) - 70eV, Positive	splash10-00to-9226000000-dc4a2dc066f307766939	2017-10-06	Wishart Lab	View Spectrum
Predicted GC-MS	Predicted GC-MS Spectrum - 5-hydroxyhexanoylglycine GC-MS (Non-derivatized) - 70eV, Positive	Not Available	2021-10-12	Wishart Lab	View Spectrum

MS/MS Spectra

Spectrum Type	Description	Splash Key	Deposition Date	Source	View
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 5-hydroxyhexanoylglycine 10V, Negative-QTOF	splash10-000i-0900000000-6b2020b9d99ca75a16d6	2017-09-14	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 5-hydroxyhexanoylglycine 20V, Negative-QTOF	splash10-00dr-2900000000-bf3e717a4cdb4623e023	2017-09-14	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 5-hydroxyhexanoylglycine 40V, Negative-QTOF	splash10-00dl-9100000000-c734ba2ae243de28d0bc	2017-09-14	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 5-hydroxyhexanoylglycine 10V, Positive-QTOF	splash10-00di-8900000000-cf4f329be8aaf1e5448f	2017-09-21	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 5-hydroxyhexanoylglycine 20V, Positive-QTOF	splash10-00fr-9100000000-7aa14f749bef2ebce712	2017-09-21	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 5-hydroxyhexanoylglycine 40V, Positive-QTOF	splash10-05i0-9000000000-3651db06c002262528b4	2017-09-21	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 5-hydroxyhexanoylglycine 10V, Positive-QTOF	splash10-00dl-4900000000-184af1d36db61a851f80	2021-09-22	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 5-hydroxyhexanoylglycine 20V, Positive-QTOF	splash10-00sd-9000000000-91d50dba754c1d28d2c6	2021-09-22	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 5-hydroxyhexanoylglycine 40V, Positive-QTOF	splash10-01bd-9000000000-4689477b276ffc151880	2021-09-22	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 5-hydroxyhexanoylglycine 10V, Negative-QTOF	splash10-00dr-9700000000-713102911dc51c97506f	2021-09-23	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 5-hydroxyhexanoylglycine 20V, Negative-QTOF	splash10-00di-9400000000-cbafe31e08b7df65d08d	2021-09-23	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 5-hydroxyhexanoylglycine 40V, Negative-QTOF	splash10-05fr-9000000000-cc7a3535d2dfb5b002e2	2021-09-23	Wishart Lab	View Spectrum

NMR Spectra

Spectrum Type	Description	Deposition Date	Source	View
Predicted 1D NMR	¹H NMR Spectrum (1D, 100 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹³C NMR Spectrum (1D, 100 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹H NMR Spectrum (1D, 1000 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹³C NMR Spectrum (1D, 1000 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹H NMR Spectrum (1D, 200 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹³C NMR Spectrum (1D, 200 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹H NMR Spectrum (1D, 300 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹³C NMR Spectrum (1D, 300 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹H NMR Spectrum (1D, 400 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹³C NMR Spectrum (1D, 400 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹H NMR Spectrum (1D, 500 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹³C NMR Spectrum (1D, 500 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹H NMR Spectrum (1D, 600 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹³C NMR Spectrum (1D, 600 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹H NMR Spectrum (1D, 700 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹³C NMR Spectrum (1D, 700 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹H NMR Spectrum (1D, 800 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹³C NMR Spectrum (1D, 800 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹H NMR Spectrum (1D, 900 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹³C NMR Spectrum (1D, 900 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum

Biological Properties

Cellular Locations

Not Available

Biospecimen Locations

Urine

Tissue Locations

Not Available

Pathways

Not Available

Name	SMPDB/PathBank	KEGG

Normal Concentrations

Biospecimen	Status	Value	Age	Sex	Condition	Reference	Details
Urine	Detected but not Quantified	Not Quantified	Adult (24-38years old)	Not Specified	Normal	20971021	details

Abnormal Concentrations

Not Available

Associated Disorders and Diseases

Disease References

None

Associated OMIM IDs

None

External Links

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FooDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

74849633

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

131802905

PDB ID

Not Available

ChEBI ID

191903

Food Biomarker Ontology

Not Available

VMH ID

Not Available

MarkerDB ID

Not Available

Good Scents ID

Not Available

References

Synthesis Reference

Not Available

Material Safety Data Sheet (MSDS)

Not Available

General References

Not Available

Showing metabocard for 5-hydroxyhexanoylglycine (HMDB0094722)

MOL for HMDB0094722 (5-hydroxyhexanoylglycine)

3D MOL for HMDB0094722 (5-hydroxyhexanoylglycine)

3D SDF for HMDB0094722 (5-hydroxyhexanoylglycine)

3D-SDF for HMDB0094722 (5-hydroxyhexanoylglycine)

PDB for HMDB0094722 (5-hydroxyhexanoylglycine)

3D PDB for HMDB0094722 (5-hydroxyhexanoylglycine)

SMILES for HMDB0094722 (5-hydroxyhexanoylglycine)

INCHI for HMDB0094722 (5-hydroxyhexanoylglycine)

Structure for HMDB0094722 (5-hydroxyhexanoylglycine)

3D Structure for HMDB0094722 (5-hydroxyhexanoylglycine)

Predicted Collision Cross Sections

Predicted Kovats Retention Indices

Underivatized

Derivatized

GC-MS Spectra

MS/MS Spectra

NMR Spectra