MiMeDB: Showing metabocard for L-Threo-2-pentulose (MMDBc0029509)

Record Information

Version

1.0

Status

Detected and Quantified

Creation Date

2021-11-17 23:25:13 UTC

Update Date

2022-08-31 13:37:21 UTC

Metabolite ID

MMDBc0029509

Metabolite Identification

Common Name

L-Threo-2-pentulose

Description

L-Threo-2-pentulose, also called L-xylulose, is a ketopentose - a monosaccharide containing five carbon atoms, and including a ketone functional group. It has chemical formula C5H10O5. In nature it occurs in the L- and D- isomers. (Wikipedia )

Structure

MOL SDF PDB SMILES InChI

Synonyms

Value	Source
L-Lyxulose	ChEBI
L-Threo-pent-2-ulose	ChEBI
L-Threo-pentulose	ChEBI
L-Xul	ChEBI
L-Xylulose	HMDB

Molecular Formula

C₅H₁₀O₅

Average Mass

150.1299

Monoisotopic Mass

150.05282343

IUPAC Name

(3R,4S)-1,3,4,5-tetrahydroxypentan-2-one

Traditional Name

xylulose

CAS Registry Number

527-50-4

SMILES

OC[C@H](O)[C@@H](O)C(=O)CO

InChI Identifier

InChI=1S/C5H10O5/c6-1-3(8)5(10)4(9)2-7/h3,5-8,10H,1-2H2/t3-,5+/m0/s1

InChI Key

ZAQJHHRNXZUBTE-WVZVXSGGSA-N

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as pentoses. These are monosaccharides in which the carbohydrate moiety contains five carbon atoms.

Kingdom

Organic compounds

Super Class

Organic oxygen compounds

Class

Organooxygen compounds

Sub Class

Carbohydrates and carbohydrate conjugates

Direct Parent

Pentoses

Alternative Parents

Substituents

Pentose monosaccharide
Beta-hydroxy ketone
Acyloin
Alpha-hydroxy ketone
Secondary alcohol
Ketone
Polyol
Organic oxide
Hydrocarbon derivative
Primary alcohol
Carbonyl group
Alcohol
Aliphatic acyclic compound

Molecular Framework

Aliphatic acyclic compounds

External Descriptors

xylulose (CHEBI:17399 )

Functional Ontology

Not Available

Physical Properties

State

Solid

Predicted Properties

Property	Value	Source
Water Solubility	678 g/L	ALOGPS
logP	-2.2	ALOGPS
logP	-2.6	ChemAxon
logS	0.65	ALOGPS
pKa (Strongest Acidic)	10.57	ChemAxon
pKa (Strongest Basic)	-3	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	5	ChemAxon
Hydrogen Donor Count	4	ChemAxon
Polar Surface Area	97.99 Å²	ChemAxon
Rotatable Bond Count	4	ChemAxon
Refractivity	31.6 m³·mol⁻¹	ChemAxon
Polarizability	13.5 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

Spectra

Spectrum Type	Description	Splash Key	Deposition Date	View
Predicted GC-MS	Predicted GC-MS Spectrum - GC-MS (Non-derivatized) - 70eV, Positive	splash10-03di-9000000000-5e0dfc74544a16cb6a2b	2017-09-01	View Spectrum
Predicted GC-MS	Predicted GC-MS Spectrum - GC-MS (4 TMS) - 70eV, Positive	splash10-00g3-9127300000-b6aed5448276d0184bc2	2017-10-06	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Positive	splash10-0udi-2900000000-3e1ebc07944b3d190ec8	2015-09-15	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Positive	splash10-03di-9300000000-bca65135a1359f774229	2015-09-15	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Positive	splash10-08fv-9000000000-71ba0bd1388ac4ba066d	2015-09-15	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Negative	splash10-000j-9400000000-a8afb4fe5a51e50f0c41	2015-09-15	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Negative	splash10-052r-9200000000-bbc5e84222a57470dc89	2015-09-15	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Negative	splash10-0a4l-9000000000-ce9ee9286404da2668c5	2015-09-15	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 100 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 1000 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 200 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 300 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 400 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 500 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 600 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 700 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 800 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 900 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, H₂O, predicted)		2022-08-20	View Spectrum

Biological Properties

Cellular Locations

Not Available

Biospecimen Locations

Feces

Tissue Locations

Not Available

Associated OMIM IDs

114500 (Colorectal cancer)
610247 (Eosinophilic esophagitis)

Human Proteins and Enzymes

Protein ID	Protein Name	Protein Type	Uniprot ID	Species

Human Pathways

Pathways

Name	SMPDB/PathBank

Metabolic Reactions

Reaction ID	Precursor	Product	Enzyme	Reaction Type	Data Source	Reference
MMDBr0000145	L-Arabitol	Hydrogen Ion	Not Available	L-Arabinitol 4-Dehydrogenase	VMH	12359133 13922173 15234337
MMDBr0000664	3-Dehydro-L-gulonate	Carbon dioxide	Not Available	Dehydro-L-Gulonate Decarboxylase	VMH	6821187
MMDBr0002410	Hydrogen Ion	NADP	Dicarbonyl/l-xylulose reductase	Xylulose Reductase	VMH	30371894
MMDBr0002714	NAD	Hydrogen Ion	Not Available	Xylitol:NAD Oxidoreductase Pentose And Glucuronate Interconversions	VMH	30371894
MMDBr0005771	D-Arabitol	Hydrogen Ion	Not Available	L-Arabinitol 4-Dehydrogenase	VMH	30371894
MMDBr0008368	Galacturonic acid	L-Threo-2-pentulose	Not Available	Lyxose isomerase	VMH	30371894
MMDBr0009016	L-Threo-2-pentulose	L-Threo-2-pentulose	Not Available	Assumed Passive Diffusion into Extracellular Space	VMH	30371894
MMDBr0010994	Adenosine triphosphate	ADP	Not Available	L-xylulokinase	VMH	30371894
MMDBr0013527	L-Arabitol	Hydrogen Ion	L-arabinitol 4-dehydrogenase	Dehydrogenation	RHEA	34755880
MMDBr0013606	NADP(+)	Hydrogen Ion	L-xylulose reductase	Reduction	RHEA	34755880
MMDBr0013816	Adenosine triphosphate	ADP	L-xylulose/3-keto-L-gulonate kinase	Phosphorylation	RHEA	34755880
MMDBr0013817	Adenosine triphosphate	ADP	L-xylulose/3-keto-L-gulonate kinase	Phosphorylation	RHEA	34755880
MMDBr0016646	L-Ribulose	L-Threo-2-pentulose	5-keto-L-gluconate epimerase	Epimerization	RHEA	34755880
MMDBr0017727	NAD	Hydrogen Ion	NADH-dependent L-xylulose reductase	Reduction	RHEA	34755880
MMDBr0017728	NAD	Hydrogen Ion	NADH-dependent L-xylulose reductase	Reduction	RHEA	34755880
MMDBr0017729	Hydrogen Ion	NAD	NADH-dependent L-xylulose reductase	Reduction	RHEA	34755880

Health Effects and Bioactivity

Health Outcome/Bioactivity	Metabolite Response/Effect	Evidence Type	Host and Biospecimen	Data Source	Reference

Microbial Sources

Superkingdom/Kingdom	Phylum	Total species	Hosts and Body Sites	Microbial Links
Bacteria	Proteobacteria	18	Human ; Human feces; Human feces; pleural fluid plaque; bal; Human stool; Pig ; Chicken	Unknown; Metabolic reconstruction
Bacteria	Firmicutes	6	Human feces; Human	Metabolic reconstruction
Eukaryota/Fungi	Ascomycota	9	Human feces
Bacteria	Thermotogae	1
Bacteria/NULL	Actinobacteria	1

Exposure Sources

Source Type	Source Sub-type	Species	Data Source	Reference

Host Biospecimen and Location

Host and Biospecimen	Status	Mean	Std	Min	Max	Units	Age	Sex	Health Condition	Data Source	Reference
Human Feces	Detected but not Quantified									HMDB

External Links

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FooDB ID

FDB022223

KNApSAcK ID

Not Available

Chemspider ID

Not Available

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Xylulose

METLIN ID

Not Available

PubChem Compound

22253

PDB ID

Not Available

ChEBI ID

17399

Food Biomarker Ontology

Not Available

References

Synthesis Reference

Not Available

General References

Wang YM, van Eys J: Nutritional significance of fructose and sugar alcohols. Annu Rev Nutr. 1981;1:437-75. doi: 10.1146/annurev.nu.01.070181.002253. [PubMed:6821187 ]
Noronha A, Modamio J, Jarosz Y, Guerard E, Sompairac N, Preciat G, Danielsdottir AD, Krecke M, Merten D, Haraldsdottir HS, Heinken A, Heirendt L, Magnusdottir S, Ravcheev DA, Sahoo S, Gawron P, Friscioni L, Garcia B, Prendergast M, Puente A, Rodrigues M, Roy A, Rouquaya M, Wiltgen L, Zagare A, John E, Krueger M, Kuperstein I, Zinovyev A, Schneider R, Fleming RMT, Thiele I: The Virtual Metabolic Human database: integrating human and gut microbiome metabolism with nutrition and disease. Nucleic Acids Res. 2019 Jan 8;47(D1):D614-D624. doi: 10.1093/nar/gky992. [PubMed:30371894 ]
Bansal P, Morgat A, Axelsen KB, Muthukrishnan V, Coudert E, Aimo L, Hyka-Nouspikel N, Gasteiger E, Kerhornou A, Neto TB, Pozzato M, Blatter MC, Ignatchenko A, Redaschi N, Bridge A: Rhea, the reaction knowledgebase in 2022. Nucleic Acids Res. 2022 Jan 7;50(D1):D693-D700. doi: 10.1093/nar/gkab1016. [PubMed:34755880 ]

Showing metabocard for L-Threo-2-pentulose (MMDBc0029509)

MOL for #<Metabolite:0x00007fe2d41b2ce0>

3D MOL for #<Metabolite:0x00007fe2d41b2ce0>

3D SDF for #<Metabolite:0x00007fe2d41b2ce0>

3D-SDF for #<Metabolite:0x00007fe2d41b2ce0>

PDB for #<Metabolite:0x00007fe2d41b2ce0>

3D PDB for #<Metabolite:0x00007fe2d41b2ce0>

SMILES for #<Metabolite:0x00007fe2d41b2ce0>

INCHI for #<Metabolite:0x00007fe2d41b2ce0>

Structure for #<Metabolite:0x00007fe2d41b2ce0>

3D Structure for #<Metabolite:0x00007fe2d41b2ce0>