Sodium (PAMDB000470)

IdentificationTaxonomyPhysical PropertiesBiological PropertiesSpectraConcentrationsLinksReferencesEnzymes Transporters
Proteins (3280)
Record Information
Version 1.0
Update Date 1/22/2018 12:54:54 PM
Metabolite IDPAMDB000470
Identification
Name: Sodium
Description:Sodium is a metallic element that is soluble in water in nearly all of its compounds, and is thus present in great quantities in the Earth's oceans and other stagnant bodies of water. In these bodies it is mostly counterbalanced by the chloride ion, causing evaporated ocean water solids to consist mostly of sodium chloride, or common table salt. Sodium ion is also a component of many minerals. Export of sodium from the cell provides the driving force for several secondary active transporters membrane transport proteins, which import glucose, amino acids, and other nutrients into the cell by use of the sodium gradient.
Structure
Thumb
🔍MOLSDFPDBSMILESInChIView Structure
Synonyms:
  • Sodium
  • Sodium ion
Chemical Formula: Na
Average Molecular Weight: 22.9898
Monoisotopic Molecular Weight: 22.989769675
InChI Key: FKNQFGJONOIPTF-UHFFFAOYSA-N
InChI:InChI=1S/Na/q+1
CAS number: 7440-23-5
IUPAC Name:sodium(1+) ion
Traditional IUPAC Name: sodium(1+) ion
SMILES:[Na+]
Chemical Taxonomy
Taxonomy DescriptionThis compound belongs to the class of inorganic compounds known as homogeneous alkali metal compounds. These are inorganic compounds containing only metal atoms,with the largest atom being a alkali metal atom.
Kingdom Inorganic compounds
Super ClassHomogeneous metal compounds
Class Homogeneous alkali metal compounds
Sub ClassNot Available
Direct Parent Homogeneous alkali metal compounds
Alternative Parents Not Available
Substituents
  • Homogeneous alkali metal
  • Acyclic compound
Molecular Framework Acyclic compounds
External Descriptors
Physical Properties
State: Solid
Charge:1
Melting point: 97.82 °C
Experimental Properties:
PropertyValueSource
LogP:1.011PhysProp
Predicted Properties
PropertyValueSource
logP-0.77ChemAxon
Physiological Charge1ChemAxon
Hydrogen Acceptor Count0ChemAxon
Hydrogen Donor Count0ChemAxon
Polar Surface Area0 Å2ChemAxon
Rotatable Bond Count0ChemAxon
Refractivity0 m3·mol-1ChemAxon
Polarizability1.78 Å3ChemAxon
Number of Rings0ChemAxon
Bioavailability1ChemAxon
Rule of FiveYesChemAxon
Ghose FilterYesChemAxon
Veber's RuleYesChemAxon
MDDR-like RuleYesChemAxon
Biological Properties
Cellular Locations: Cytoplasm
Reactions:
Pathways:
Spectra
Spectra:
Spectrum TypeDescriptionSplash Key
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 10V, Positivesplash10-00di-9000000000-25bf08b0ab99f8116a31View in MoNA
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 20V, Positivesplash10-00di-9000000000-25bf08b0ab99f8116a31View in MoNA
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 40V, Positivesplash10-00di-9000000000-25bf08b0ab99f8116a31View in MoNA
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 10V, Negativesplash10-00di-9000000000-fba837e9c7559de06780View in MoNA
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 20V, Negativesplash10-00di-9000000000-fba837e9c7559de06780View in MoNA
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 40V, Negativesplash10-00di-9000000000-fba837e9c7559de06780View in MoNA
References
References:
  • Achard JM, Hadchouel J, Faure S, Jeunemaitre X: Inherited sodium avid states. Adv Chronic Kidney Dis. 2006 Apr;13(2):118-23. Pubmed: 16580612
  • Felder RA, Jose PA: Mechanisms of disease: the role of GRK4 in the etiology of essential hypertension and salt sensitivity. Nat Clin Pract Nephrol. 2006 Nov;2(11):637-50. Pubmed: 17066056
  • Fox CS, Larson MG, Hwang SJ, Leip EP, Rifai N, Levy D, Benjamin EJ, Murabito JM, Meigs JB, Vasan RS: Cross-sectional relations of serum aldosterone and urine sodium excretion to urinary albumin excretion in a community-based sample. Kidney Int. 2006 Jun;69(11):2064-9. Pubmed: 16572107
  • Kanehisa, M., Goto, S., Sato, Y., Furumichi, M., Tanabe, M. (2012). "KEGG for integration and interpretation of large-scale molecular data sets." Nucleic Acids Res 40:D109-D114. Pubmed: 22080510
  • Keseler, I. M., Collado-Vides, J., Santos-Zavaleta, A., Peralta-Gil, M., Gama-Castro, S., Muniz-Rascado, L., Bonavides-Martinez, C., Paley, S., Krummenacker, M., Altman, T., Kaipa, P., Spaulding, A., Pacheco, J., Latendresse, M., Fulcher, C., Sarker, M., Shearer, A. G., Mackie, A., Paulsen, I., Gunsalus, R. P., Karp, P. D. (2011). "EcoCyc: a comprehensive database of Escherichia coli biology." Nucleic Acids Res 39:D583-D590. Pubmed: 21097882
  • SCHULTZ, S. G., WILSON, N. L., EPSTEIN, W. (1962). "Cation transport in Escherichia coli. II. Intracellular chloride concentration." J Gen Physiol 46:159-166. Pubmed: 13909522
Synthesis Reference: Not Available
Material Safety Data Sheet (MSDS) Download (PDF)
External Links:
ResourceLink
CHEBI ID26708
HMDB IDHMDB00588
Pubchem Compound ID923
Kegg IDC01330
ChemSpider ID899
WikipediaSodium
BioCyc IDNA+
EcoCyc IDNA+
Ligand ExpoNA

Transporters

Protein Details
• Sodium/proline symporter
General function:
Involved in proline:sodium symporter activity
Specific function:
Catalyzes the sodium-dependent uptake of extracellular L-proline. This protein is also capable of using lithium as the transport cation. Also catalyzes the uptake of propionate
Gene Name:
putP
Locus Tag:
PA0783
Molecular weight:
54.4 kDa
Protein Details
• Uncharacterized transporter yaaJ
General function:
Involved in sodium:amino acid symporter activity
Specific function:
Specific function unknown
Gene Name:
yaaJ
Locus Tag:
PA3641
Molecular weight:
50.3 kDa
Protein Details
• Sodium/glutamate symport carrier protein
General function:
Involved in glutamate:sodium symporter activity
Specific function:
Catalyzes the sodium-dependent uptake of extracellular glutamate
Gene Name:
gltS
Locus Tag:
PA3176
Molecular weight:
42.8 kDa
Protein Details
• Serine/threonine transporter sstT
General function:
Involved in sodium:dicarboxylate symporter activity
Specific function:
Involved in the import of serine and threonine into the cell, with the concomitant import of sodium (symport system)
Gene Name:
sstT
Locus Tag:
PA2042
Molecular weight:
42.4 kDa
Protein Details
• Cation/acetate symporter ActP
General function:
Involved in transporter activity
Specific function:
Transports acetate. Also able to transport glycolate
Gene Name:
actP
Locus Tag:
PA3234
Molecular weight:
58.7 kDa
Protein Details
• Na(+)/H(+) antiporter nhaB
General function:
Involved in sodium:hydrogen antiporter activity
Specific function:
Na(+)/H(+) antiporter that extrudes sodium in exchange for external protons. Catalyzes the exchange of 3 H(+) per 2 Na(+). Has a high affinity for sodium, but can also transport lithium. Activity is weakly pH-dependent. Essential for regulation of intracellular pH under alkaline conditions
Gene Name:
nhaB
Locus Tag:
PA1820
Molecular weight:
54.2 kDa
Protein Details
• Branched-chain amino acid transport system 2 carrier protein
General function:
Involved in branched-chain aliphatic amino acid transmembrane transporter activity
Specific function:
Component of the LIV-II transport system for branched- chain amino acids. This LIV-II transport system may be H(+)- coupled
Gene Name:
brnQ
Locus Tag:
PA1971
Molecular weight:
45.3 kDa