NAV

D-Lysine

Identification

Generic Name
D-Lysine
DrugBank Accession Number
DB03252
Background

An essential amino acid. It is often added to animal feed. [PubChem]

Type
Small Molecule
Groups
Experimental
Structure
3D
Similar Structures
Weight
Average: 146.1876
Monoisotopic: 146.105527702
Chemical Formula
C6H14N2O2
Synonyms
  • (R)-2,6-diaminohexanoic acid
  • D-2,6-Diaminohexanoic acid
  • D-Lysin
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Pharmacology

Indication

Not Available

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Contraindications & Blackbox Warnings
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Pharmacodynamics

Not Available

Mechanism of action
TargetActionsOrganism
UAlanine racemase, catabolicNot AvailablePseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228)
UDiaminopimelate decarboxylaseNot AvailableEscherichia coli (strain K12)
Absorption

Not Available

Volume of distribution

Not Available

Protein binding

Not Available

Metabolism
Not Available
Route of elimination

Not Available

Half-life

Not Available

Clearance

Not Available

Adverse Effects
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Toxicity

Not Available

Pathways
Not Available
Pharmacogenomic Effects/ADRs
Not Available

Interactions

Drug Interactions
This information should not be interpreted without the help of a healthcare provider. If you believe you are experiencing an interaction, contact a healthcare provider immediately. The absence of an interaction does not necessarily mean no interactions exist.
Not Available
Food Interactions
Not Available

Categories

Drug Categories
Not Available
Chemical TaxonomyProvided by Classyfire
Description
This compound belongs to the class of organic compounds known as d-alpha-amino acids. These are alpha amino acids which have the D-configuration of the alpha-carbon atom.
Kingdom
Organic compounds
Super Class
Organic acids and derivatives
Class
Carboxylic acids and derivatives
Sub Class
Amino acids, peptides, and analogues
Direct Parent
D-alpha-amino acids
Alternative Parents
Medium-chain fatty acids / Amino fatty acids / Amino acids / Monocarboxylic acids and derivatives / Carboxylic acids / Organopnictogen compounds / Organic oxides / Monoalkylamines / Hydrocarbon derivatives / Carbonyl compounds
Substituents
Aliphatic acyclic compound / Amine / Amino acid / Amino fatty acid / Carbonyl group / Carboxylic acid / D-alpha-amino acid / Fatty acid / Fatty acyl / Hydrocarbon derivative
Molecular Framework
Aliphatic acyclic compounds
External Descriptors
lysine, D-alpha-amino acid (CHEBI:16855) / Other amino acids (C00739)
Affected organisms
Not Available

Chemical Identifiers

UNII
3HQ6U6424Q
CAS number
923-27-3
InChI Key
KDXKERNSBIXSRK-RXMQYKEDSA-N
InChI
InChI=1S/C6H14N2O2/c7-4-2-1-3-5(8)6(9)10/h5H,1-4,7-8H2,(H,9,10)/t5-/m1/s1
IUPAC Name
(2R)-2,6-diaminohexanoic acid
SMILES
[H][C@@](N)(CCCCN)C(O)=O

References

Synthesis Reference

Masakatsu Furui, Eiji Takahashi, Hiroyasu Seko, "Process for preparing D-lysine." U.S. Patent US5723321, issued June, 1992.

US5723321
General References
Not Available
KEGG Compound
C00739
PubChem Compound
57449
PubChem Substance
46506741
ChemSpider
51793
BindingDB
217368
ChEBI
16855
ChEMBL
CHEMBL319497
ZINC
ZINC000001532731
PDBe Ligand
DLY
PDB Entries
1c4b / 1ko0 / 1rcq / 1ywh / 2ats / 2ki4 / 2ki6 / 2kql / 2m7i / 2q33 …
show 139 more

Clinical Trials

Clinical Trials
PhaseStatusPurposeConditionsCount

Pharmacoeconomics

Manufacturers
Not Available
Packagers
Not Available
Dosage Forms
Not Available
Prices
Not Available
Patents
Not Available

Properties

State
Solid
Experimental Properties
Not Available
Predicted Properties
PropertyValueSource
Water Solubility105.0 mg/mLALOGPS
logP-3.8ALOGPS
logP-3.2Chemaxon
logS-0.14ALOGPS
pKa (Strongest Acidic)2.74Chemaxon
pKa (Strongest Basic)10.29Chemaxon
Physiological Charge1Chemaxon
Hydrogen Acceptor Count4Chemaxon
Hydrogen Donor Count3Chemaxon
Polar Surface Area89.34 Å2Chemaxon
Rotatable Bond Count5Chemaxon
Refractivity37.81 m3·mol-1Chemaxon
Polarizability15.91 Å3Chemaxon
Number of Rings0Chemaxon
Bioavailability1Chemaxon
Rule of FiveYesChemaxon
Ghose FilterNoChemaxon
Veber's RuleNoChemaxon
MDDR-like RuleNoChemaxon
Predicted ADMET Features
PropertyValueProbability
Human Intestinal Absorption+0.8514
Blood Brain Barrier+0.7107
Caco-2 permeable-0.7663
P-glycoprotein substrateNon-substrate0.5949
P-glycoprotein inhibitor INon-inhibitor0.9863
P-glycoprotein inhibitor IINon-inhibitor0.9625
Renal organic cation transporterNon-inhibitor0.8878
CYP450 2C9 substrateNon-substrate0.85
CYP450 2D6 substrateNon-substrate0.7525
CYP450 3A4 substrateNon-substrate0.8287
CYP450 1A2 substrateNon-inhibitor0.9379
CYP450 2C9 inhibitorNon-inhibitor0.9643
CYP450 2D6 inhibitorNon-inhibitor0.9749
CYP450 2C19 inhibitorNon-inhibitor0.9653
CYP450 3A4 inhibitorNon-inhibitor0.9338
CYP450 inhibitory promiscuityLow CYP Inhibitory Promiscuity0.9912
Ames testAMES toxic0.8612
CarcinogenicityNon-carcinogens0.8476
BiodegradationReady biodegradable0.8163
Rat acute toxicity1.3190 LD50, mol/kg Not applicable
hERG inhibition (predictor I)Weak inhibitor0.9694
hERG inhibition (predictor II)Non-inhibitor0.9525
ADMET data is predicted using admetSAR, a free tool for evaluating chemical ADMET properties. (23092397)

Spectra

Mass Spec (NIST)
Not Available
Spectra
SpectrumSpectrum TypeSplash Key
Predicted MS/MS Spectrum - 10V, Positive (Annotated)Predicted LC-MS/MSsplash10-001i-9600000000-867c0bee952743ac8810
Predicted MS/MS Spectrum - 10V, Negative (Annotated)Predicted LC-MS/MSsplash10-0002-0900000000-dd9ae886af0691e0035e
Predicted MS/MS Spectrum - 20V, Positive (Annotated)Predicted LC-MS/MSsplash10-001i-9000000000-fa53aac5a8c9e362a6a6
Predicted MS/MS Spectrum - 20V, Negative (Annotated)Predicted LC-MS/MSsplash10-0002-0900000000-773d2b7a8398ef303561
Predicted MS/MS Spectrum - 40V, Positive (Annotated)Predicted LC-MS/MSsplash10-0a4i-9000000000-8f53acee07658da412b9
Predicted MS/MS Spectrum - 40V, Negative (Annotated)Predicted LC-MS/MSsplash10-0006-9000000000-33881e056f19badf7f69
1H NMR Spectrum1D NMRNot Applicable
Predicted 1H NMR Spectrum1D NMRNot Applicable
Predicted 13C NMR Spectrum1D NMRNot Applicable
[1H,13C] 2D NMR Spectrum2D NMRNot Applicable
Chromatographic Properties
Collision Cross Sections (CCS)
AdductCCS Value (Å2)Source typeSource
[M-H]-135.8836732
predicted
DarkChem Lite v0.1.0
[M-H]-127.20033
predicted
DeepCCS 1.0 (2019)
[M+H]+136.3408732
predicted
DarkChem Lite v0.1.0
[M+H]+130.89915
predicted
DeepCCS 1.0 (2019)
[M+Na]+136.3156732
predicted
DarkChem Lite v0.1.0
[M+Na]+139.80876
predicted
DeepCCS 1.0 (2019)

Targets

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Details1. Alanine racemase, catabolic
Kind
Protein
Organism
Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228)
Pharmacological action
Unknown
General Function
Pyridoxal phosphate binding
Specific Function
Isomerizes L-alanine to D-alanine which is then oxidized to pyruvate by DadA.
Gene Name
dadX
Uniprot ID
Q9HTQ2
Uniprot Name
Alanine racemase, catabolic
Molecular Weight
38914.32 Da
References
  1. Overington JP, Al-Lazikani B, Hopkins AL: How many drug targets are there? Nat Rev Drug Discov. 2006 Dec;5(12):993-6. [Article]
  2. Imming P, Sinning C, Meyer A: Drugs, their targets and the nature and number of drug targets. Nat Rev Drug Discov. 2006 Oct;5(10):821-34. [Article]
Details2. Diaminopimelate decarboxylase
Kind
Protein
Organism
Escherichia coli (strain K12)
Pharmacological action
Unknown
General Function
Pyridoxal phosphate binding
Specific Function
Specifically catalyzes the decarboxylation of meso-diaminopimelate (meso-DAP) to L-lysine. Is not active against the DD- or LL-isomers of diaminopimelate.
Gene Name
lysA
Uniprot ID
P00861
Uniprot Name
Diaminopimelate decarboxylase
Molecular Weight
46176.975 Da
References
  1. Overington JP, Al-Lazikani B, Hopkins AL: How many drug targets are there? Nat Rev Drug Discov. 2006 Dec;5(12):993-6. [Article]
  2. Imming P, Sinning C, Meyer A: Drugs, their targets and the nature and number of drug targets. Nat Rev Drug Discov. 2006 Oct;5(10):821-34. [Article]

Drug created at June 13, 2005 13:24 / Updated at June 12, 2020 16:52