meso-DAP   Click here for help

GtoPdb Ligand ID: 5021

Synonyms: meso-diaminopimeilic acid
PDB Ligand
Compound class: Natural product or derivative
Comment: Diaminopimelic acid (DAP) is an amino acid, representing an epsilon-carboxy derivative of lysine. DAP is characteristic of cell walls of some bacteria.
2D Structure
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2D Structure

An image of the ligand's 2D structure. For small molecules with SMILES these are drawn using the NCI/CADD Chemical Identifier Resolver. Click on the image to access the chemical structure search tool with the ligand pre-loaded in the structure editor. For other types of ligands, e.g. longer nucleotides and peptides, a manually drawn representation of the molecule may be provided.

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Physico-chemical Properties
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Physico-chemical Properties

Calculated molecular properties are available for small molecules and natural products (not peptides). Properties were generated using the CDK toolkit. All properties were selected to enable the prediction of the Lipinski Rule-of-Five profile or ‘druglikeness’ for each ligand. For more info on each category see the help pages.

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Hydrogen bond acceptors 6
Hydrogen bond donors 4
Rotatable bonds 6
Topological polar surface area 126.64
Molecular weight 190.1
XLogP -3.46
No. Lipinski's rules broken 0
SMILES / InChI / InChIKey
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SMILES / InChI / InChIKey

SMILES (Simplified Molecular Input Line Entry Specification) A specification for unambiguously describing the structure of chemical molecules using short ASCII strings. Canonical SMILES specify a unique representation of the 2D structure without chiral or isotopic specifications. Isomeric SMILES include chiral specification and isotopes.

Standard InChI (IUPAC International Chemical Identifier) and InChIKey InChI is a non-proprietary, standard, textual identifier for chemical substances designed to facilitate linking of information and database searching. An InChIKey is a simplified version of a full InChI, designed for easier web searching.

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Canonical SMILES NC(C(=O)O)CCCC(C(=O)O)N
Isomeric SMILES N[C@H](C(=O)O)CCC[C@H](C(=O)O)N
InChI InChI=1S/C7H14N2O4/c8-4(6(10)11)2-1-3-5(9)7(12)13/h4-5H,1-3,8-9H2,(H,10,11)(H,12,13)/t4-,5+
InChI Key GMKMEZVLHJARHF-SYDPRGILSA-N

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Similar Ligands Click here for help
L-lysine
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Targets
Cationic amino acid transporter 3; GPRC6 receptor; High affinity cationic amino acid transporter 1; Low affinity cationic amino acid transporter 2; Mitochondrial ornithine transporter 1 ; Mitochondrial ornithine transporter 2; sodium-coupled neutral amino acid transporter 4
D-lysine
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Targets
Mitochondrial ornithine transporter 2
2(S)-amino-6-boronohexanoic acid
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Targets
Arginase I; Arginase II
Lys-thiol
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Targets
Arginyl aminopeptidase