D-ornithine   Click here for help

GtoPdb Ligand ID: 4682

PDB Ligand
Compound class: Metabolite or derivative
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 4
Hydrogen bond donors 3
Rotatable bonds 4
Topological polar surface area 89.34
Molecular weight 132.09
XLogP -3.31
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)CCCN
Isomeric SMILES N[C@@H](C(=O)O)CCCN
InChI InChI=1S/C5H12N2O2/c6-3-1-2-4(7)5(8)9/h4H,1-3,6-7H2,(H,8,9)/t4-/m1/s1
InChI Key AHLPHDHHMVZTML-SCSAIBSYSA-N
Classification Click here for help
Compound class Metabolite or derivative
IUPAC Name Click here for help
(2R)-2,5-diaminopentanoic acid
Database Links Click here for help
CAS Registry No. 348-66-3 (source: Scifinder)
ChEBI CHEBI:16176
ChEMBL Ligand CHEMBL103686
GtoPdb PubChem SID 178101396
PubChem CID 71082
RCSB PDB Ligand ORD
Search Google for chemical match using the InChIKey AHLPHDHHMVZTML-SCSAIBSYSA-N
Search Google for chemicals with the same backbone AHLPHDHHMVZTML
UniChem Compound Search for chemical match using the InChIKey AHLPHDHHMVZTML-SCSAIBSYSA-N
UniChem Connectivity Search for chemical match using the InChIKey AHLPHDHHMVZTML-SCSAIBSYSA-N