gemcitabine   Click here for help

GtoPdb Ligand ID: 4793

Synonyms: gemcitabine hydrochloride | Gemzar®
Approved drug PDB Ligand
gemcitabine is an approved drug (FDA (1996))
Compound class: Synthetic organic
Comment: Gemcitabine is a nucleoside analogue chemotherapeutic. Chemically, the hydrogen atoms on the 2' carbon of deoxycytidine are replaced by fluorine atoms.
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 3
Rotatable bonds 2
Topological polar surface area 110.6
Molecular weight 263.07
XLogP 0.14
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 OCC1OC(C(C1O)(F)F)n1ccc(nc1=O)N
Isomeric SMILES OC[C@H]1O[C@H](C([C@@H]1O)(F)F)n1ccc(nc1=O)N
InChI InChI=1S/C9H11F2N3O4/c10-9(11)6(16)4(3-15)18-7(9)14-2-1-5(12)13-8(14)17/h1-2,4,6-7,15-16H,3H2,(H2,12,13,17)/t4-,6-,7-/m1/s1
InChI Key SDUQYLNIPVEERB-QPPQHZFASA-N
Classification Click here for help
Compound class Synthetic organic
Approved drug? Yes (FDA (1996))
WHO Essential Medicine WHO Essential Medicines List (EML) (23rd List, 2023). Access PDF version.
Click to view more information about the WHO Model Lists of Essential Medicines.
IUPAC Name Click here for help
4-amino-1-[(2R,4R,5R)-3,3-difluoro-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-1,2-dihydropyrimidin-2-one
International Nonproprietary Names Click here for help
INN number INN
6515 gemcitabine
Synonyms Click here for help
gemcitabine hydrochloride | Gemzar®
Database Links Click here for help
CAS Registry No. 95058-81-4
ChEMBL Ligand CHEMBL888
DrugBank Ligand DB00441
DrugCentral Ligand 1283
GtoPdb PubChem SID 178101495
PubChem CID 60750
RCSB PDB Ligand GEO
Search Google for chemical match using the InChIKey SDUQYLNIPVEERB-QPPQHZFASA-N
Search Google for chemicals with the same backbone SDUQYLNIPVEERB
Search PubMed clinical trials gemcitabine
Search PubMed titles gemcitabine
Search PubMed titles/abstracts gemcitabine
UniChem Compound Search for chemical match using the InChIKey SDUQYLNIPVEERB-QPPQHZFASA-N
UniChem Connectivity Search for chemical match using the InChIKey SDUQYLNIPVEERB-QPPQHZFASA-N
Wikipedia Gemcitabine