MiMeDB: Showing metabocard for Kanamycin A (MMDBc0028324)

Pharmaceutical

Xenobiotic

Record Information

Version

2.0

Status

Detected and Quantified

Creation Date

2021-05-15 17:58:19 UTC

Update Date

2025-10-07 16:07:50 UTC

Metabolite ID

MMDBc0028324

Metabolite Identification

Common Name

Kanamycin A

Description

Kanamycin A is an aminoglycoside antibiotic that belongs to the class of compounds known as aminoglycosides, which are characterized by their amino-modified glycoside structure. Chemically, it is composed of a 2-deoxystreptamine core linked to multiple sugar moieties, which contribute to its antibacterial activity by binding to the 30S ribosomal subunit, inhibiting protein synthesis in susceptible bacteria. Kanamycin A is involved in various biochemical pathways, particularly in the context of antibiotic resistance mechanisms. For instance, the aphA1 kanamycin and neomycin resistance gene, which originated in Klebsiella michiganensis, confers resistance to these aminoglycosides and is commonly found in diverse Gram-negative bacterial pathogens, often associated with mobile genetic elements (PMID:41041972 ). This resistance gene plays a crucial role in the survival of bacteria in the presence of kanamycin, highlighting the ongoing challenge of antibiotic resistance in clinical settings. Additionally, kanamycin A is utilized in plant tissue culture to select transformed cells, as evidenced by its application in co-cultivation protocols involving Agrobacterium tumefaciens (PMID:41028423 ).

Structure

MOL SDF PDB SMILES InChI

Synonyms

Not Available

Molecular Formula

C₁₈H₃₆N₄O₁₁

Average Mass

484.4986

Monoisotopic Mass

484.238058014

IUPAC Name

Not Available

Traditional Name

Not Available

CAS Registry Number

Not Available

SMILES

Not Available

InChI Identifier

InChI=1S/C18H36N4O11/c19-2-6-10(25)12(27)13(28)18(30-6)33-16-5(21)1-4(20)15(14(16)29)32-17-11(26)8(22)9(24)7(3-23)31-17/h4-18,23-29H,1-3,19-22H2/t4-,5+,6-,7-,8+,9-,10-,11-,12+,13-,14-,15+,16-,17-,18-/m1/s1

InChI Key

SBUJHOSQTJFQJX-NOAMYHISSA-N

Chemical Taxonomy

Functional Ontology

Not Available

Physical Properties

State

Expected Solid

Predicted Properties

Not Available

Spectra

Not Available

Biological Properties

Cellular Locations

Cytoplasm

Biospecimen Locations

Not Available

Tissue Locations

Not Available

Associated OMIM IDs

114500 (Colorectal cancer)
610247 (Eosinophilic esophagitis)

Human Proteins and Enzymes

Protein ID	Protein Name	Protein Type	Uniprot ID	Species

Human Pathways

Pathways

Name	SMPDB/PathBank

Microbial Pathways

Pathways

Not Available

Metabolic Reactions

Reactions

This table shows at most 20 reactions. For the full list of associated reactions:

See All Associated Reactions

Reaction ID	Precursor	Product	Enzyme	Reaction Type	Data Source	Reference

Health Effects and Bioactivity

Health Outcome/Bioactivity	Metabolite Response/Effect	Evidence Type	Host and Biospecimen	Data Source	Reference

Microbial Sources

Superkingdom/Kingdom	Phylum	Total species	Hosts and Body Sites	Microbial Links
Bacteria/Eubacteria	Proteobacteria	5	Human ; Human feces; Human feces; pleural fluid plaque; bal; Human stool; Human sputum; Human subgingival plaque
Bacteria/Eubacteria	Firmicutes	4	Human ; Human feces; Human subgingival plaque; Human saliva
Bacteria/Eubacteria	Actinobacteria	3		Metabolic reconstruction
Bacteria	Actinobacteria	2		Metabolic reconstruction

Exposure Sources

Other Exposures

Source Type	Data Source	Reference
Drugs - Antimicrobial	U.S. Environmental Protection Agency	CompTox
Cosmetics	U.S. Environmental Protection Agency	CompTox
Domestics	U.S. Environmental Protection Agency	CompTox

Host Biospecimen and Location

Host and Biospecimen	Status	Mean	Std	Min	Max	Units	Age	Sex	Health Condition	Data Source	Reference

External Links

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FooDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

Not Available

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

Not Available

PDB ID

Not Available

ChEBI ID

Not Available

Food Biomarker Ontology

Not Available

CMMC Knowledgebase

Not Available

General References

Bansal P, Morgat A, Axelsen KB, Muthukrishnan V, Coudert E, Aimo L, Hyka-Nouspikel N, Gasteiger E, Kerhornou A, Neto TB, Pozzato M, Blatter MC, Ignatchenko A, Redaschi N, Bridge A: Rhea, the reaction knowledgebase in 2022. Nucleic Acids Res. 2022 Jan 7;50(D1):D693-D700. doi: 10.1093/nar/gkab1016. [PubMed:34755880 ]

Showing metabocard for Kanamycin A (MMDBc0028324)

MOL for #<Metabolite:0x00007f8de8cc0c90>

3D MOL for #<Metabolite:0x00007f8de8cc0c90>

3D SDF for #<Metabolite:0x00007f8de8cc0c90>

3D-SDF for #<Metabolite:0x00007f8de8cc0c90>

PDB for #<Metabolite:0x00007f8de8cc0c90>

3D PDB for #<Metabolite:0x00007f8de8cc0c90>

SMILES for #<Metabolite:0x00007f8de8cc0c90>

INCHI for #<Metabolite:0x00007f8de8cc0c90>

Structure for #<Metabolite:0x00007f8de8cc0c90>

3D Structure for #<Metabolite:0x00007f8de8cc0c90>