Carbapenemases-producingK. pneumoniaeare challenging antimicrobial therapy of hospitalised patients, which is further complicated by colistin resistance. The aim of this study was to investigate the molecular epidemiological insights into carbapenemases-producing and colistin-resistant clinicalK. pneumoniaeA total of 162 colistin resistant clinical strains ofK. pneumoniaewere collected during 2017–2019. Antimicrobial susceptibility and the colistin minimum inhibitory concentration were determined. Using PCR assay, the prevalence of resistance-associated genes includingblaKPC,blaIMP,blaVIM,blaOXA-48,blaNDM-1andmcr-1 to -9 was examined. Additionally, a PCR assay was used to examine themgrBgene in colistin-resistant bacteria. 94.4% of the tested strains were resistant to imipenem and 96.3% were resistant to meropenem. Colistin resistance (MIC > 4 µg/L) was observed in 161 isolates (99.4%) by Colistin Broth Disk Elution method. The KPC enzyme was the most common carbapenemase and was identified in 95 strains (58.6%), followed by the IMP, VIM and OXA-48 detected in 47 (29%), 23 (14.2%) and 12 (7.4%) isolates, respectively. However, no NDM-1 gene was detected. Additionally, none of the studied isolates harbored mcr variants, whilemgrBgene was observed in 152 (92.6%) isolates. Colistin resistance ofK. pneumoniaeisolates may be associated withmgrBgene mutation. To stop the spread of resistantK. pneumoniae, surveillance must be improved, infection prevention protocols must be followed, and antibiotic stewardship must be practised.