A Study of a Potent Inhibitor against a GDP-6-Deoxy-α-d-Manno-Heptose Biosynthesis Pathway as Antibiotic Candidates

Suwon Kim, Seri Jo, Mi Sun Kim, Dong Hae Shin

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3 Scopus citations


The GDP-6-deoxy-α-d-manno-heptose is a key building block molecule in constructing lipopolysaccharide of Gram-negative bacteria. Therefore, blockage of the biosynthesis pathway of GDP-6-deoxy-α-d-manno-heptose is lethal or increases antibiotics susceptibility to pathogens. In this study, we assayed d-glycero-α-d-manno-heptose-1-phosphate guanylyltransferase (HddC) from Yersinia pseudotuberculosis (Yp) using an efficient assay method supplying its natural substrate. Using the method, 102 chemical compounds were tested to search inhibitory compounds and electrospray ionization mass spectrometry was used to detect the HddC from Y. pseudotuberculosis (YpHddC) reaction product, GDP-d-glycero-α-d-manno-heptose. Interestingly, one promising lead, ethyl 5-({[(5-benzyl-1, 3, 4-oxadiazol-2-yl) thio] acetyl} amino)-4-cyano-3-methyl-2-thiophenecarboxylate (Chembridge 7929959), was discovered. The inhibitory activity of the lead compound against YpHddC has been proven by blocking its nucleotidyltransferase activity transferring the GMP moiety to α-d-mannose-1-phosphate (αM1P). Chembridge 7929959 shows that the half maximal inhibitory concentration (IC50) is 0.222 μM indicating its affinity with αM1P.

Original languageEnglish
Pages (from-to)385-390
Number of pages6
JournalMicrobial Drug Resistance
Issue number4
StatePublished - Apr 2020

Bibliographical note

Funding Information:
This research was supported by the Basic Science Research Programs, 2018R1D1A1B07050781 to D.H.S. and 2018R1D1A1B07050942 to M.-S.K., funded by the National Research Foundation of Korea granted by the Ministry of Education, Science, and Technology (MEST), Republic of Korea.

Publisher Copyright:
© Copyright 2020, Mary Ann Liebert, Inc.


  • Yersinia pseudotuberculosis
  • biosynthesis pathway of GDP-6-deoxy-α-d-manno-heptose
  • electrospray ionization mass spectroscopy
  • nucleotide-activated heptose
  • yersiniosis


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