7RFK

CamA Adenine Methyltransferase Complexed to Cognate Substrate DNA and Inhibitor Sinefungin

Summary for 7RFK

• Entry DOI: 10.2210/pdb7rfk/pdb
• Descriptor: Site-specific DNA-methyltransferase (adenine-specific), DNA Strand 2, DNA Strand 1, ... (7 entities in total)
• Functional Keywords: dna adenine methylation, protein-dna complex, transferase, dna binding protein, dna binding protein-dna complex, dna binding protein/dna
• Biological source: Clostridioides difficile (Peptoclostridium difficile); More
• Total number of polymer chains: 9
• Total formula weight: 235088.46

Authors

Horton, J.R.,Cheng, X.,Zhou, J. (deposition date: 2021-07-14, release date: 2021-09-15, Last modification date: 2023-10-18)

Primary citation

Zhou, J.,Horton, J.R.,Yu, D.,Ren, R.,Blumenthal, R.M.,Zhang, X.,Cheng, X.
Repurposing epigenetic inhibitors to target the Clostridioides difficile- specific DNA adenine methyltransferase and sporulation regulator CamA.
Epigenetics, 17:970-981, 2022

PubMed Abstract: Epigenetically targeted therapeutic development, particularly for SAM-dependent methylations of DNA, mRNA and histones has been proceeding rapidly for cancer treatments over the past few years. However, this approach has barely begun to be exploited for developing new antibiotics, despite an overwhelming global need to counter antimicrobial resistance. Here, we explore whether SAM analogues, some of which are in (pre)clinical studies as inhibitors of human epigenetic enzymes, can also inhibit specific DNA adenine methyltransferase (CamA), a sporulation regulator present in all genomes sequenced to date, but found in almost no other bacteria. We found that SGC0946 (an inhibitor of DOT1L), JNJ-64619178 (an inhibitor of PRMT5) and SGC8158 (an inhibitor of PRMT7) inhibit CamA enzymatic activity in vitro at low micromolar concentrations. Structural investigation of the ternary complexes of CamA-DNA in the presence of SGC0946 or SGC8158 revealed conformational rearrangements of the N-terminal arm, with no apparent disturbance of the active site. This N-terminal arm and its modulation of exchanges between SAM (the methyl donor) and SAH (the reaction product) during catalysis of methyl transfer are, to date, unique to CamA. Our work presents a substantial first step in generating potent and selective inhibitors of CamA that would serve in the near term as chemical probes to investigate the cellular mechanism(s) of CamA in controlling spore formation and colonization, and eventually as therapeutic antivirulence agents useful in treating infection.

PubMed: 34523387
DOI: 10.1080/15592294.2021.1976910

Experimental method

X-RAY DIFFRACTION (2.05 Å)