4rtk › Citations

Structures of Escherichia coli DNA adenine methyltransferase (Dam) in complex with a non-GATC sequence: potential implications for methylation-independent transcriptional repression.

Horton JR, Zhang X, Blumenthal RM, Cheng X
Nucleic Acids Res 43 4296-308 (2015)
Related entries: 4rtj, 4rtl, 4rtm, 4rtn, 4rto, 4rtp, 4rtq, 4rtr, 4rts

Cited: 8 times
EuropePMC logo PMID: 25845600

Abstract

DNA adenine methyltransferase (Dam) is widespread and conserved among the γ-proteobacteria. Methylation of the Ade in GATC sequences regulates diverse bacterial cell functions, including gene expression, mismatch repair and chromosome replication. Dam also controls virulence in many pathogenic Gram-negative bacteria. An unexplained and perplexing observation about Escherichia coli Dam (EcoDam) is that there is no obvious relationship between the genes that are transcriptionally responsive to Dam and the promoter-proximal presence of GATC sequences. Here, we demonstrate that EcoDam interacts with a 5-base pair non-cognate sequence distinct from GATC. The crystal structure of a non-cognate complex allowed us to identify a DNA binding element, GTYTA/TARAC (where Y = C/T and R = A/G). This element immediately flanks GATC sites in some Dam-regulated promoters, including the Pap operon which specifies pyelonephritis-associated pili. In addition, Dam interacts with near-cognate GATC sequences (i.e. 3/4-site ATC and GAT). Taken together, these results imply that Dam, in addition to being responsible for GATC methylation, could also function as a methylation-independent transcriptional repressor.

Reviews citing this publication (1)

  1. Bacterial DNA methyltransferase: A key to the epigenetic world with lessons learned from proteobacteria. Gao Q, Lu S, Wang Y, He L, Wang M, Jia R, Chen S, Zhu D, Liu M, Zhao X, Yang Q, Wu Y, Zhang S, Huang J, Mao S, Ou X, Sun D, Tian B, Cheng A. Front Microbiol 14 1129437 (2023)

Articles citing this publication (7)

  1. A role for the bacterial GATC methylome in antibiotic stress survival. Cohen NR, Ross CA, Jain S, Shapiro RS, Gutierrez A, Belenky P, Li H, Collins JJ. Nat Genet 48 581-586 (2016)
  2. The cell cycle-regulated DNA adenine methyltransferase CcrM opens a bubble at its DNA recognition site. Horton JR, Woodcock CB, Opot SB, Reich NO, Zhang X, Cheng X. Nat Commun 10 4600 (2019)
  3. Identification of a Pseudomonas aeruginosa PAO1 DNA Methyltransferase, Its Targets, and Physiological Roles. Doberenz S, Eckweiler D, Reichert O, Jensen V, Bunk B, Spröer C, Kordes A, Frangipani E, Luong K, Korlach J, Heeb S, Overmann J, Kaever V, Häussler S. mBio 8 e02312-16 (2017)
  4. Antibiotic Toxicity Profiles of Escherichia coli Strains Lacking DNA Methyltransferases. Chen Z, Wang H. ACS Omega 6 7834-7840 (2021)
  5. Antimicrobial resistance in Klebsiella pneumoniae: identification of bacterial DNA adenine methyltransferase as a novel drug target from hypothetical proteins using subtractive genomics. Omeershffudin UNM, Kumar S. Genomics Inform 20 e47 (2022)
  6. Structural basis for MTA1c-mediated DNA N6-adenine methylation. Chen J, Hu R, Chen Y, Lin X, Xiang W, Chen H, Yao C, Liu L. Nat Commun 13 3257 (2022)
  7. Conjoint expression and purification strategy for acquiring proteins with ultra-low DNA N6-methyladenine backgrounds in Escherichia coli. Chen Z, Liu Y, Wang H. Biosci Rep 41 BSR20203769 (2021)


Quick links