4RTL: Complex Of Escherichia Coli Dna Adenine Methyltransferase (dam) With Sinefungin And With Dna Containing Distal Pap Regulon Sequence

Citation:
Abstract
DNA adenine methyltransferase (Dam) is widespread and conserved among the gamma-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.
PDB ID: 4RTLDownload
MMDB ID: 128608
PDB Deposition Date: 2014/11/15
Updated in MMDB: 2015/05
Experimental Method:
x-ray diffraction
Resolution: 2.19  Å
Source Organism:
Escherichia coli str. K-12 substr. MDS42
Similar Structures:
Biological Unit for 4RTL: trimeric; determined by author
Molecular Components in 4RTL
Label Count Molecule
Protein (1 molecule)
1
DNA Adenine Methylase
Molecule annotation
Nucleotides(2 molecules)
1
DNA (5'-d(*tp*cp*tp*ap*ap*ap*gp*ap*tp*cp*g)-3')
Molecule annotation
1
DNA (5'-d(*ap*cp*gp*ap*tp*cp*tp*tp*tp*ap*g)-3')
Molecule annotation
Chemical (1 molecule)
1
1
* Click molecule labels to explore molecular sequence information.

Citing MMDB
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