5grk

Crystal structure of Uracil DNA glycosylase -Xanthine complex from Bradyrhizobium diazoefficiens

spinqualitylabelsall models 5grk, resolution 2.80Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 5grk is a 4 chain structure with sequence from Bradyrhizobium diazoefficiens USDA 110. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Method: X-ray diffraction, Resolution 2.804Å Ligands: XAN Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Function Q89XR0_BRADU Publication Abstract from PubMed u: Repair of uracils in DNA is initiated by racil NA lycosylases (UDGs). Family 1 UDGs (Ung) are the most efficient and ubiquitous proteins having an exquisite specificity for uracils in DNA. Ung are characterized by motifs A (GQDPY) and B (HPSPLS) sequences. We report a novel dimeric UDG, Blr0248 ( Bdi Ung) from Bradyrhizobium diazoefficiens . Although Bdi Ung contains the motif A (GQDPA), it has low sequence identity to known UDGs. Bdi Ung prefers single stranded DNA and excises uracil, 5-hydroxymethyl-uracil or xanthine from it. Bdi Ung is impervious to inhibition by AP DNA, and Ugi protein that specifically inhibits family 1 UDGs. Crystal structure of Bdi Ung shows similarity with the family 4 UDGs in its overall fold but with family 1 UDGs in key active site residues. However, instead of a classical motif B, Bdi Ung has a uniquely extended protrusion explaining the lack of Ugi inhibition. Structural and mutational analyses of Bdi Ung have revealed the basis for the accommodation of diverse substrates into its substrate binding pocket. Phylogenetically, Bdi Ung belongs to a new UDG family. Bradyrhizobium diazoefficiens presents a unique scenario where the presence of at least four families of UDGs may compensate for the absence of an efficient family 1 homologue. Uracil DNA glycosylase (UDG) activities in Bradyrhizobium diazoefficiens: characterization of a new class of UDG with broad substrate specificity.,Chembazhi UV, Patil VV, Sah S, Reeve W, Tiwari RP, Woo E, Varshney U Nucleic Acids Res. 2017 Mar 28. doi: 10.1093/nar/gkx209. PMID:28369586 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See Also DNA glycosylase 3D structures

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