6m3l

Crystal structure of the R.PabI(Y68F-K154A)-dsDNA(nonspecific) complex

spinqualitylabelsall models 6m3l, resolution 2.75Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 6m3l is a 3 chain structure with sequence from Pyrococcus abyssi GE5 and Synthetic construct. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Method: X-ray diffraction, Resolution 2.75Å Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Function G8ZFZ3_PYRAB Publication Abstract from PubMed R.PabI is a restriction DNA glycosylase that recognizes the sequence 5'-GTAC-3' and hydrolyses the N-glycosidic bond of adenine in the recognition sequence. R.PabI drastically bends and unwinds the recognition sequence of double-stranded DNA (dsDNA) and flips the adenine and guanine bases in the recognition sequence into the catalytic and recognition sites on the protein surface. In this study, we determined the crystal structure of the R.PabI-dsDNA complex in which the dsDNA is drastically bent by the binding of R.PabI but the base pairs are not unwound. This structure is predicted to be important for the indirect readout of the recognition sequence by R.PabI. In the complex structure, wedge loops of the R.PabI dimer are inserted into the minor groove of dsDNA to stabilize the deformed dsDNA structure. A base stacking is distorted between the two wedge-inserted regions. R.PabI is predicted to utilize the distorted base stacking for the detection of the recognition sequence. Distortion of double-stranded DNA structure by the binding of the restriction DNA glycosylase R.PabI.,Miyazono KI, Wang D, Ito T, Tanokura M Nucleic Acids Res. 2020 Mar 31. pii: 5814050. doi: 10.1093/nar/gkaa184. PMID:32232412 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

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