1bua

STRUCTURAL AND ENERGETIC ORIGINS OF INDIRECT READOUT IN SITE-SPECIFIC DNA CLEAVAGE BY A RESTRICTION ENDONUCLEASE

spinqualitylabelsall models 1bua, resolution 2.15Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 1bua is a 4 chain structure with sequence from Escherichia coli. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. NonStd Res: DI Activity: Type II site-specific deoxyribonuclease, with EC number 3.1.21.4 Resources: FirstGlance, OCA, RCSB, PDBsum Function [T2E5_ECOLI] Recognizes the double-stranded sequence GATATC and cleaves after T-3. Publication Abstract from PubMed Specific recognition by EcoRV endonuclease of its cognate, sharply bent GATATC site at the center TA step occurs solely via hydrophobic interaction with thymine methyl groups. Mechanistic kinetic analyses of base analog-substituted DNAs at this position reveal that direct readout provides 5 kcal mol(-1) toward specificity, with an additional 6-10 kcal mol(-1) arising from indirect readout. Crystal structures of several base analog complexes show that the major-groove hydrophobic contacts are crucial to forming required divalent metal-binding sites, and that indirect readout operates in part through the sequence-dependent free-energy cost of unstacking the center base-pair step of the DNA. Structural and energetic origins of indirect readout in site-specific DNA cleavage by a restriction endonuclease.,Martin AM, Sam MD, Reich NO, Perona JJ Nat Struct Biol. 1999 Mar;6(3):269-77. PMID:10074946 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See Also Endonuclease

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