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EC Number Crystallization (Commentary)
Display the word mapDisplay the reaction diagram Show all sequences 3.2.2.238-oxoguanine is bound via E77 in syn conformation. In mutant E77S, which reflects the sequence of the Escherichia coli enzyme, 8-oxoguanine is preferentially bound in the anti conformation
Display the word mapDisplay the reaction diagram Show all sequences 3.2.2.23crystal structure of enzyme bound to a 1,3-propanediol abasic site analogue-containing DNA
Display the word mapDisplay the reaction diagram Show all sequences 3.2.2.23dynamic simulation of the pre-catalytic complex of Fpg with DNA containing oxoG opposite C or A, the latter in either syn or anti conformation. Only one transition is observed in the experimental reaction rate pH dependence plots, and Glu2 keeps the same set of interactions regardless of its protonation state. The adenine base opposite oxoG is highly distorting for the adjacent nucleotides. The side chains of Arg109 and Phe111 that Fpg inserts into DNA to maintain its kinked conformation tend to withdraw from their positions if A is opposite to the lesion
Display the word mapDisplay the reaction diagram Show all sequences 3.2.2.23FPG catalytic residues are suitably aligned for both 7,8-dihydro-8-oxoguanine syn- and anti-conformers, with anti-7,8-dihydro-8-oxoguanine forming a Watson-Crick pair with cytosine being more favorably bound. In the mechanism, sugar-ring opening may precede nucleoside deglycosylation
Display the word mapDisplay the reaction diagram Show all sequences 3.2.2.23hanging drop vapor diffusion method, using 20% (v/v) PEG 2000 MME, 100 mM KBr, and 100 mM sodium acetate pH 5.0
Display the word mapDisplay the reaction diagram Show all sequences 3.2.2.23homology modeling of structure
Display the word mapDisplay the reaction diagram Show all sequences 3.2.2.23molecular dynamics simulations based on 1R2Y crystallographic data of the mutant E3Q/DNA complex. Binding of 8-oxoguanine in syn conformation is about 2.7 kcal/mol lower in energy than anti conformation
Display the word mapDisplay the reaction diagram Show all sequences 3.2.2.23molecular dynamics study based on X-ray structure of enzyme bound to 8-oxoguanine-containing DNA. Presence of the damaged base influences the dynamics of the whole enzyme. Loop location is dependent on the presence and on the conformation of 8-oxoguanine in its binding site
Display the word mapDisplay the reaction diagram Show all sequences 3.2.2.23molecular dynamics study based on X-ray structure of enzyme bound to an abasic site analog-containing DNA
Display the word mapDisplay the reaction diagram Show all sequences 3.2.2.23NMR spectroscopy study of enzyme free in solution and bound to a double-stranded DNA oligomer containing 1,3-propanediol. Enzyme is a very dynamic molecule even after binding to damaged DNA
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