Nucleic Acids in Chemistry and Biology

Here, the and indicate partial charges on the atoms and the dashed line between the H and Y is the axis of the lone pair. An ...

may be partially conjugated and can contribute to stability by ‘stacking’ like plates, akin to the stacking seen for the bases i ...

sense, with an associated scalar field, such as found for the electric forces in which two charged particles attract or repel ea ...

concentration of electronegative atoms on the major groove side and electropositive atoms on the minor groove side. The dipole o ...

10.3.2 The Structural Economy of
-Helical Motifs 10.3.2.1 The Helix-Turn-Helix Motif. The helix-turn-helixmotif was first chara ...

The bZIP domain has a long pair of identical helices, which coil gently around one another in a left- handed sense. This creates ...

10.3.4 The Orientations of
-Helices in the DNA Major Groove In Sections 10.3.2 and 10.3.3, a handful of representative examples ...

are intertwined in a compact body from which two -ribbons extend and interact with the DNA (Figure 10.6b). Unlike those of the ...

these loops connect strands of a -sheet in a globular domain of the DNA-binding protein, and they pene- trate deeply into major ...

occurring oligonucleotide/oligosaccaride-binding fold(the OB fold). This structure has an anti-parallel -barrel, and it has an ...

10.4 Kinetic and Thermodynamic Aspects of Protein–Nucleic Acid Interactions 10.4.1 The Delicate Balance of Sequence-Specificity ...

atoms, the substituents of the bases, and the non-bridging oxygen atoms of the phosphate backbone. Such buried water molecules m ...

10.4.3 Specific versus Non-Specific Complexes We have discussed the energeticdifferences between specific and non-specific compl ...

The energy of changing a DNA conformation is affected by many factors. For instance, the DNA can be curved by selectively neutra ...

purine–purine pyrimidine–pyrimidine purine–pyrimidine. The propensity for DNA deformations to occur at pyrimidine–purine steps i ...

Several different nuclear receptor monomers recognize the same consensus DNA sequence: ACTGGA. However, they bind to different D ...

closed thermodynamic cycle, the particular pathway chosen does not affect the equilibrium affinity. However, the second (monomer ...

endonuclease–cognate DNA, which was the first complex to indicate the potential role of induced fitof the DNA in catalysis.32–34 ...

for their products. However, APE1 appears to form very stable complexes with its product.^36 Thus, the enzyme holds onto the pro ...

misincorporation or deamination of cytosine. The structure of the human uracil DNA glycoslyase shows that the glycosylase comple ...