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On the contrary, the AF analogue imidazopyridine (PhIP) occupies the minor groove largely due to the freely rotatable phenyl at C6 position.
Except for the interactions just mentioned, all other pol contacts with DNA are mediated through the phosphodiester linkages, where the common hydration pattern in the minor groove largely remains unaltered upon binding of the DNA duplex to the pol.
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Grooves, largely associated with third-body abrasion, were generally associated with extensive dislocation activity.
The basic putative RNA binding groove remains largely empty in our structure.
Unlike GyrA whose DNA binding groove is largely positively charged, the DNA binding site of ParC exhibits a distinct pattern of alternating positively and negatively charged regions coincident with the predicted positions of the grooves and phosphate backbone of DNA.
In particular, the active site groove is largely acidic, although sporadic basic residues are located on the periphery of the groove.
Our structural data show that at the substrate-binding site of the Rabex-5 GEF domain, there is a surface groove composed of largely nonpolar residues.
At the substrate-binding site, there is a surface groove composed of largely nonpolar residues, which exhibits good chemical and geometrical complementarities with the nonpolar surface of the amphipathic helix of Rabex-5CC.
The critical phenylalanine residue is recognized by a largely hydrophobic groove formed at the interface between the two BRCT repeats.
Results: Grooves and bulges were largely absent in casts from the dissecting room cadavers and of living volunteers with the teeth clenched but the facial muscles inactive.
A proper binding of a dsRBD to a nucleic acid duplex is determined by a proper "register fit" of the dsRBD into three successive duplex grooves, which is in turn largely determined by the duplex form.
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