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Moreover these interactions are further stabilized by polar interactions with the His138.
In addition, due to its conformation, the pseudo-substrate in the AVR4 complex cannot interact with the conserved lysine analogue (Lys109); instead, this function is superseded by polar interactions with Arg112.
The phosphate moiety of PLP is anchored by polar interactions with the peptide amide groups of residues A148 and S149 as well as by the side chains of S149, N299, and two water molecules.
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The stability of the homodimer is augmented by polar interactions formed by residues of the α7 helix with residues of the opposite monomer.
The phosphate moiety in GpgS is further stabilized by polar interactions between the α-phosphate and the side chain of Tyr 229 (Trp189 in MgS, no interaction with bound nucleotide), and between the α- and β-phosphate and the side chain of Arg261 (structurally close to Tyr 220 in MgS, no interaction with bound nucleotide).
They often mediate complex formation by polar interactions.
In addition, XRCC4/XLF is further stabilized by polar interactions.
The two ABDs are flanked at both termini along the long axis of the rod and are stabilized in their position by a few polar interactions with the neck region and EF3-4.
One such inhibitor, darunavir (DRV), which was designed to target drug resistance by introducing strong polar interactions with the main chain atoms of the PR, has been widely used for the treatment of drug-naïve patients and those infected with multidrug-resistant HIV-1.
Furthermore, it has been reported that acidic conditions allow a higher extraction of proanthocyanidins by preventing autoxidation and decreasing their polar interactions with the cell wall [26].
A UBA3 Arg190Ala substitution would address this question by removing barriers from the Arg side-chain, without providing opportunities for favorable polar interactions with the UBL Arg.
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