Exact(1)
Although the detailed interactions at interface V of IL-3 await direct experimental determination, our modeling suggest that Leu32, Leu34 and Leu35 are in positions to interact with their counterparts in the symmetric partner, much like the leucine zipper interaction observed in many protein complexes.
Similar(59)
Variants with the largest functional enhancements involved the addition of hydrophobic or positively charged residues, which were positioned to interact with viral membrane lipids or viral glycan-sialic acids, respectively.
Finally, five positively charged residues and a histidine contributed by FeS and HD1 domains positioned to interact with the 3′-end of the translocating strand are important for either promoting or inhibiting substrate unwinding by XPD helicase, implicating these residues in the interaction with the translocating strand on its path between the motor core and duplex separation site.
Residues 305 314 on the surface of the first subunit are not in a position to interact directly with the binding pocket, but could be involved in mediating interactions between the two subunits.
C) Hydrophobic groups (yellow-dotted spheres) in position to interact with the lipid bilayer.
Key residues identified by mutagenesis experiments are well positioned to interact with the DNA.
Landmark location privacy protection only utilizes some landmark position within a certain range instead of a user's real position to interact with LBS, so attackers cannot identify the real position of users [3].
This created the first filter, to select for docked poses in the screening database with hydrogen bond acceptor atoms or negatively charged atoms in position to interact with the arginine residues.
This filter was built with a protein-sided acceptor or anionic site point centered on the Nζ atom of Lys 89, and a hydrophobic or aromatic site point positioned to interact with residues Ile 10 and Phe 82.
Some CDK2 ligands that have a sulfonamide group that is positioned to interact with a lysine residue (Lys 89) on the top edge of the binding site, adjacent to a phenyl ring (Phe 82) that packs into a small secondary hydrophobic pocket or slot above the hinge region (Figure 8A).
The final filter simply selected for poses with a certain amount of hydrophobic bulk located in the region above the binding site, that would be in position to interact with the lipid membrane and with hydrophobic residues around the edge of the site.
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