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Golgi-associated, coiled coil tethers contain numerous binding sites for small GTPases, SNARE proteins, and vesicle coat proteins.
Furthermore, the interaction partners of each motif were found to be very limited, and, accordingly, the interaction networks of the motifs tend to be small and are much more restricted than the binding sites for small ligand molecules.
Similar methods have been developed for comparing protein binding sites for small molecules [20], [21], and they have been recently reviewed [22].
Long 5′UTRs may contain riboswitches or provide binding sites for small regulatory RNAs [ 20, 21].
Splice-donor morpholinos alter premRNA splicing by targeting binding sites for small nuclear ribonucleoproteins (snRNPs) or splicejunctions [ 10, 11].
As mentioned above, only surface pockets on the protein surface were considered as potential binding sites for small molecules.
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Based on our discovery and hypothesis, further studies should focus on the analysis of crystal structure of reverse transcriptase and explore the possible binding site for small RNA.
The charged surfaces of PrgI responsible for needle assembly also provide a potential binding site for small molecule ligands.
16– 18 Furthermore, modeling and mutagenesis studies confirm that the inner cavity is a binding site for small ionic molecules.
This bending forms the domain's triangular prism shape and it opens a hydrophobic pocket between the sheets, constituting a possible binding site for small molecules.
SAL1 exhibits a classical structure of lipocalins characterized by a fully conserved N-terminal -G-X-W motypical the typical folding pattern of a nine-stranded antiparallel β-barrel forming an internal ligand binding site for small hydrophobic molecules [ 12], despite relatively low sequence similarity [ 13].
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