Promoter sequences are docking regions for assembly of the transcription initiation complex and therefore expected to possess distinct structural abilities to allow functional protein binding events and nucleosome positioning.
Thus the hypothetical functions of the bis-SH3 and PX domains indicate the analogous function as a "membrane-binding/cytochrome docking region" of Nox organizer.
Towards this end the Rho binding-domain (RBD domain) of SmDia, which serves as the docking region for the activated GTP-bound form of Rho [17], [20], was used as bait.
We generated a model of the FAK and p53 interaction and performed screening of >200,000 small molecule compounds from the National Cancer Institute database, which were docked into the region of the FAK and p53 interaction.
GABA was docked into the binding region of the GABAC receptor using GOLD v 3.0 (Cambridge Crystallographic Data Centre).
(C ) Same α-helical segment as in (B ) shown in atom representation docked into the corresponding region of the reconstruction.
(B ) An α-helical segment from one β subunit is shown in ribbon representation docked into the corresponding region of the reconstruction.
Deletions of the entire H2A docking region destabilize nucleosomes and have altered electrophoretic mobility similar to that of the H4∆94 NCPs [ 39].
The epitope prediction algorithm presented here was inspired by our earlier work on local antibody antigen docking, where we showed that it was possible to select close-to-native decoys when docking the antibody into an approximate region of the epitope (Krawczyk et al., 2013).
Structural homologs, if found, are docked into appropriate regions of the maps resulting in full or partial atomic resolution models for the map.
