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In the repeat areas in particular, MVP sequence homology is less than 20% versus rat, and our argument is that only those residues that are essential to maintain the shape and lateral docking have been retained.
However, we have shown for the newly identified MVPs that the lateral docking extends to the shoulder and repeat sections with energy score not dissimilar to the rat and sea urchin where vaults have been observed to form.
Using our established protocol of tertiary and quaternary structural modeling (Daly et al. 2013), we retrieved 116 eukaryote and 10 bacterial protein sequences that fulfilled the criteria of structural homology with sufficient lateral docking capacity for vault particle formation.
None of DZUF7, D2VSY6, D2VC38, and D2VH38 retrieves any MVP sequences when used as the query sequence in a BLAST at default settings, and although there is some evidence of lateral docking between monomers, this is most likely due to a natural tendency for coils to interact, and the docking does not extend over the entire length as is required for vault formation.
The output domain dimer is bound to one LapG molecule at a lateral docking site, with an interaction surface of 1290 Å (with a calculated Δ G int = −16.3 kcal/mol; PISA [ Krissinel and Henrick, 2007]) and involving both molecules of the CdgS9Output dimer to a similar extent.
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Finally, in places where the tide range is of consequence, special mooring arrangements are necessary to restrain excessive lateral drift of the dock as the mooring chains become slack on low water.
When three out of the four cortices of the regenerate were judged well formed on AP and lateral X-rays and the docking site had united, the circular fixator was removed.
The third robotic arm was usually docked to the patient's left lateral trocar; however, SIP forced us to dock the third robotic arm to the right lateral trocar to address difficulties resulting from mirroring of the organs (Figs. 2 and 3).
A radiolucent blade or tubular retractor system is placed over the largest dilator and docked on the lateral aspect of the disc space [ 15].
The simulation suggests that if the R3 element was to dock alongside the lateral interface then it might be positioned to insert phosphorylated sidechains into the interior of the hub domain when such a transient fluctuation occurs.
Cotransin may stabilize one of a continuum of conformational states adopted by Sec61 during the normal process of cotranslational integration (e.g., TMD docked to a lateral gate that is partially open toward the cytosol, but closed near the lumenal plug).
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