Structure of E. coli DnaC helicase loader: Difference between revisions

==Confirmation of Homology Model By Related Structures==

When the [[PDB]] is searched with the DnaC sequence, the best match (December, 208) is 23% sequence identity with 183 amino acids in the DnaC helicase loader of ''Aquifex aeolicus'', [[3ec2]] and [[3ecc]]. In order to find whether these structures have the same fold as the template ([[2qgz]] with 19% sequence identity to ''E. coli'' DnaC) used for the homology model, <font color="#3030ff">'''2qgz'''</font> was structurally aligned (<scene name='User:Eric_Martz/Sandbox_6/2qgz_3ec2_aligned_pdb/1'>restore initial alignment scene</scene>) with <font color="#ff0000">'''3ec2'''</font><ref>The structural alignment of 2qgz with 3ec2 was performed with the ''Magic Fit'' function of DeepView version 3.6beta2. 2qgz 115-259 aligned with 3ec2 42-185 (3 gaps in 3ec2's alignment: 128-9, 134-5, 155-9). 135 alpha carbons were aligned with RMS 2.76 Å. The structural alignment was performed without reference to sequence alignment. The sequence identity between 2qgz and 3ec2 is 28% over the 185 amino acid length of the shorter, 3ec2.</ref>. The similarity of folds lends considerable confidence to the homology model of ''E. coli'' DnaC.