Structure of E. coli DnaC helicase loader: Difference between revisions
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*'''Large conserved patch.''' The larger of the two conserved patches is adjacent to the positively charged patch, and includes Arg237 and His114, which are highly conserved (ConSurf level 9). The larger patch also includes highly conserved surface residues Asn113, Asp169, Glu170, Asn203. (There are also three highly conserved surface glycines in this patch, not listed because surface glycines are typically conserved for reasons of secondary structure rather than function.) These highly conserved residues (ConSurf level 9) are flanked by several conserved residues (ConSurf level 8), including Ile62, Asn73, and Thr110. Conserved (level 8) residues are uncommon elsewhere on the surface (except for the other conserved patch). | *'''Large conserved patch.''' The larger of the two conserved patches is adjacent to the positively charged patch, and includes Arg237 and His114, which are highly conserved (ConSurf level 9). The larger patch also includes highly conserved surface residues Asn113, Asp169, Glu170, Asn203. (There are also three highly conserved surface glycines in this patch, not listed because surface glycines are typically conserved for reasons of secondary structure rather than function.) These highly conserved residues (ConSurf level 9) are flanked by several conserved residues (ConSurf level 8), including Ile62, Asn73, and Thr110. Conserved (level 8) residues are uncommon elsewhere on the surface (except for the other conserved patch). | ||
:Results of a 2012 ConSurf analysis<ref>In the 2012 analysis, ConSurf found 47 unique sequences in ''Clean Uniprot''. The MSA had an average pairwise distance of 0.98.</ref> (not shown) agreed quite well with the above results from the 2008 analysis<ref>In 2008, ConSurf found only 10 sequences in SwissProt, with an average pairwise distance (APD), in the multiple sequence alignment, of 1.6. The run shown here used 100 sequences from Uniprot, with an APD of 1.4.</ref>. All the residues highly conserved in the 2008 analysis were highly conserved in the 2012 analysis. The three ''ConSurf level 8'' residues in 2008 achieved ''ConSurf level 9'' (maxumum conservation) in the 2012 analysis. The 2012 [[#ConSurf Coloring Script|ConSurf coloring script is listed below]]. | :Results of a 2012 ConSurf analysis<ref name='2012consurf'>In the 2012 analysis, ConSurf found 47 unique sequences in ''Clean Uniprot''. The MSA had an average pairwise distance of 0.98.</ref> (not shown) agreed quite well with the above results from the 2008 analysis<ref>In 2008, ConSurf found only 10 sequences in SwissProt, with an average pairwise distance (APD), in the multiple sequence alignment, of 1.6. The run shown here used 100 sequences from Uniprot, with an APD of 1.4.</ref>. All the residues highly conserved in the 2008 analysis were highly conserved in the 2012 analysis. The three ''ConSurf level 8'' residues in 2008 achieved ''ConSurf level 9'' (maxumum conservation) in the 2012 analysis. The 2012 [[#ConSurf Coloring Script|ConSurf coloring script is listed below]]. | ||
*'''Small conserved patch.''' This patch consists of highly conserved (ConSurf level 9) residues Arg216, Asp219, Arg220, flanked by conserved (ConSurf level 8) residue Asp189. | *'''Small conserved patch.''' This patch consists of highly conserved (ConSurf level 9) residues Arg216, Asp219, Arg220, flanked by conserved (ConSurf level 8) residue Asp189. | ||