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. 2010 Jun 4;38(Web Server issue):W35–W40. doi: 10.1093/nar/gkq415

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© The Author(s) 2010. Published by Oxford University Press.

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.5), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 2. — An example of the multi-Harmony output. (A) The main output table, sorted by SH score and filtered on SH score (0.5) and high mR weight (0.8). Only ALA278 at position 17 in the alignment is not a confirmed functional residue. The columns with arrows can be sorted. Most of these columns can also be filtered to display only those alignment positions that satisfy the user-supplied thresholds. (B) The output view in Jalview. Groups are outlined in the alignment and filtered positions (from the output table) are marked in the annotation track ‘Filtered 1’ with a tooltip detailing the filter like ‘Positions passing criteria [score 0.5; weight 0.8] are indicated’. (C) View of the 3D context using Jmol with the protein coloured by mR weights, and filtered residues (from the output table) labelled and highlighted as space-filling spheres. Colouring by SH scores is also possible.

Inline graphic — An example of the multi-Harmony output. (A) The main output table, sorted by SH score and filtered on SH score (0.5) and high mR weight (0.8). Only ALA278 at position 17 in the alignment is not a confirmed functional residue. The columns with arrows can be sorted. Most of these columns can also be filtered to display only those alignment positions that satisfy the user-supplied thresholds. (B) The output view in Jalview. Groups are outlined in the alignment and filtered positions (from the output table) are marked in the annotation track ‘Filtered 1’ with a tooltip detailing the filter like ‘Positions passing criteria [score 0.5; weight 0.8] are indicated’. (C) View of the 3D context using Jmol with the protein coloured by mR weights, and filtered residues (from the output table) labelled and highlighted as space-filling spheres. Colouring by SH scores is also possible.