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Figure 1. Prediction result for birch pollen allergen Bet v 1 (PDB: 1bv1), as obtained by comparison to the cherry ... Figure 1. Prediction result for.

Published byDominika Jarmila Matějková Modified over 5 years ago

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Presentation on theme: "Figure 1. Prediction result for birch pollen allergen Bet v 1 (PDB: 1bv1), as obtained by comparison to the cherry ... Figure 1. Prediction result for."— Presentation transcript:

1 Figure 1. Prediction result for birch pollen allergen Bet v 1 (PDB: 1bv1), as obtained by comparison to the cherry ... Figure 1. Prediction result for birch pollen allergen Bet v 1 (PDB: 1bv1), as obtained by comparison to the cherry allergen Pru av 1 (PDB: 1e09). This type of presentation lists of the three predicted epitope patches (PEPs), where the PEP-1 node is expanded twice to show global statistics, as well as the list of participating amino acid residues. Unless provided in the caption above, the following copyright applies to the content of this slide: © The Author(s) Published by Oxford University Press on behalf of Nucleic Acids Research.This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License ( which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact Nucleic Acids Res, gkz331, The content of this slide may be subject to copyright: please see the slide notes for details.

2 Figure 2. Sequential plot of surface similarity scores for the same prediction as in Figure 1. This bar chart is polar ... Figure 2. Sequential plot of surface similarity scores for the same prediction as in Figure 1. This bar chart is polar with respect to a baseline at the similarity threshold of 54%: residues with higher similarity (passing the epitope filter) have up-facing bars while values below the threshold correspond to down-facing bars. Actual PEP residues are tagged by diamond marks below the graph, in the color of their PEP, and secondary structure elements are annotated as well. Unless provided in the caption above, the following copyright applies to the content of this slide: © The Author(s) Published by Oxford University Press on behalf of Nucleic Acids Research.This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License ( which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact Nucleic Acids Res, gkz331, The content of this slide may be subject to copyright: please see the slide notes for details.

3 Figure 3. Two variants of 3D visualization on the SPADE results page
Figure 3. Two variants of 3D visualization on the SPADE results page. (A) The Jmol window shows a molecular surface ... Figure 3. Two variants of 3D visualization on the SPADE results page. (A) The Jmol window shows a molecular surface representation of Bet v 1 with PEPs in unique colors. (B) Upon changing the display type, the surface is colored with a gradual scheme from red via white to blue according to the surface similarity of each residue. The surface orientation is the same in both displays so that the PEPs can clearly be aligned to most similar regions, i.e. the most intensely blue shading. Unless provided in the caption above, the following copyright applies to the content of this slide: © The Author(s) Published by Oxford University Press on behalf of Nucleic Acids Research.This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License ( which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact Nucleic Acids Res, gkz331, The content of this slide may be subject to copyright: please see the slide notes for details.

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