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00_bindingsiteexploration

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Mar 15, 2025 6:23 PM
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Showcase Study: Exploring Binding Sites in PDB Structures

Thsi is a showcase study on how to explore target protein structures on-the-fly with the KNIME nodes for the ProteinsPlus web server (https://proteins.plus). To use the herein applied and additional tools in your workflows, see the links below.

External resources

  • ProteinsPlus - Protoss
  • ProteinsPlus - PoseView
  • ProteinsPlus - METALizer
  • ProteinsPlus - HyPPI
  • ProteinsPlus - EDIA
  • ProteinsPlus - DoGSiteScorer
  • ProteinsPlus - ActivityFinder
  • ProteinsPlus - PoseEdit
  • ProteinsPlus - SIENA
  • ProteinsPlus - DoGSite3
  • ProteinsPlus - StructureProfiler
  • ProteinsPlus KNIME Nodes
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Used extensions & nodes

Created with KNIME Analytics Platform version 5.2.3 Note: Not all extensions may be displayed.
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    KNIME Base Chemistry Types & NodesTrusted extension

    KNIME AG, Zurich, Switzerland

    Version 5.2.0

    knime
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    KNIME Base nodesTrusted extension

    KNIME AG, Zurich, Switzerland

    Version 5.2.2

    knime
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    KNIME-CDK

    University Konstanz and EBI

    Version 1.5.600

    egonw
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    KNIME JavasnippetTrusted extension

    KNIME AG, Zurich, Switzerland

    Version 5.2.0

    knime
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    KNIME JSON-ProcessingTrusted extension

    KNIME AG, Zurich, Switzerland

    Version 5.2.2

    knime
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    KNIME Quick FormsTrusted extension

    KNIME AG, Zurich, Switzerland

    Version 5.2.2

    knime
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    KNIME REST Client ExtensionTrusted extension

    KNIME AG, Zurich, Switzerland

    Version 5.2.1

    knime
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    Vernalis KNIME NodesTrusted extension

    Vernalis Research Ltd, Cambridge, UK

    Version 1.37.1

    vernalis

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