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Model building on a template 1

Protein model building on an edited alignment

Use the Multiple Sequence Viewer to edit an alignment and a corresponding homology model is built. A Glide grid is generated and the binding site is analyzed. A raytrace image of the model is also created.

[Requires: Prime, Glide, SiteMap, PyMOL] [Keywords: binding site, homology modeling, grid generation]

Protein model building on an edited alignment:Use the Multiple Sequence Viewer to edit an alignment and a corresponding homology model is built. A Glide grid isgenerated and the binding site is analyzed. A raytrace image of the model is also created.[Requires: Prime, Glide, SiteMap, PyMOL] [Keywords: binding site, homology modeling, grid generation]Protein and largest ligandSingle bindingsite regionSitemap terms[configure]Proteinsand ligandsLigand binding sitecharacterization Template Parameter flow variables--template-filefrom a column Template structureKeep only the first command toedit the alignment interactively[File > Send back to KNIME]Seqconvert Disabled 29452QuerysequenceSplit complexes SiteMap Extract Properties A single bindingsite region Table Viewer Transpose Column Rename Joiner (deprecated) Prime BuildHomology Model Java EditVariable (simple) Molecule-to-MAE PDB Reader MultipleSequence Viewer ChemistryExternal Tool Concatenate Testing Internal testing Sequence Reader Protein model building on an edited alignment:Use the Multiple Sequence Viewer to edit an alignment and a corresponding homology model is built. A Glide grid isgenerated and the binding site is analyzed. A raytrace image of the model is also created.[Requires: Prime, Glide, SiteMap, PyMOL] [Keywords: binding site, homology modeling, grid generation]Protein and largest ligandSingle bindingsite regionSitemap terms[configure]Proteinsand ligandsLigand binding sitecharacterization Template Parameter flow variables--template-filefrom a column Template structureKeep only the first command toedit the alignment interactively[File > Send back to KNIME]Seqconvert Disabled 29452QuerysequenceSplit complexes SiteMap Extract Properties A single bindingsite region Table Viewer Transpose Column Rename Joiner (deprecated) Prime BuildHomology Model Java EditVariable (simple) Molecule-to-MAE PDB Reader MultipleSequence Viewer ChemistryExternal Tool Concatenate Testing Internal testing Sequence Reader

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To use this workflow in KNIME, download it from the below URL and open it in KNIME:

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On NodePit since: 2021-02-17
Last update: 2024-11-18
Created with KNIME version: v4.7.1
Tags: Real WorldPrimeGlideSiteMapPyMOLBinding SiteHomology ModelingGrid GenerationSchrodinger

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