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Model building 1

Protein Model Building

Read an amino acid sequence, search for possible templates, look for relevant ones, build a homology model including the largest ligand and compare it to the template structure. Run a side chain sampling and a minimization of the binding site.

Model Building: Read an amino acid sequence, search for possible templates, look for relevant ones, build a homology model including the largest ligand and compare it to the template structure. Run a side chainsampling and a minimization of the binding site.[Requires: Prime]Compare the homology model and the templateSequence alignmentSearch the pdb sequence database Inspect the possible template list and choose one (hilite) Get and preprocessTemplate structureChosen templateFormat the listFASTA sequenceRun Maestro Alignment Writer Prime BuildHomology Model BLAST Table Viewer Concatenate HiLite Row Splitter Sequence Reader Model Building: Read an amino acid sequence, search for possible templates, look for relevant ones, build a homology model including the largest ligand and compare it to the template structure. Run a side chainsampling and a minimization of the binding site.[Requires: Prime]Compare the homology model and the templateSequence alignmentSearch the pdb sequence database Inspect the possible template list and choose one (hilite) Get and preprocessTemplate structureChosen templateFormat the listFASTA sequenceRun Maestro Alignment Writer Prime BuildHomology Model BLAST Table Viewer Concatenate HiLite Row Splitter 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: 2020-08-12
Last update: 2024-11-18
Created with KNIME version: v4.1.0
Tags: Prime

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