Icon

Bioluminate 1-3

BioLuminate Residue Scanning

The antibody structure can be split into Fc, Fab and Fv domains. The node scans proteins for residues that are candidates for mutation and evaluate the stability and affinity of the mutated structures. Additionally, you can gain access to the latest command-line only functionalities of the tool (e.g., to control Prime loop sampling options), run affinity maturation and aggregation calculations that can be used to compare the mutants.

[Requires: Bioluminate]

BioLuminate Residue Scanning: The antibody structure can be split into Fc, Fab and Fv domains. The node scans proteins for residues that are candidates for mutation and evaluate the stabilityand affinity of the mutated structures. Additionally, you can gain access to the latest command-line only functionalities of the tool (e.g., to control Prime loopsampling options), run affinity maturation and aggregation calculations that can be used to compare the mutants.[Requires: Bioluminate]SeqconvertExtract the sequence [configurable] Mutated structuresAntibody/Antigen complexKeep chains H,L,WBioluminate profileCartoon ribbons colored by antibody structureAll - A(ction) > Preset > Antibody Antibody structure split into Fc, Fab and Fv Fast minimization(see the help message)Mutations H:103-105Bioluminate Delta Affinity and stabilitySimilar sequences Similar sequences Command line optionsSplit antibody Regions Similar structure Aligned by residue numberin the sequence viewer on multiple structures Mutations H:103-105 Keep chain HBioluminate Delta stabilityfor several structures ChemistryExternal Tool Rendering Run Maestro Get PDB Protein PreparationWizard Delete Atoms Run Maestro Ungroup MAE Run Maestro Java EditVariable (simple) Residue Scanning Extract Properties Table Viewer BLAST Table Viewer Table Viewer ChemistryExternal Tool Concatenate (Optionalin) (deprecated) Table Viewer Ungroup MAE Extract Properties Get PDB Concatenate (Optionalin) (deprecated) Protein PreparationWizard Run Maestro Residue Scanning Ungroup MAE Residue Scanning Get Help Delete Atoms Extract Properties Ungroup MAE Table Viewer BioLuminate Residue Scanning: The antibody structure can be split into Fc, Fab and Fv domains. The node scans proteins for residues that are candidates for mutation and evaluate the stabilityand affinity of the mutated structures. Additionally, you can gain access to the latest command-line only functionalities of the tool (e.g., to control Prime loopsampling options), run affinity maturation and aggregation calculations that can be used to compare the mutants.[Requires: Bioluminate]SeqconvertExtract the sequence [configurable] Mutated structuresAntibody/Antigen complexKeep chains H,L,WBioluminate profileCartoon ribbons colored by antibody structureAll - A(ction) > Preset > Antibody Antibody structure split into Fc, Fab and Fv Fast minimization(see the help message)Mutations H:103-105Bioluminate Delta Affinity and stabilitySimilar sequences Similar sequences Command line optionsSplit antibody Regions Similar structure Aligned by residue numberin the sequence viewer on multiple structures Mutations H:103-105 Keep chain HBioluminate Delta stabilityfor several structuresChemistryExternal Tool Rendering Run Maestro Get PDB Protein PreparationWizard Delete Atoms Run Maestro Ungroup MAE Run Maestro Java EditVariable (simple) Residue Scanning Extract Properties Table Viewer BLAST Table Viewer Table Viewer ChemistryExternal Tool Concatenate (Optionalin) (deprecated) Table Viewer Ungroup MAE Extract Properties Get PDB Concatenate (Optionalin) (deprecated) Protein PreparationWizard Run Maestro Residue Scanning Ungroup MAE Residue Scanning Get Help Delete Atoms Extract Properties Ungroup MAE Table Viewer

Nodes

Extensions

Links

Download

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

Download Workflow
Created by: jcmozzic
Created at: 2013-09-17
On NodePit since: 2020-02-17
Last update: 2020-02-26
Created with KNIME version: v4.1.0
Tags: ProteinBioluminate

Deploy, schedule, execute, and monitor your KNIME workflows locally, in the cloud or on-premises – with our brand new NodePit Runner.

Try NodePit Runner!