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Property Field Superposition","Export as ActiceICM Html","How do I color ribbon models according to Optimal Docking Area (ODA)", "Graphics Preferences","I have a chemical table displayed - how can I add columns of chemical properties associated with each chemical in my table?", "I do not see the chemical property monitor in the molecular editor. Where is it?", "I would like to have a local copy of the NCBI Blast database- any advice?","Directories Preferences", "Labeling Residues","Load","Display Tab","Structure Representation","Post Screening Tools - Calculate Properties", "Shell Preferences","Constructing New Protein and Nucleic Acid Sequences","Working with Sequences and Alignments", "Six Frame Translation","How do I color ribbon models according to Optimal Docking Area (ODA)", "Post Screening Tools - Calculate Properties","Directories Preferences","How do I color ribbon models according to Optimal Docking Area (ODA)", "Directories Preferences","Error in saving configuation settings: You are not a license administrator", "Directories Preferences","Directories Preferences","Directories Preferences","Directories Preferences", "I have a chemical table displayed - how can I add columns of chemical properties associated with each chemical in my table?", "I do not see the chemical property monitor in the molecular editor. Where is it?", "Frequently Asked Questions","GAMESS","GAMESS","Write Image","Movie Making","Graphics Preferences", "GUI Preferences","GUI Preferences","Font Preferences","Bonds Preferences","Graphics Preferences", "Graphics Preferences","Graphics Preferences","Graphics Preferences","Graphics Preferences", "Graphics Preferences","GUI Preferences","Font Preferences","Graphics Preferences", "Bonds Preferences","Ribbon Preferences","Ribbon Preferences","Ribbon Preferences", "Ribbon Preferences","Ribbon Preferences","Ribbon Preferences","Font Preferences", "Font Preferences","Font Preferences","Graphics Preferences","Bonds Preferences", "Bonds Preferences","Bonds Preferences","Bonds Preferences","Bonds Preferences","Bonds Preferences", "Bonds Preferences","Bonds Preferences","Graphics Preferences","Graphics Preferences", "Graphics Preferences","Graphics Preferences","Graphics Preferences","Graphics Preferences", "GUI Preferences","Font Preferences","Graphics Preferences","Ribbon Preferences", "Ribbon Preferences","Ribbon Preferences","GUI Preferences","GUI Preferences","GUI Preferences", "Graphics Preferences","Font Preferences","Font Preferences","Font Preferences","Graphics Preferences", "Bonds Preferences","Graphics Preferences","Graphics Preferences","Graphics Preferences", "Graphics Preferences","Bonds Preferences","Ribbon Preferences","Bonds Preferences", "Bonds Preferences","Bonds Preferences","Bonds Preferences","Graphics Preferences", "Graphics Preferences","Graphics Preferences","Graphics Preferences","Graphics Preferences", "Introduction","GUI Preferences","GUI Preferences","ICM and AutoSave","ICM and AutoSave", "GUI Preferences","GUI Preferences","GUI Preferences","GUI Preferences","I have a chemical table displayed - how can I add columns of chemical properties associated with each chemical in my table?", "I do not see the chemical property monitor in the molecular editor. Where is it?", "I have a chemical table displayed - how can I add columns of chemical properties associated with each chemical in my table?", "I do not see the chemical property monitor in the molecular editor. Where is it?", "Post Screening Tools - Calculate Properties","Display Hydrogen Bonds","How To Guides and Videos", "Display PDB Header","General Preferences","Introduction","ICM-Browser How To Guide", "ICM-Browser-Pro How To Guide","ICM graphics crashes.","Image Preferences","Image Preferences", "Image Preferences","Image Preferences","Image Preferences","Image Preferences","Image Preferences", "Image Preferences","Image Preferences","Image Preferences","Image Preferences","Image Preferences", "Image Preferences","Image Preferences","Image Preferences","Image Preferences","Image Preferences", "How do I read in a small molecule from ISIS draw and convert it to 3D?","IUPAC Chemical Nomenclature", "Shell Preferences","Directories Preferences","Write Image","Load","Directories Preferences", "Learn and Predict","Learn and Predict","Cheminformatics","Loading Chemical Structures", "Molecular Table Display","Display and Convert Molecule","Copy Molecule","Edit Molecule", "Color Table Column","Database File Format","Molecular Tables","Loading Chemical Structures", "Database File Format","How to make a local database.","GUI Preferences","Shell Preferences", "Shell Preferences","How to decompose a library based on a Markush structure.","How to create a Markush structure.", "Calculate Properties","Shell Preferences","I have a chemical table displayed - how can I add columns of chemical properties associated with each chemical in my table?", "I do not see the chemical property monitor in the molecular editor. Where is it?", "I have a chemical table displayed - how can I add columns of chemical properties associated with each chemical in my table?", "I do not see the chemical property monitor in the molecular editor. Where is it?", "I have a chemical table displayed - how can I add columns of chemical properties associated with each chemical in my table?", "I do not see the chemical property monitor in the molecular editor. Where is it?", "Calculate Properties","Calculate Properties","Query Processing","Calculate Properties", "I have a chemical table displayed - how can I add columns of chemical properties associated with each chemical in my table?", "I do not see the chemical property monitor in the molecular editor. Where is it?", "GUI Preferences","GUI Preferences","GUI Preferences","I would like to have a local copy of the NCBI Blast database- any advice?", "Searching the PDB","Calculate Properties","Calculate Properties","Calculate Properties", "Calculate Properties","Calculate Properties","Calculate Properties","Post Screening Tools - Calculate Properties", "ICM graphics crashes.","How do I color ribbon models according to Optimal Docking Area (ODA)", "How do I color ribbon models according to Optimal Docking Area (ODA)","Directories Preferences", "Running VLS Jobs in PBS UNIX Cluster Environment","Learn","A little theory on learning", "PCA Analysis","Biomolecule Generator","Loading Your PDB File","Display PDB Header", "Converting PDB Files Into ICM Objects","Load Sequence","Biomolecule Generator","How to extract a 2D sketch of a ligand in complex with a PDB strcture.", "How to Save Ligand Receptor Complex as PDB","Directories Preferences","Directories Preferences", "Column Format and Custom Actions","PDB Search","PDB Search by Field","PDB Search by Identity", "PDB Search by Homology","PDB Search with External Seqeuence","PDB Search by Field", "PDB Search by Homology","PDB Search by Identity","PDB Search with External Seqeuence", "Converting PDB Files Into ICM Objects","Converting a PDB File into an ICM Object", "Query PDB by Keyword or PDB Code","Searching the PDB","Query PDB by Keyword or PDB Code", "Sensitive PDB Similarity Searches","PDB Searching","Sensitive PDB Similarity Searches", "Sensitive PDB Similarity Searches","Load","Plot Preferences","Plot Preferences", "Plot Preferences","Plot Preferences","Plot Preferences","Plot Preferences","Plot Preferences", "Plot Preferences","Plot Preferences","Plot Preferences","Plot Preferences","Plot Preferences", "Plot Preferences","Plot Preferences","Plot Preferences","Learn","How to Make a Picture", "Write Image","Movie Making","Post Screening Tools - Calculate Properties","Directories Preferences", "Directories Preferences","How do I color ribbon models according to Optimal Docking Area (ODA)", "Directories Preferences","Direct link to PubMed","Column Format and Custom Actions", "Learn and Predict","Learn","How to build a QSAR prediction model.","How to apply a QSAR prediction model.", "Generating Chemical Fragments","R-Group Decomposition","I am docking a racemic compound how can I sample both R and S states during docking?", "Find and Replace","Superimpose Button","Ramachandran Plot Interactive","Shell Preferences", "Setup Receptor","Font Preferences","Font Preferences","I have a chemical table displayed - how can I add columns of chemical properties associated with each chemical in my table?", "I do not see the chemical property monitor in the molecular editor. Where is it?", "Learn and Predict","How to decompose a library based on a Markush structure.","Which score value should I use for analysis.", "I have a complex I wish to generate an ICM VLS Score for, however I did not dock it using VLS. How can I do this?", "Cheminformatics","Loading Chemical Structures","Display and Convert Molecule","Copy Molecule", "Edit Molecule","Color Table Column","Database File Format","Molecular Tables","GUI Preferences", "Font Preferences","Font Preferences","Font Preferences","GUI Preferences","GUI Preferences", "How to use SMILES strings to sketch a chemical.","Saving Chemicals in the Molecular Editor", "Shell Preferences","Font Preferences","I have a chemical table displayed - how can I add columns of chemical properties associated with each chemical in my table?", "I do not see the chemical property monitor in the molecular editor. Where is it?", "How to convert SMILES strings to 2D","Load","Directories Preferences","Column Format and Custom Actions", "Directories Preferences","Running VLS Jobs in PBS UNIX Cluster Environment","Column Format and Custom Actions", "Virtual Ligand Screening","Virtual Ligand Screening","VLS Getting Started","Running VLS Jobs in PBS UNIX Cluster Environment", "How to Plot Histograms and Scatterplots of VLS Data","VLS Preferences","Font Preferences", "I have a chemical table displayed - how can I add columns of chemical properties associated with each chemical in my table?", "I do not see the chemical property monitor in the molecular editor. Where is it?", "Post Screening Tools - Calculate Properties","Shell Preferences","Bonds Preferences", "Searching the PDB","Receptor Considerations","Directories Preferences","Display Tab", "Structure Representation","Light Tab","Property Monitor","Consensus Pharmacophore", "Constructing New Protein and Nucleic Acid Sequences","ActiveICM","When using ActiveICM is there a way to set a RELATIVE path to an icb file rather than ABSOLUTE?", "How to Embed in Microsoft PowerPoint 2003","ActiveICM","How to Use ActiveICM in PowerPoint", "Advanced use of activeICM: Macros to direct visualisation changes","PowerPoint Cache Errors", "FAQ ActiveICM","Advanced use of activeICM: Macros to direct visualisation changes", "Background Images","How to Change ActiveICM Component Properties","Learn and Predict", "Add Image to Album","Adding and rotating a fragment in molecular editor by clicking-holding-and-dragging.", "Adding and rotating a fragment in molecular editor by clicking-holding-and-dragging.", "Molcart Administration","Select by Consensus","Add Image to Album","A dictionary of chemical groups.", "How to Drag and Drop","How to Make a Sequence Alignment","Alignment Introduction", "Align/Color by 2D Scaffold","Align/Color by 2D Scaffold","Align DNA to Protein", "Align Multiple Sequences","Align Two Sequences","Align DNA vs Protein","Align DNA to Protein", "Align Multiple Sequences","Sequence Alignments","Drag and Drop","Align Two Sequences", "Align Two Sequences","How to Make an Alignment using Drag and Drop","Pairwise APF Alignment/Superposition", "Flexible APF Superposition to Template","How do I show the sequence conservation around the ligand binding site?", "Add a Comment","Edit an Alignment","Alignment Editor","Load Example Alignment","How to change font size in html-documents, alignments, terminal, table, graphics?", "Alignment Gaps","Alignment Gaps","Alignment Introduction","Reorder Sequences","Searching an Alignment", "Making Alignment Selections","Alignment View Options","Shading and Boxing an Alignment", "Coloring an Alignment.","Shading and Boxing an Alignment","Add a Comment","Coloring an Alignment.", "Select by Consensus","Cut Vertical Alignment Block","Save, Print and Delete","Alignment View Options", "Alignment Editor","Extract Sub-Alignment As Is","Alignment Gaps","Alignment View Options", "Multiple Sequence Alignment","Alignment View Options","Save, Print and Delete","Alignment View Options", "Reorder Sequences","Alignment View Options","Save, Print and Delete","Searching an Alignment", "Making Alignment Selections","Basic Alignment Selections","Select by Consensus", "Alignment View Options","Shading and Boxing an Alignment","Alignment View Options", "Alignment View Options","How to Work With Sequences and Alignments","Sequence Alignments", "Sequence and Alignment Tutorials","Light Tab","Image Preferences","Light Tab","Set Formal Charges", "Constructing New Protein and Nucleic Acid Sequences","Bioinfo Menu","Bioinfo Menu", "Planar Angle","Dihedral Angle","Label Variables","Display Distances and Angles", "Torsion Angles","Planar Angle","Dihedral Angle","How can I display the dihedral angle?", "How can I change the torsion angle?","How can I calculate the RMSD between two protein structures?", "Animate View","Animate View","Animate View","Molecular Animations and Transitions", "Make Animation","Change Speed, Range and Cycle Length of Animation","Interrupt Animation", "Saving an Animation","Saving an Animation","Molecular Animations, Slides, and Documents", "Annotate By Substructure","Annotate By Substructure","Write Image","Full Scene Antialias", "Antialias Lines","Antialias Lines","Pairwise APF Alignment/Superposition","Flexible APF Superposition to Template", "APF Tools","Cluster by Ligand Pose Similarity","Dock to Atomic Property Fields", "How to Perform Pairwise APF Superposition","Is there a way to build a classification model using the APF output?", "Flexible APF Superposition to Template","Pairwise APF Alignment/Superposition","Atomic Property Field Superposition", "APF Tools","Consensus Pharmacophore","Pairwish APF Score","APF Ligand Based Screen - Screen SD file against template molecule(s)", "Multiple APF Alignment of Compounds in a Table","Is there a way to build a classification model using the APF output?", "Append Rows","Predict","Protein Interface by ODA","Contact Areas","Contact Areas", "Protein-Protein Interface Prediction","Protein-Protein Docking","Determination of Protein-Protein Docking Interface", "Protein-Protein Docking Procedure","Chemical View Options","Consensus Pharmacophore", "How to Arrange Windows","How to Arrange Windows","arrow","arrow","What does as_graph mean?", "What does as_graph mean?","Optimize H,His,Asn,Gln,Pro","Optimize H,His,Asn,Gln,Pro", "Ribbon Representation","3D to 2D Depiction","Assign Helices and Strands","Assign Helices and Strands", "Assign Helices and Strands","Assign Helices and Strands","General Preferences","Chemical View Options", "Chemical View Options","Making Basic Selections","Making Sequence Selections in the ICM Workspace", "How do I specify a particular color for only the carbon atoms of a molecules?","I have multiple proteins overlayed and I would like to color the carbon atoms of each molecule uniquely - how can I do this?", "What does as_graph mean?","How can I change the color of a grob atom based surface according to the underlying atom coloring scheme?", "How can I display more information regarding an atom such as mmff type and charge?", "How do I display the distance between two atoms?","How do I set a formal charge?", "Font Preferences","Display Atomic Energy Circles","Display Atomic Energy Circles", "Pairwise APF Alignment/Superposition","Flexible APF Superposition to Template","Pairwish APF Score", "APF Tools","Consensus Pharmacophore","APF Ligand Based Screen - Screen SD file against template molecule(s)", "How to Perform Pairwise APF Superposition","Right Click Options","Query Setup","Enumerate by Scaffold", "Query PDB by PDB Field","How to Change ActiveICM Component Properties","ICM X-Ray AutoFit - Automated Model Building into Density", "ICM and AutoSave","Cluster","Movie Making","Screen-grabbing Movie","Grid and Axis Display", "Change Axis Data","Axis Options","Axis Options","Axis Options","Axis Options","Local Flexibility", "Local Flexibility","Receptor Considerations","PDB Preparation - Occupancy and B-Factors", "How can I select only the backbone atoms?","Color Background","Background Image", "How to change the background color with one click?","Background Images","Background Image", "Restore Recent Backup","Calculate Properties","Property Monitor","General Preferences", "Display Tab","Structure Representation","Searching the PDB","Basic Alignment Selections", "Basic Selections","Batch Docking","Running VLS Jobs in PBS UNIX Cluster Environment", "Protein-Protein Docking Batch","From File","From Indexed Database","From Loaded ICM Object", "From Mol/Mol2","From MolCart Database","Run Docking Batch","How do I turn off the annoying beep?", "Begin the Docking Simulation","Rotate Chemical for Best-Fit","How can I find out which residues are surrounding a ligand binding pocket?", "I do not have ICM-VLS but I would like to calculate the binding energy of my docked complex - how can I do this?", "How do I identify the binding pockets in my receptor?","Surfaces","Align DNA vs Protein", "Multiple Sequence Alignment","Align Two Sequences","Link to Structure","Bioinfo Menu", "Predict Secondary Structure","Six Frame Translation","Biomolecule Generator","Biomolecule Generator", "Tools Menu - Xray","Biomolecule Generator","Biomolecule Generator","Biomolecule Generator", "Protein Preparation and Crystallographic Analysis Tutorial","Biomolecule Generator", "MolCart installation error on 64Bit machines","Sequence Search and Align","How do I sample flexible ring conformations (boat, chair etc..) during docking?", "How to Edit and Convert a Chemical from the PDB into an ICM Object","How to Display Hydrogen Bonds", "Making a disulfide bond.","Editing structure using keyboard","How to display hydrogen bonds between a ligand and receptor.", "How do I change the bond types and add formal charges to a ligand from the PDB?", "I have a chemical table displayed - how can I add columns of chemical properties associated with each chemical in my table?", "I do not see the chemical property monitor in the molecular editor. Where is it?", "How do I make a covalent bond between a ligand and a receptor?","Converting a Chemical from the PDB using the ICM Workspace", "How to Convert a Chemical from the PDB using the Graphical Display","Converting a Chemical from the PDB", "Converting a Chemical from the PDB using the ICM Workspace","Converting a Chemical from the PDB using the Graphical Display", "Display Hydrogen Bond","Bonds Preferences","Box","Box","Font Preferences","Display Rainbow, Box, Ruler", "When I view my docking run my ligand never jumps into the box - what did I do wrong?", "How to remove chain breaks (dotted lines)","Set Chemical Table 3D Browse Mode","Docking Results - Scan Hits", "Set Chemical Table 3D Browse Mode","Browse Database","Stack","Stack","Troubleshooting", "Make Animation","Build Model","Edit Structure","Edit Structure","Post Screening Tools - Calculate Properties", "Advanced use of activeICM: Macros to direct visualisation changes","Quit","PowerPoint Cache Errors", "Calculate Properties","I do not have ICM-VLS but I would like to calculate the binding energy of my docked complex - how can I do this?", "Calculate Properties","I am having problems with my ICM script when running from the unix command line.", "How do I specify a particular color for only the carbon atoms of a molecules?","I have multiple proteins overlayed and I would like to color the carbon atoms of each molecule uniquely - how can I do this?", "Set Formal Charges","Generate 3D Conformers","Protein Structure Analysis","Closed Cavities", "Identify Closed Cavities","How do I load an electron density map into ICM?","How can I contour an electron density map and adjust contour levels and color?", "Crystallographic Cell","Crystallographic Cell","How to Move a Structure in the Graphical Display", "Center","Molecule Move Buttons","Center","Center","Column Format and Custom Actions", "How can I select the closest residue from the center of mass of a selected residue?", "Tree Selection","How to remove the dotted lines in chain breaks.","Find Related Chains", "How do I sample flexible ring conformations (boat, chair etc..) during docking?", "How do I sample conformations of flexible rings in docked ligands, for example, a \"chair-boat\" transition?", "Altering a Selection","Change Speed, Range and Cycle Length of Animation","Alignment Editor", "Electrostatic potential","How to Edit and Convert a Chemical from the PDB into an ICM Object", "Converting a Chemical from the PDB using the ICM Workspace","How to Convert a Chemical from the PDB using the Graphical Display", "Labeling Atoms","Right Click Options","Converting a Chemical from the PDB","Converting a Chemical from the PDB using the ICM Workspace", "Converting a Chemical from the PDB using the Graphical Display","Query Setup","Consensus Pharmacophore", "Post Screening Tools - Calculate Properties","How do I change the bond types and add formal charges to a ligand from the PDB?", "Docking Preferences","What do the options mean in Docking/Preferences/Charge Groups?", "How can I convert a chemical in a chemical table into 3D?","Saving Chemical Structures and Images", "Saving Chemicals in the Molecular Editor","Saving Chemical Images","Saving from a chemical table.", "Saving Chemicals in the ICM Workspace","Substructure Superposition","Chemical View Options", "Cheminformatics","Chemical Display","Chemical View Options","Zoom, Translate and Z-rotate a Chemical in a table.", "Set Chemical Table 3D Browse Mode","Rotate Chemical for Best-Fit","Color Chemical Structure", "Editing structure using keyboard","Generating Chemical Fragments","Molcart Search", "3D to 2D Depiction","Generate Tautomers","Enumerate by Scaffold","Enumerate by Reaction", "Substructure Superposition","Pairwise APF Alignment/Superposition","Flexible APF Superposition to Template", "Cluster","How can I change the layout of a chemical table?","How can I convert a chemical in a chemical table into 3D?", "I have a chemical table displayed - how can I add columns of chemical properties associated with each chemical in my table?", "I have a small molecule displayed in 3D in a loaded PDB file. How can I extract this molecule into an ICM Chemical Table?", "What is considered a good druglikeness value?","I do not see the chemical property monitor in the molecular editor. Where is it?", "Cluster Set","A dictionary of chemical groups.","Reading Chemical Structures","Molecular Editor", "Adding and rotating a fragment in molecular editor by clicking-holding-and-dragging.", "ICM crashes, or hangs if you are trying to start the Chemical Editor, or a Query window", "Find and Replace","Split Chemical(s) into Fragments","A dictionary of chemical groups.", "A dictionary of chemical groups.","Adding and rotating a fragment in molecular editor by clicking-holding-and-dragging.", "Right Click Options","Chemical Search","Filter Search","Search a Database by Text", "Chemical Smiles","How to rotate a 2D chemical sketch so it fits nicely in its cell in a chemical table?", "How to compare two chemical spreadsheets.","Working with Chemical Spreadsheets.", "Cheminformatics","How to Perform Pairwise APF Superposition","How to use Atomic Property Fields for Chemical Superposition to a Template", "How to Perform Rigid and Flexible Chemical Substructure Superposition.","How to convert SMILES strings to 2D", "Molecular Table Display","Molecular Tables","Convert Chemicals to 3D","Convert Chemicals to 3D", "Save and Append Chemical Structures","Cluster Set","How to perform chemical clustering.", "ICM Convert","How to Edit and Convert a Chemical from the PDB into an ICM Object", "Converting a Chemical from the PDB using the ICM Workspace","How to Convert a Chemical from the PDB using the Graphical Display", "ICM Convert","Convert Chemicals to 3D","Converting a Chemical from the PDB","Converting a Chemical from the PDB using the ICM Workspace", "Converting a Chemical from the PDB using the Graphical Display","How do I change the bond types and add formal charges to a ligand from the PDB?", "How to rotate a 2D chemical sketch so it fits nicely in its cell in a chemical table?", "Drawing a New Chemical Structure","Draw Chemical","How to identify duplicate chemicals in a chemical spreadsheet.", "Editing a Chemical Structure","Edit Chemical","Saving Chemical Structures and Images", "Saving from a chemical table.","Saving Chemicals in the Molecular Editor","Saving Chemicals in the ICM Workspace", "Saving Chemical Images","Reading Chemical Structures","Loading Chemical Structures", "Merge Two Sets","IUPAC Chemical Nomenclature","Drawing a New Chemical Structure", "How to calculate chemical properties in a chemical spreadsheet.","Right Click Options", "Query Setup","Query Processing","Reading Chemical Structures","Loading Chemical Structures", "Undo and Redo","Save and Append Chemical Structures","Saving Chemical Structures and Images", "Saving from a chemical table.","Saving Chemicals in the Molecular Editor","Saving Chemicals in the ICM Workspace", "Saving Chemical Images","Right Click Options","Chemical Search","Query Setup","Query Processing", "Chemical Similarity Searching","Advanced Chemical Similarity Searching","Right Click Options", "Chemical Search","Query Setup","Query Processing","Chemical Similarity Searching", "Advanced Chemical Similarity Searching","Chemical Smiles","Working with Chemical Spreadsheets.", "Saving Chemical Structures and Images","Saving from a chemical table.","Saving Chemicals in the Molecular Editor", "Saving Chemicals in the ICM Workspace","Saving Chemical Images","Loading Chemical Structures", "Save and Append Chemical Structures","Editing a Chemical Structure","Advanced Chemical Similarity Searching", "Rigid Superposition of Compounds in a Table onto a Template in The Graphical Display", "Rigid Substructure Superposition","Flexible Substructure Superposition","Atomic Property Field Superposition", "Multiple APF Alignment of Compounds in a Table","Working with Chemical Spreadsheets.", "Molecular Tables","Draw Chemical","Edit Chemical","Undo and Redo","Working with Chemical Spreadsheets.", "FAQ-Cheminformatics","Cheminformatics Tutorials","Generate Tautomers","FAQ-Cheminformatics", "Convert","Convert 2D to 3D","Chemistry Menu","PCA Analysis","Convert Smiles to 2D", "Select Duplicates","Select Duplicates","MolCart installation error on 64Bit machines", "Label Variables","How can I display the dihedral angle?","Generate Stereoismers", "Generate Stereoismers","Generate Stereoismers","FAQ ActiveICM","Loop Modeling Tutorial", "General Preferences","Display Clash","Display Clash","Post Screen Visualization (Post Screen Visualization}", "Chemical View Options","Clear Display & Planes","Clear Selection","Clear Selection", "Clear Display & Planes","How to: Right Click Options","Graphics Shortcuts","Molecule Move Buttons", "Mesh Clipping","Mesh Clipping","The front and back part of my structure have been clipped away how do I restore these regions in my display.", "How to Save an Image to the Clipboard","Save and Print Tree","I would like to create a movie wherein I \"walk\" through the molecule by moving the front clipping plane to the end. Can I write a loop that moves the clipping and generates an image after every step to generate my movie afterwards?", "How to use the Graphics window controls","Molecular Graphics","Clipping Tools","Clipping Tools", "icmPocketFinder","Closed Cavities","Identfy Ligand Pockets","Running VLS Jobs in PBS UNIX Cluster Environment", "Cluster by Ligand Pose Similarity","Cluster","Cluster","How to select representative centers from a tree.", "Data Clustering","Meshes Tab","Google 3D Objects (Sketchup)","Protein Health","Coloring", "Coloring","Coloring","Labeling Atoms","Labeling Residues","Protein Health","Color Chemical Structure", "Align/Color by 2D Scaffold","Mark and Select Rows","Tree View","How do I specify a particular color for only the carbon atoms of a molecules?", "I have multiple proteins overlayed and I would like to color the carbon atoms of each molecule uniquely - how can I do this?", "How can I change the color of a grob atom based surface according to the underlying atom coloring scheme?", "How do I color a structure by secondary structure?","Coloring an Alignment.","Color Background", "Coloring","Color Chemical Structure","Color and Mesh Display","How do I color a structure by secondary structure?", "Color Table Column","How to color a 2D chemical sketch by pharmacophore feature.", "Color Background","Color Background","Labeling Distances","Color and Mesh Display", "Color Table Column","Coloring","Working with Tables","Change Column and Row Width", "Hide and Show Columns","Column Format and Custom Actions","Plotting Table Data", "Column Histogram","I have a chemical table displayed - how can I add columns of chemical properties associated with each chemical in my table?", "Change Column and Row Width","Column Statistics","Table Color","How to show and hide columns and rows in a chemical spreadsheet.", "How to show and hide columns and rows in a chemical spreadsheet.","Combinatorial Chemistry", "How to enumerate a Markush library.","Merge Two Sets","Ribbon Preferences","How can I run the docking simulation from the command line?", "How to check on the display status of an object in the command line.","Writing a Script in GUI.", "How can I write a script in the Graphical User Interface?","Chemical Table Side-by-Side View", "Compare Two Sets","Merge Two Sets","How to compare two chemical spreadsheets.","Compare Two Sets", "Save Project Compatible with ICM 3_5","Hitlist Result Display","Generate Tautomers", "Molecular Tables","How can I download the MolCart vendor compounds provided by MolSoft?", "Image Preferences","Filter Search","Generate 3D Conformers","Generate 3D Conformers", "Multiple Receptor 4D Docking","How do I view a stack of solutions after a simulations?", "Generate 3D Conformers","Move and Resize Mesh","Molecule Move Buttons","Connect (Move)", "Connect (Move)","Right Click Options","Query Setup","Find Related Chains","APF Tools", "Consensus Pharmacophore","New","Constructing a New Peptide","Make Animation","Constructing New DNA or RNA", "Constructing New DNA or RNA","Constructing a New Compound","Constructing a New Compound", "New","Constructing New Protein and Nucleic Acid Sequences","New","Constructing New Protein and Nucleic Acid Sequences", "Constructing New Protein and Nucleic Acid Sequences","Contact Areas","Protein Structure Analysis", "Contact Areas","Contact Areas","Contour Electron Density Map","Convert Xray Density to Grid", "Contour Electron Density Map","Convert Xray Density to Grid","Contour Electron Density Map", "Converting PDB Files Into ICM Objects","Convert 2D to 3D","Convert to Racemic","How can I convert a chemical in a chemical table into 3D?", "How to generate 3D ligand conformers.","How to convert 2D chemical sketches to 3D.", "How to convert 2D sketches in the molecule editor into 3D.","Display and Convert Molecule", "Convert Chemicals to 3D","Convert to Local Database","Converting a Chemical from the PDB", "How to convert SMILES strings to 2D","Convert to Local Database","Convert","Convert Smiles to 2D", "Convert Structure to Smiles","Convert Xray Density to Grid","Converting PDB Files Into ICM Objects", "Copy Molecule","Isis Draw Copy and Paste","Pharmacophore Draw 3D","Copy Cut and Paste Row", "Copy Cell","Copy Cell","Copy Molecule","Copy Cut and Paste Row","Copy, Cut and Paste", "Copy Cell","Copy Selection to an ICM Table","How to copy and paste 2D chemicals.", "CPK Representation","How can I display a structure in many different representations simultaneously?", "Restore Recent Backup","How to Add Text or Edit a Molecular Document","Generate New Table", "Create/Modify Markush","I have the XYZ origin cross displayed - How can I undisplay this?", "Clipping Tools","Crystallographic Cell","Crystallographic Cell","Crystallographic Analysis", "Biomolecule Generator","Contour Electron Density Map","Convert Xray Density to Grid", "Crystallographic Cell","Get Electron Density Map","Map's Original Cell","Crystallographic Neighbor", "Protein Preparation and Crystallographic Analysis Tutorial","Crystallographic Cell", "Tools Menu - Xray","Crystallographic Neighbor","Crystallographic Neighbor","Tools Menu - Xray", "Get Electron Density Map","Contour Electron Density Map","Convert Xray Density to Grid", "Get Electron Density Map","Contour Electron Density Map","Convert Xray Density to Grid", "How do I load an electron density map into ICM?","How can I contour an electron density map and adjust contour levels and color?", "Reading a Table","Saving a table","Save a Table","How can I store a view and return to it later?", "How to Change ActiveICM Component Properties","Molecule Move Buttons","Molecular Table Display", "Substructure Superposition","Column Format and Custom Actions","Annotate By Substructure", "Customized Label 2D or 3D","Custom Rotation","Copy Cut and Paste Row","Cut Vertical Alignment Block", "Defective graphics on a laptop or Windows computer with a low end graphics card.", "Is it possible to draw dashed lines between atoms without displaying the corresponding bond length. I would like to do this to show which atoms are", "Searching the PDB","Sequence Search and Align","Molcart","Enumerate by Scaffold", "Ligand Considerations","Database File Format","Run VLS in the Graphical User Interface", "How to make a local database.","Database File Format","Sequence Search and Align", "How can I download the MolCart vendor compounds provided by MolSoft?","How to decompose a library based on a Markush structure.", "Enumerate by Scaffold","R-Group Decomposition","R-Group Decomposition","How to Move Windows", "Clear Selection","Delete","Delete","Protect Shell Objects From Deletion","I would like to delete all the residues in my protein except for the ones surrounding the ligand binding pocket.", "Deleting Columns and Rows","Undisplay Customized Label","Delete All","Delete Label", "Deleting Columns and Rows","Delete Label","Undisplay Customized Label","Deleting Columns and Rows", "Delete","Edit Structure","Edit Structure","Delete All","Get Electron Density Map", "Contour Electron Density Map","Convert Xray Density to Grid","Get Electron Density Map", "Contour Electron Density Map","Convert Xray Density to Grid","How do I load an electron density map into ICM?", "How can I contour an electron density map and adjust contour levels and color?", "Occlusion Shading","Can you suggest some ways to remove a selection completely?", "How can I calculate the RMSD between two protein structures?","Insert a Dialog Box", "Insert a Dialog Box","Light Tab","Dihedral Angle","Label Variables","Dihedral Angle", "How can I display the dihedral angle?","Protein Structure Analysis","I have a small molecule which already has the 3D coordinates defined. How can I load the molecule and not optimize it so as to preserve the assigned 3D coordinates?", "Directories Preferences","Preferences","Defective graphics on a laptop or Windows computer with a low end graphics card.", "How to use the ICM Workspace Panel","How to Arrange Windows","Preferences","How to Display Hydrogen Bonds", "Display Clash","Graphic Layers","Chemical Display","Generate Stereoismers","Display Preferences", "Graphical Selections Tutorial","How to display hydrogen bonds between a ligand and receptor.", "How do I specify a particular color for only the carbon atoms of a molecules?","I have multiple proteins overlayed and I would like to color the carbon atoms of each molecule uniquely - how can I do this?", "What does as_graph mean?","I have the XYZ origin cross displayed - How can I undisplay this?", "The front and back part of my structure have been clipped away how do I restore these regions in my display.", "How can I display more information regarding an atom such as mmff type and charge?", "How can I display a structure in many different representations simultaneously?", "What is an iSee File?","How to check on the display status of an object in the command line.", "How do I display the distance between two atoms?","How do I display only the residues that surround the ligand binding pocket?", "How do I display weak hydrogen bonds?","How can I change the layout of a chemical table?", "Chemical Display","Delete Label","Display Dihedral Angle","Displaying Distance Restraints", "Display Distance Between Two Atoms - the quick way","Display Distances and Angles", "Display Formal Charges","Display Gradient","Hitlist Result Display","Post Screening Tools - Calculate Properties", "Display Hydrogen Bonds","Display and Undisplay Hydrogens","Meshes","Display or Undisplay Meshes or Surfaces", "Display Planar Angle","How to Display a Molecule","Display Tab","How can I change the color of a grob atom based surface according to the underlying atom coloring scheme?", "Displaying Tethers","Display Rainbow, Box, Ruler","CPK Representation","Display Planar Angle", "Molecular Table Display","Display Dihedral Angle","Labeling Distances","Displaying Distance Restraints", "Display Distance Between Two Atoms - the quick way","Electrostatic potential","Display Gradient", "Display and Undisplay Hydrogens","Display and Undisplay Hydrogens","Macroshape", "Meshes","Meshes Tab","Display and Convert Molecule","(Un)display Origin","Electrostatic potential", "Display Tab","Structure Representation","Displaying Distance Restraints","Ribbon Representation", "Skin Representation","How to check on the display status of an object in the command line.", "Surface Representation","Surfaces","Meshes Tab","Molecular Table Display","Displaying Tethers", "Wire Representation","Stick and Ball (Xstick) Representation","Distance","Distance", "Labeling Distances","Display Distances and Angles","Protein Structure Analysis", "Measure Distances","Compare Two Sets","Is it possible to draw dashed lines between atoms without displaying the corresponding bond length. I would like to do this to show which atoms are", "Can you give me some tips on which options to use for RMSD calculations?","How do I display the distance between two atoms?", "How do I display the distance between two atoms?","Font Preferences","Labels Tab", "Making a disulfide bond.","Data Clustering","Docking","Small Molecule Docking","Ligand Considerations", "ICM X-Ray AutoFit - Automated Model Building into Density","Virtual Ligand Screening to Ricin Receptor", "Virtual Ligand Screening to Cyclooxygenase","Multiple Receptor Conformation Ensemble Docking Example", "How do I sample conformations of flexible rings in docked ligands, for example, a \"chair-boat\" transition?", "How can I guide my docking to a known conformation of a smilar ligand?","How do I reload a docking project?", "In a VLS run how many times should I run the docking?","Some compounds are missing from my HITLIST.", "What constitutes a good docking score?","How do I identify the binding pockets in my receptor?", "How long does it take to dock one ligand using ICM-VLS?","What does thoroughness mean?", "When I setup the receptor I am asked to move a probe - what is this?","I want to dock to the receptor and include other molecules in the receptor such as a tightly bound water molecule - how can I do this?", "How can I run docking with a flexible receptor?","How can I run the docking simulation from the command line?", "I am docking a racemic compound how can I sample both R and S states during docking?", "Dock to Atomic Property Fields","How can I run the docking simulation from the command line?", "How do I sample flexible ring conformations (boat, chair etc..) during docking?", "Protein Interface by ODA","Protein Interface by ODA","Protein-Protein Interface Prediction", "Protein-Protein Interface Prediction","Docking","Setting up the Docking Project", "Reload a Docking Project","Induced Fit (Flexible) Docking","Ligand and Receptor Complex Refinement", "Multiple Receptor 4D Docking","Explicit Group Docking","Virtual Ligand Screening", "Virtual Ligand Screening","VLS Getting Started","Run VLS in the Graphical User Interface", "Protein-Protein Docking","Protein-Protein Docking","Determination of Protein-Protein Docking Interface", "Determination of Protein-Protein Docking Interface","Protein-Protein Docking Procedure", "Protein-Protein Docking Procedure","Protein-Protein Set Project","Protein-Protein Receptor Setup", "Protein-Protein Ligand Setup","Protein-Protein Make Receptor Maps","Protein-Protein Docking Batch", "Display Grid Docking Results","Ligand Docking Tutorials","Re-Dock Biotin to the Streptavidin Receptor", "Re-Dock an Inhibitor to Ricin Crystal Structure","Docking a Markush Library","Induced Fit (Flexibility) Docking Tutorials", "Explicit Group Docking","FAQ-Docking","What are the units of the energy values displayed after docking?", "When I view my docking run my ligand never jumps into the box - what did I do wrong?", "I have a complex I wish to generate an ICM VLS Score for, however I did not dock it using VLS. How can I do this?", "Why is there always a small difference between the score calculated interactively by scanScoreExternal and that obtained by docking (VLS)?", "Explicit Group Docking","Explicit Docking","Setup Docking","Receptor Setup","Rotate Hydroxyls", "Run Docking","Interactive Docking: Mol Table Ligand","Interactive Docking: Loaded Ligand", "Docking Introduction","Docking Preferences","Docking Preferences","Database Scan Preferences", "Display Preferences","General Preferences","Setting up the Docking Project","Template Docking", "Review and adjust binding site","Review and adjust binding site","How do I monitor and terminate a background docking job?", "Batch Docking","Review and adjust binding site","How do I sample flexible ring conformations (boat, chair etc..) during docking?", "How do I sample flexible ring conformations (boat, chair etc..) during docking?", "Make a HIT LIST","Interactive Docking","(Re)Make Receptor Maps","Setting up the Docking Project", "Begin the Docking Simulation","Set Project Name","Make a HIT LIST","Setup Receptor", "Viewing Your Docking Results","Docking Results - Scan Hits","Docking Results - View Stack Conformations", "Make a HIT LIST","How do I sample flexible ring conformations (boat, chair etc..) during docking?", "Make a HIT LIST","Docking Results - View Stack Conformations","Template Docking", "HTML","Insert Script","Insert a Dialog Box","Document Navigation","Add Image to Album", "How do I use the Dollar $ in ICM Scripts?","Property Monitor","Display Tab","Structure Representation", "General Preferences","How to remove chain breaks (dotted lines)","How to remove chain breaks (dotted lines)", "How to remove the dotted lines in chain breaks.","Editing structure using keyboard", "How can I download the MolCart vendor compounds provided by MolSoft?","How to Drag and Drop", "How to Make an Alignment using Drag and Drop","Font Preferences","Labeling Residues", "Insert Script","Drag and Drop","How can I merge two separate objects into one?", "Drag and Drop","Drag Res Labels","How to Drag and Drop","Isis Draw Copy and Paste", "Enumerate by Reaction","How can I draw small molecules?","Drawing a New Chemical Structure", "How to Drag and Drop","How to Make an Alignment using Drag and Drop","Insert Script", "Drag and Drop","How can I merge two separate objects into one?","Calculate Properties", "I have a chemical table displayed - how can I add columns of chemical properties associated with each chemical in my table?", "What is considered a good druglikeness value?","Property Monitor","How to Display a Binding Pocket Surface", "How to Display a Binding Pocket Surface","Easy Rotate","How do I read in a small molecule from ISIS draw and convert it to 3D?", "Edit an Alignment","Editing a Chemical Structure","Edit Molecule","Edit Ligand", "Ligand-Editor-Preferences","Ligand Tools","Edit Menu","How to Add Text or Edit a Molecular Document", "Molecular Editor","Edit Database","Edit a Movie","Selection","Edit Slide","Editing a Table", "Edit Molecule","Edit a Movie","Edit Molecule","How do I show the sequence conservation around the ligand binding site?", "PDB Search","Get Electron Density Map","Contour Electron Density Map","Convert Xray Density to Grid", "Get Electron Density Map","Contour Electron Density Map","Convert Xray Density to Grid", "Get Electron Density Map","Contour Electron Density Map","Convert Xray Density to Grid", "Get Electron Density Map","Contour Electron Density Map","Convert Xray Density to Grid", "How do I load an electron density map into ICM?","How can I contour an electron density map and adjust contour levels and color?", "Map's Original Cell","Map's Original Cell","Tools Menu - Xray","Load","Tools Menu - Xray", "ICM X-Ray AutoFit - Automated Model Building into Density","Electrostatic potential", "Meshes - Surface - Grobs","Surfaces","Protein-Protein Make Receptor Maps","Elegant Ribbon & Ligand Sketch", "Editing structure using keyboard","Embed in Web Browser","How to Embed in Microsoft PowerPoint 2003", "How to Embed in Microsoft PowerPoint 2007","How to Change ActiveICM Component Properties", "How to Change ActiveICM Component Properties","ActiveICM","Embed in Web Browser", "ActiveICM","Embed in Web Browser","ActiveICM","Embed in Web Browser","ActiveICM", "ActiveICM","How to Embed in Microsoft PowerPoint 2003","How to Embed in Microsoft PowerPoint 2007", "I am docking a racemic compound how can I sample both R and S states during docking?", "Protein Health","Display Clash","Protein Health","Docking Results - View Stack Conformations", "What are the units of the energy values displayed after docking?","I do not have ICM-VLS but I would like to calculate the binding energy of my docked complex - how can I do this?", "How do I view a stack of solutions after a simulations?","Post Screen Visualization (Post Screen Visualization}", "Energy Terms","Energy Terms","How to enumerate a chemical library by reaction.", "Enumerate by Scaffold","Saving Chemical Images","How do I change the tautomeric form of Histidine in a structure?", "MolCart installation error on 64Bit machines","MolCart installation error on 64Bit machines", "How do I turn off the annoying beep?","How to use the Graphics window controls", "Compare Two Sets","Export to Excel","Filter Search","Quit","Quit","Chemical View Options", "Ligand and Receptor Complex Refinement","Ligand and Receptor Complex Refinement", "Explicit Group Docking","Explicit Group Docking","Explicit Group Docking","Export Ramachandran Plot", "Export Ramachandran Plot","Export Docking Project.","Export to Excel","How to Extract a Sequence from a PDB Structure.", "Load Sequence","How do I show the sequence conservation around the ligand binding site?", "I have a small molecule displayed in 3D in a loaded PDB file. How can I extract this molecule into an ICM Chemical Table?", "Extract from ICB","Extract Sub-Alignment As Is","How to extract a 2D sketch of a ligand in complex with a PDB strcture.", "Extract from ICB","How to extract a 3D pharmacophore from a ligand.","Frequently Asked Questions", "FAQ Hardware","FAQ Graphics and Display","How can I select only the backbone atoms?", "FAQ Structure","FAQ-Docking","FAQ-Simulations","FAQ-Script","I am having problems with my ICM script when running from the unix command line.", "How do I read in a small molecule from ISIS draw and convert it to 3D?","FAQ ActiveICM", "When using ActiveICM is there a way to set a RELATIVE path to an icb file rather than ABSOLUTE?", "Is there a way to build a classification model using the APF output?","How do I set a formal charge?", "How can I display more information regarding an atom such as mmff type and charge?", "ICM and AutoSave","How can I select only the backbone atoms?","How to change the background color with one click?", "How do I monitor and terminate a background docking job?","How do I turn off the annoying beep?", "I do not have ICM-VLS but I would like to calculate the binding energy of my docked complex - how can I do this?", "How do I set a blend transition effect between two slides?","How to remove the dotted lines in chain breaks.", "How can I change the torsion angle?","How can I change the layout of a chemical table?", "I do not see the chemical property monitor in the molecular editor. Where is it?", "How do I perform a chemical search","FAQ-Cheminformatics","The front and back part of my structure have been clipped away how do I restore these regions in my display.", "How can I select the closest residue from the center of mass of a selected residue?", "How do I specify a particular color for only the carbon atoms of a molecules?","How can I change the color of a grob atom based surface according to the underlying atom coloring scheme?", "How to check on the display status of an object in the command line.","How do I change the bond types and add formal charges to a ligand from the PDB?", "How do I make a covalent bond between a ligand and a receptor?","I would like to delete all the residues in my protein except for the ones surrounding the ligand binding pocket.", "Can you suggest some ways to remove a selection completely?","How can I display the dihedral angle?", "What do the options mean in Docking/Preferences/Charge Groups?","When I setup the receptor I am asked to move a probe - what is this?", "I am docking a racemic compound how can I sample both R and S states during docking?", "In a VLS run how many times should I run the docking?","How do I change the working directory?", "FAQ-Docking","How long does it take to dock one ligand using ICM-VLS?","How do I use the Dollar $ in ICM Scripts?", "What is considered a good druglikeness value?","What are the units of the energy values displayed after docking?", "Error in saving configuation settings: You are not a license administrator","I have a small molecule displayed in 3D in a loaded PDB file. How can I extract this molecule into an ICM Chemical Table?", "How can I run docking with a flexible receptor?","How do I sample flexible ring conformations (boat, chair etc..) during docking?", "How to change font size in html-documents, alignments, terminal, table, graphics?", "Is there a way to determine the name of the current table displayed GUI?","ICM graphics crashes.", "FAQ Graphics and Display","How can I guide my docking to a known conformation of a smilar ligand?", "FAQ Hardware","Some compounds are missing from my HITLIST.","What is an iSee File?", "How do I identify the binding pockets in my receptor?","I have a chemical table displayed - how can I add columns of chemical properties associated with each chemical in my table?", "FAQ Installation","Is it possible to draw dashed lines between atoms without displaying the corresponding bond length. I would like to do this to show which atoms are", "When I view my docking run my ligand never jumps into the box - what did I do wrong?", "How can I merge two separate objects into one?","MolCart installation error on 64Bit machines", "How do I make a new molcart database from a query search?","I have a database in MolCart and I want to save it in SDF format - how can I do this?", "How do I perform a text query on a database in MolCart?","I have multiple proteins overlayed and I would like to color the carbon atoms of each molecule uniquely - how can I do this?", "How can I draw small molecules?","I would like to create a movie wherein I \"walk\" through the molecule by moving the front clipping plane to the end. Can I write a loop that moves the clipping and generates an image after every step to generate my movie afterwards?", "How can I write a script in the Graphical User Interface?","How do I read in all the structures in a PDB file of a protein solved by NMR?", "I downloaded and installed ICM. It seems to start fine. However it dies every time I try to open something, giving an NVIDIA error. NVIDIA: Could not open the device file /dev/nvidiactl (Permission denied).", "I have the XYZ origin cross displayed - How can I undisplay this?","Restoring font size and other GUI parameters on MAC : molsoft.com.plist", "Which score value should I use for analysis.","How can I find out which residues are surrounding a ligand binding pocket?", "I have a small molecule which already has the 3D coordinates defined. How can I load the molecule and not optimize it so as to preserve the assigned 3D coordinates?", "Does ICM support quad-buffer stereo?","I want to dock to the receptor and include other molecules in the receptor such as a tightly bound water molecule - how can I do this?", "How do I reload a docking project?","How do I remove unwanted metal and counterions from an SDF file?", "If I have multiple graphical selections how can I remove one without losing the others?", "How Do I renumber the residues in a PDB file","How to make a selection by typing in the residue numbers?", "How do I sample conformations of flexible rings in docked ligands, for example, a \"chair-boat\" transition?", "How can I calculate the RMSD between two protein structures?","Can you give me some tips on which options to use for RMSD calculations?", "Is it possible to save the ICM session in a way that when switching to the ppt slide with that link, rocking is active?", "Is it possible to change the speed of the rocking?","How to rotate a 2D chemical sketch so it fits nicely in its cell in a chemical table?", "I have a complex I wish to generate an ICM VLS Score for, however I did not dock it using VLS. How can I do this?", "Why is there always a small difference between the score calculated interactively by scanScoreExternal and that obtained by docking (VLS)?", "What constitutes a good docking score?","FAQ-Script","FAQ-Simulations","How to convert SMILES strings to 2D", "How do I write a script to calculate solvent-accessible surface and tabulate the results to show area for each residue in a protein?", "How do I make a disulfide bond?","FAQ Structure","How do I superimpose two proteins?", "What does thoroughness mean?","How to make a transparent ribbon?","How to truncate a mesh object?", "How do I view a stack of solutions after a simulations?","How do I display weak hydrogen bonds?", "How to write a pdb file?","How can I contour an electron density map and adjust contour levels and color?", "I want to visualize weak hydrogen bonds how can I change the H-bond cutoff parameter?", "How do I load an electron density map into ICM?","How do I color ribbon models according to Optimal Docking Area (ODA)", "Problem with stereo?","How to Work With Sequences and Alignments","How to Load a FASTA Format File", "Query PDB by PDB Field","Open","Loading Your PDB File","Close Project","Save Project Compatible with ICM 3_5", "Export as ActiceICM Html","Load","File Menu","Save with Password","Quick Image", "How to Save an ICM Project File","Recent Files","Restore Recent Backup","Browse Database", "How do I specify a particular color for only the carbon atoms of a molecules?","Filter Selection", "Filtering a Selection.","Find Related Chains","Chemical Find and Replace","Find Related Chains", "Dihedral Angle","Planar Angle","How do I perform a chemical search","How do I make a new molcart database from a query search?", "FAQ ActiveICM","Rotate Chemical for Best-Fit","ICM X-Ray AutoFit - Automated Model Building into Density", "How can I run docking with a flexible receptor?","ICM X-Ray AutoFit - Automated Model Building into Density", "Least Squares Fitting","Flexible Substructure Superposition","Local Flexibility", "Local Flexibility","Explicit Group Docking","Induced Fit (Flexibility) Docking Tutorials", "Substructure Superposition","Induced Fit (Flexible) Docking","Induced Fit (Flexible) Docking", "Ligand and Receptor Complex Refinement","Multiple Receptor 4D Docking","Multiple Receptor Conformation Ensemble Docking Example", "How can I run docking with a flexible receptor?","Docking Preferences","How do I sample conformations of flexible rings in docked ligands, for example, a \"chair-boat\" transition?", "Fog","Molecular Graphics","Fog","Fog","Preferences","Font Preferences","Labeling Atoms", "Labeling Residues","Chemical View Options","Column Format and Custom Actions","Tree View", "Font Preferences","Alignment Editor","How to change font size in html-documents, alignments, terminal, table, graphics?", "How to change the view of a chemical spreadsheet - form, table and grid.","Table View (Grid Layout)", "How to Edit and Convert a Chemical from the PDB into an ICM Object","How do I set a formal charge?", "Display Formal Charges","Set Formal Charges","Reading a Table","Column Format and Custom Actions", "Property Monitor","Calculate Properties","Color Chemical Structure","R-Group Decomposition", "Generating Chemical Fragments","Generating Chemical Fragments","Six Frame Translation", "Color Chemical Structure","Mesh Clipping","Mesh Clipping","Full Scene Antialias", "Full Screen","Full Screen","Inserting Columns","Column Statistics","Annotate By Substructure", "General Preferences","Selection Tools","Biomolecule Generator","Biomolecule Generator", "Generate 3D Conformers","Getting Started","Stereo Hardware Questions","Problem with stereo?", "Optimize H,His,Asn,Gln,Pro","Optimize H,His,Asn,Gln,Pro","Load","Google 3D Objects (Sketchup)", "Meshes Tab","Google 3D Objects (Sketchup)","Introduction","How do I specify a particular color for only the carbon atoms of a molecules?", "Converting a Chemical from the PDB using the ICM Workspace","How to Convert a Chemical from the PDB using the Graphical Display", "Converting a Chemical from the PDB using the ICM Workspace","Converting a Chemical from the PDB using the Graphical Display", "Graphics Tutorials","2D and 3D Labels","Annotation","Change Molecule Representation and Color", "Labels","FAQ Graphics and Display","I downloaded and installed ICM. It seems to start fine. However it dies every time I try to open something, giving an NVIDIA error. NVIDIA: Could not open the device file /dev/nvidiactl (Permission denied).", "Molecular Graphics","Defective graphics on a laptop or Windows computer with a low end graphics card.", "Graphics Effects","Graphics Preferences","How to use the Graphics window controls", "How to use the Graphics window controls","Shadows","Shadows","Molecular Table Display", "How to change the view of a chemical spreadsheet - form, table and grid.","Substructure Superposition", "Multiple Receptor Conformation Ensemble Docking Example","How can I change the layout of a chemical table?", "General Preferences","Get Electron Density Map","Contour Electron Density Map","Convert Xray Density to Grid", "Meshes - Surface - Grobs","Get Electron Density Map","Contour Electron Density Map", "Convert Xray Density to Grid","R-Group Decomposition","Find Best Replacement Group", "Generating Chemical Fragments","Calculate Properties","Standardize Table","Set Formal Charges", "GUI Preferences","Menu Option Guide","GUI Preferences","Tab Guide","How can I guide my docking to a known conformation of a smilar ligand?", "How to Display Hydrogen Bonds","How to display hydrogen bonds between a ligand and receptor.", "Is it possible to draw dashed lines between atoms without displaying the corresponding bond length. I would like to do this to show which atoms are", "FAQ Hardware","Hardware Stereo","I want to visualize weak hydrogen bonds how can I change the H-bond cutoff parameter?", "I want to visualize weak hydrogen bonds how can I change the H-bond cutoff parameter?", "Display PDB Header","Add a title to a plot","Protein Health","Protein Health","Assign Helices and Strands", "How do I color a structure by secondary structure?","Chemical View Options","Alignment Gaps", "Alignment Gaps","Hide and Show Columns","Write Image","High Quality","How do I change the tautomeric form of Histidine in a structure?", "Optimize H,His,Asn,Gln,Pro","Optimize H,His,Asn,Gln,Pro","How do I change the tautomeric form of Histidine in a structure?", "How do I change the tautomeric form of Histidine in a structure?","How to Plot Histograms and Scatterplots of VLS Data", "To construct a histogram of your VLS data","Plotting Table Data","Column Histogram", "Add a title to a plot","Change Axis Data","Change Mark Shape or Size","Change Mark Color", "Grid and Axis Display","Least Squares Fitting","Zoom, Translate and Center","Plot Selection", "Print Plot","Table Inline Plots","How to Generate Plots and Histograms","How to make a histogram.", "Histogram Bins","Histogram Options","Histogram Options","Histogram Bins","Histogram Options", "Histogram Options","Histogram Options","Histogram Options","Viewing Your Docking Results", "Make a HIT LIST","VLS Results","Sorting the compounds in your HITLIST","To construct a histogram of your VLS data", "Cluster by Ligand Pose Similarity","Some compounds are missing from my HITLIST.", "Cluster by Ligand Pose Similarity","Find Related Chains","Homology Menu and Modelling Tools", "Homology Modeling Introduction","Getting Started","Making an interactive model.", "Loop Modeling","Regularization","Homology Modeling Tutorials","Homology Modeling", "Display Loops","Homology Modeling Introduction","Getting Started","Kinase Homology Modeling", "How to Work with the ICM 3D Ligand Editor","How to add columns into a chemical spreadsheet.", "How to change the view of a chemical spreadsheet - form, table and grid.","How to Convert Chemicals from 2D to 3D", "How to generate 3D ligand conformers.","How to convert 2D chemical sketches to 3D.", "How to convert 2D sketches in the molecule editor into 3D.","How to Superimpose Chemicals", "How to use Atomic Property Fields for Chemical Superposition to a Template","How to Perform Pairwise APF Superposition", "How to Perform Rigid and Flexible Chemical Substructure Superposition.","How to select representative centers from a tree.", "How to color a 2D chemical sketch by pharmacophore feature.","How to copy and paste 2D chemicals.", "How to copy, cut and paste columns and rows in a chemical spreadsheet.","How to decompose a library based on a Markush structure.", "How to identify duplicate chemicals in a chemical spreadsheet.","How to edit data inside a chemical spreadsheet.", "How to edit the tree - labels, spacing and coloring.","How to export your chemical spreadsheet into Excel.", "How to extract a 2D sketch of a ligand in complex with a PDB strcture.","How to extract a 3D pharmacophore from a ligand.", "How to filter columns in a chemical spreadsheet.","How to use find and replace in a chemical spreadsheet.", "How to make a histogram.","How to mark and label rows in a chemical spreadsheet.", "How to enumerate a Markush library.","How to create a Markush structure.","How to merge two chemical spreadsheets.", "How to make an X-Y scatter plot.","How to Generate Plots and Histograms","How to calculate chemical properties in a chemical spreadsheet.", "How to Build and Apply QSAR Prediction Models","How to build a QSAR prediction model.", "How to apply a QSAR prediction model.","How to enumerate a chemical library by reaction.", "How to reorder branches and change the distance of trees.","How to save a chemical spreadsheet in sdf format.", "How to show and hide columns and rows in a chemical spreadsheet.","How to use SMILES strings to sketch a chemical.", "How to sort a column(s) in a chemical spreadsheet.","How to remove salts, explicit hydrogens and standardize chemical groups.", "How to insert hyperlinks to the PDB, PubMed, and Uniprot.","How to print a chemical spreadsheet.", "ActiveICM How To Guide - Create 3D Molecular Documents for the Web and PowerPoint", "How to Create Molecular Documents","How to Create a Series of Fully-Interactive 3D Slides.", "Getting Started","How to Display Molecular Documents in PowerPoint","How to Display Molecular Documents on the Web", "How to perform chemical clustering.","How to Use the Graphical Display","How to Convert Proteins, Display Hydrogens and Ligand Binding Pocket.", "How to Measure Distances and Angles.","Download and Install ICM-Browser","How to use the Graphical Display", "How to change Graphics Effects","How to Make High Quality Publication Images","How to add Labels and Annotations", "Crystallographic Tools","Download and Install ICM-Browser-Pro","Graphics","Plotting Tools", "Sequence Analysis","Protein Structure Analysis","Superimpose Proteins","Surfaces", "How to make Graphical Selections","How to Superimpose Protein Structures.","I want to visualize weak hydrogen bonds how can I change the H-bond cutoff parameter?", "HTML","HTML","Export as ActiceICM Html","How to Add Text or Edit a Molecular Document", "Document Navigation","FAQ ActiveICM","How to change font size in html-documents, alignments, terminal, table, graphics?", "Right Click Options","Query Setup","How to Display Hydrogen Bonds","Display Hydrogen Bond", "Right Click Options","Query Setup","How to display hydrogen bonds between a ligand and receptor.", "Is it possible to draw dashed lines between atoms without displaying the corresponding bond length. I would like to do this to show which atoms are", "I have a chemical table displayed - how can I add columns of chemical properties associated with each chemical in my table?", "I do not see the chemical property monitor in the molecular editor. Where is it?", "Display Hydrogen Bond","Hitlist Result Display","Consensus Pharmacophore","Property Monitor", "How do I display weak hydrogen bonds?","Chemical View Options","Chemical View Options", "How to remove salts, explicit hydrogens and standardize chemical groups.","How to Add Text or Edit a Molecular Document", "How to Make a Hyperlink Between Text and a Slide","Column Format and Custom Actions", "Consensus Pharmacophore","How to Save an ICM Project File","HTML","Extract from ICB", "Export as ActiceICM Html","Add Image to Album","Creating Fully Interactive Slides for PowerPoint and the Web Tutorial", "What is an iSee File?","How do I set a blend transition effect between two slides?", "When using ActiveICM is there a way to set a RELATIVE path to an icb file rather than ABSOLUTE?", "What is an iSee File?","When using ActiveICM is there a way to set a RELATIVE path to an icb file rather than ABSOLUTE?", "When using ActiveICM is there a way to set a RELATIVE path to an icb file rather than ABSOLUTE?", "How to Undertake a Chemical Search","How to Perform Chemical Clustering","How to Generate Combinatorial Libraries", "How to Work with Pharmacophores","How to Generate Plots and Histograms","How to Import, Sketch, and Edit Chemicals", "How to Work with Chemical Spreadsheets","How to Generate Stereoisomers and Tautomers", "How to use the ICM 3D Ligand Editor","How to Convert Chemicals to 3D","How to Superimpose Chemicals", "How to Perform QSAR","ICM-Chemist-Pro How To Guide","ICM-Chemist How To Guide","ICM crashes, or hangs if you are trying to start the Chemical Editor, or a Query window", "Column Format and Custom Actions","ICM crashes, or hangs if you are trying to start the Chemical Editor, or a Query window", "Sequence Search and Align","icmPocketFinder","Identfy Ligand Pockets","How can I find out which residues are surrounding a ligand binding pocket?", "How do I identify the binding pockets in my receptor?","How to Make a Picture","Preferences", "General Preferences","Write Image","How to Save an Image to the Clipboard","Advanced Image Options.", "Add Image to Album","Insert Image","Saving Chemical Structures and Images","Saving Chemical Images", "Saving a Plot Image","Advanced Image Options.","How to Save an Image to the Clipboard", "Image Preferences","Load","High Quality","Quick Image","Make High Quality Publication Images", "Does ICM support quad-buffer stereo?","How do I perform a text query on a database in MolCart?", "How can I run docking with a flexible receptor?","Induced Fit (Flexible) Docking", "Ligand and Receptor Complex Refinement","Explicit Group Docking","Induced Fit (Flexibility) Docking Tutorials", "Induced Fit (Flexibility) Docking Tutorials","Multiple Receptor Conformation Ensemble Docking Example", "Insert Script","Inserting Columns","Insert Image","Inserting Rows","Insert Script", "Introduction","Molcart Installation","MolCart installation error on 64Bit machines", "Where do I save my MolCart license?","FAQ Installation","I do not have ICM-VLS but I would like to calculate the binding energy of my docked complex - how can I do this?", "Contact Areas","Contact Areas","Is it possible to draw dashed lines between atoms without displaying the corresponding bond length. I would like to do this to show which atoms are", "Interactive Docking","Creating Fully Interactive Slides for PowerPoint and the Web Tutorial", "Interactive Docking: Loaded Ligand","Interactive Loop Modeling","Making an interactive model.", "Interactive Modeling","Making an interactive model.","Interactive Docking: Mol Table Ligand", "Interactive Modeling","Introduction","FAQ ActiveICM","Interrupt Animation","Interrupt Animation", "Introduction","Making Table Selections","Defective graphics on a laptop or Windows computer with a low end graphics card.", "Insert a Dialog Box","Isis Draw Copy and Paste","Isis Draw Copy and Paste","Right Click Options", "Query Setup","IUPAC Chemical Nomenclature","How do I monitor and terminate a background docking job?", "Running VLS Jobs in PBS UNIX Cluster Environment","Merge Two Sets","Make High Quality Publication Images", "Write Image","Cluster","Docking Preferences","Editing structure using keyboard", "Graphics Shortcuts","Editing structure using keyboard","Build Model","Model Loop", "Kinase Homology Modeling","Search for Template","Make Alignment","Meshes Tab","Google 3D Objects (Sketchup)", "Font Preferences","Tree View","How can I display more information regarding an atom such as mmff type and charge?", "Annotation","Labeling Atoms","Changing Label Colors","Move Residue Label","Labeling Residues", "Labeling Sites","Label Variables","Labels Tab","Labels Tab","Labeling","Annotation", "Labeling","Labeling Atoms","Changing Label Colors","Customized Label 2D or 3D","Labeling", "Undisplay Customized Label","Labeling Distances","Drag Res Labels","Drag Res Labels", "Move Residue Label","Labeling","Labeling Residues","Labeling","Labeling Sites","Labeling", "Label Variables","How can I display the dihedral angle?","Labeling","Labeling and Annotation", "Chemical View Options","Labeling Distances","Labels Tab","Image Preferences","Restoring font size and other GUI parameters on MAC : molsoft.com.plist", "Making Basic Selections","Making Sequence Selections in the ICM Workspace","Graphic Layers", "Graphic Layers","Build Prediction Model","Predict","Learn and Predict","Learn","Is there a way to build a classification model using the APF output?", "Learn and Predict","A little theory on learning","Least Squares Fitting","Enumerate by Scaffold", "How to enumerate a chemical library by reaction.","Where do I save my MolCart license?", "Ligand Considerations","Induced Fit (Flexible) Docking","Protein-Protein Ligand Setup", "Epitope Selection","How can I merge two separate objects into one?","How do I display only the residues that surround the ligand binding pocket?", "I do not have ICM-VLS but I would like to calculate the binding energy of my docked complex - how can I do this?", "When I view my docking run my ligand never jumps into the box - what did I do wrong?", "I have a small molecule displayed in 3D in a loaded PDB file. How can I extract this molecule into an ICM Chemical Table?", "APF Ligand Based Screen - Screen SD file against template molecule(s)","Find Best Replacement Group", "Query PDB by Ligand Code","The 3D Fully Interactive Ligand Editor","Dock to Atomic Property Fields", "Multiple Receptor Docking","Ligand Editor Preferences","Insert a linker","How do I display only the residues that surround the ligand binding pocket?", "Display the ligand pocket surface","Impose Restraint (tethers) To Ligand Atoms", "How to Perform Pairwise APF Superposition","ICM Convert","ICM Convert","The 3D Fully Interactive Ligand Editor", "Setup Ligand and Receptor","Insert a linker","Re-Dock and Minimize Ligand","Pocket Display Options", "Edit Ligand","Pocket Display Options","Pocket Display Options","Pocket Display Options", "Ligand-Editor-Preferences","Impose Restraint (tethers) To Ligand Atoms","Pocket Display Options", "Impose Restraint (tethers) To Ligand Atoms","Docking a Markush Library","How to Display a Binding Pocket Surface", "Contact Areas","Contact Areas","Ligedit Tab","Light Tab","Light Tab","Lighting", "Calculate Properties","What is considered a good druglikeness value?","General Preferences", "Tree View","Is it possible to draw dashed lines between atoms without displaying the corresponding bond length. I would like to do this to show which atoms are", "Graphics Preferences","Link to Structure","Sequence and Alignment Tutorials","Insert a linker", "Making Links","Making Links","Molcart Installation","How to Work With Sequences and Alignments", "How to Load a FASTA Format File","Open","Recent Files","Get Electron Density Map", "Contour Electron Density Map","Convert Xray Density to Grid","Loading Your PDB File", "Load Sequence","Get Electron Density Map","Contour Electron Density Map","Convert Xray Density to Grid", "Get Electron Density Map","Load Example Alignment","Load and Display NMR Structures", "Loading Your PDB File","Hyperlinks to PDB Website and UniProt","Load Sequence","Extract a Sequence from a PDB File", "Read directly from a Sequence File","Cut and Paste a Sequence","Read a Sequence from SwissProt", "MMFF","MMFF","PDB Search Results Table","How to Download a SwissProt sequence","I would like to have a local copy of the PDB - any advice?", "I would like to have a local copy of the NCBI Blast database- any advice?","Working with Local Databases", "Local Flexibility","Browse Database","Edit Database","Query Local Database","Edit Database", "I would like to have a local copy of the PDB - any advice?","I would like to have a local copy of the NCBI Blast database- any advice?", "Mesh Clipping","Mesh Clipping","Set Chemical Table 3D Browse Mode","Change Axis Data", "Property Monitor","Calculate Properties","Property Monitor","Calculate Properties", "Change Axis Data","Quit","Loop Modeling","How do I color a structure by secondary structure?", "Loop Modeling","Loop Modeling Tutorial","Loop Modeling Tutorial","Interactive Loop Modeling", "Sample Loop","Sample Loop","Sample Loop","Sample Loop","Sample Loop","Sample Loop", "Molcart Installation","Restoring font size and other GUI parameters on MAC : molsoft.com.plist", "Advanced use of activeICM: Macros to direct visualisation changes","Macro Shape", "Meshes - Surface - Grobs","Macroshape","Constructing a New Peptide","New Table", "Make Animation","Generate New Table","Make Animation","Post Screening Tools - Calculate Properties", "How to rotate a 2D chemical sketch so it fits nicely in its cell in a chemical table?", "Make High Quality Publication Images","How to Make Molecular Documents - Link HTML Text to Slides", "How to make a local database.","View-Defined Movie Making","(Re)Make Receptor Maps", "Making Selections","Constructing New DNA or RNA","Constructing New DNA or RNA","How do I make a covalent bond between a ligand and a receptor?", "Constructing a New Compound","Constructing a New Compound","Making a disulfide bond.", "How do I make a disulfide bond?","New","New","Constructing New Protein and Nucleic Acid Sequences", "Making Slides","How to Make Molecular Documents - Link HTML Text to Slides","Change Mark Color", "Font Preferences","Get Electron Density Map","Contour Electron Density Map","Convert Xray Density to Grid", "Get Electron Density Map","Contour Electron Density Map","Convert Xray Density to Grid", "Map's Original Cell","Map's Original Cell","Protein-Protein Make Receptor Maps", "Multiple Receptor Conformation Ensemble Docking Example","How do I load an electron density map into ICM?", "How can I contour an electron density map and adjust contour levels and color?", "When I view my docking run my ligand never jumps into the box - what did I do wrong?", "Map's Original Cell","Mark and Select Rows","Mark and Select Rows","Change Mark Shape or Size", "Change Mark Shape or Size","Create/Modify Markush","R-Group Decomposition","Docking a Markush Library", "Docking a Markush Library","How to enumerate a Markush library.","How can I select the closest residue from the center of mass of a selected residue?", "Meshes Tab","Cluster","Shell Preferences","How can I calculate the RMSD between two protein structures?", "Insert a Dialog Box","Chemistry Menu","Docking Menu","Homology Menu","MolMechanics Menu", "Tools Menu - Chemical Search","Tools Menu - Molecular Editor","Windows Menu","Merge Two Sets", "How can I merge two separate objects into one?","Merge Two Sets","Get Electron Density Map", "Contour Electron Density Map","Convert Xray Density to Grid","How to Display the Ligand Binding Pocket Surface and Neighboring Residues.", "Meshes - Surface - Grobs","Move and Resize Mesh","Mesh Clipping","Save Mesh","Occlusion Shading", "Mesh Clipping","Get Electron Density Map","Contour Electron Density Map","Convert Xray Density to Grid", "Mesh Clipping","Mesh Options.","Save Mesh","Mesh Options.","Meshes - Surface - Grobs", "Meshes Tab","Cluster","Minimize","Minimize","Minimize","Minimize","Minimize","Minimize", "MMFF","MMFF","How can I display more information regarding an atom such as mmff type and charge?", "How can I convert a chemical in a chemical table into 3D?","Labeling Atoms","Shell Preferences", "Homology Menu and Modelling Tools","Homology Modeling Introduction","Getting Started", "Build Model","Loop Modeling","Regularization","Homology Modeling Tutorials","Homology Modeling", "Display Loops","Modeler's View","Modeler's View","Regularization","Regularization", "Interactive Modeling","Saving Chemical Structures and Images","Saving from a chemical table.", "Saving Chemicals in the Molecular Editor","Saving Chemicals in the ICM Workspace", "Saving Chemical Images","Virtual Ligand Screening to Cyclooxygenase","Virtual Ligand Screening to Cyclooxygenase", "Saving Chemical Structures and Images","Saving from a chemical table.","Saving Chemicals in the Molecular Editor", "Saving Chemicals in the ICM Workspace","Saving Chemical Images","Molcart","Molcart", "Molcart Installation","Molcart Getting Started","Molcart Search","Molcart Administration", "Working with Local Databases","MolCart installation error on 64Bit machines","FAQ-Cheminformatics", "How can I download the MolCart vendor compounds provided by MolSoft?","I have a database in MolCart and I want to save it in SDF format - how can I do this?", "How do I perform a chemical search","How do I make a new molcart database from a query search?", "How do I perform a text query on a database in MolCart?","Molcart Administration", "How do I connect to Molcart?","How can I download the MolCart vendor compounds provided by MolSoft?", "How do I generate the hostid for my MolCart license?","Molcart Installation","Where do I save my MolCart license?", "Molcart Search","Molcart Getting Started","How do I connect to Molcart?","How do I generate the hostid for my MolCart license?", "How do I generate the hostid for my MolCart license?","Where do I save my MolCart license?", "Zoom, Translate and Z-rotate a Chemical in a table.","Set Chemical Table 3D Browse Mode", "Rotate Chemical for Best-Fit","Color Chemical Structure","Generate 3D Conformers", "I have a chemical table displayed - how can I add columns of chemical properties associated with each chemical in my table?", "I do not see the chemical property monitor in the molecular editor. Where is it?", "Molecular Animations, Slides, and Documents","Molecular Animations and Transitions", "HTML","Creating Fully Interactive Slides for PowerPoint and the Web Tutorial","How can I draw small molecules?", "Copy, Cut and Paste","Copy, Cut and Paste","Copy, Cut and Paste","Undo and Redo", "Molecular Editor Selections","Undo and Redo","Molecular Graphics","Molecule Representation", "Molecular Mechanics","ICM Convert","Edit Structure","GAMESS","Generate Normal Mode Stack", "Optimize H,His,Asn,Gln,Pro","Impose Conformation","Minimize","MMFF","Regularization", "Sample Loop","Energy Terms","Stack","Homology Menu and Modelling Tools","3D to 2D Depiction", "Property Monitor","What does as_graph mean?","How do I read in a small molecule from ISIS draw and convert it to 3D?", "Molecular Editor","Find Related Chains","Adding and rotating a fragment in molecular editor by clicking-holding-and-dragging.", "ICM Convert","GAMESS","How do I view a stack of solutions after a simulations?", "Edit Structure","Generate Normal Mode Stack","Optimize H,His,Asn,Gln,Pro","Impose Conformation", "Minimize","MMFF","Regularization","Sample Loop","Energy Terms","Stack","Minimize", "Minimize","MMFF","MMFF","Working with Local Databases","Query Local Database","I do not see the chemical property monitor in the molecular editor. Where is it?", "Chemical View Options","How do I make a movie of my montecarlo simulation and write all output.", "How to Move a Structure in the Graphical Display","Graphics Shortcuts","Molecule Move Buttons", "Movie Making","Screen-grabbing Movie","How to Drag and Drop","How to Move Windows", "Save Viewpoint","Move and Resize Mesh","Molecule Move Buttons","Connect (Move)", "How can I merge two separate objects into one?","Move and Resize Mesh","Move Slide", "Move Slide","Molecule Move Buttons","Molecular Graphics","Graphics Shortcuts","Graphics Shortcuts", "Graphics Shortcuts","Graphics Shortcuts","Graphics Shortcuts","Movie Tab","Screen-grabbing Movie", "View-Defined Movie Making","I would like to create a movie wherein I \"walk\" through the molecule by moving the front clipping plane to the end. Can I write a loop that moves the clipping and generates an image after every step to generate my movie afterwards?", "How do I make a movie of my montecarlo simulation and write all output.","Movie Files and Resolution Setup", "How do I make a movie of my montecarlo simulation and write all output.","Defining a Movie Scene", "Movie Tab","Movie Files and Resolution Setup","Edit a Movie","Preview and Export", "Movie Making","Movie Making","Screen-grabbing Movie","Preview and Export","Movie Files and Resolution Setup", "Rock","Rotate","Defining a Movie Scene","Still","Tween","Movie Making","Screen-grabbing Movie", "Movie Making","Multiple APF Alignment of Compounds in a Table","Multiple Receptor 4D Docking", "Multiple Receptor Conformation Ensemble Docking Example","Multiple Receptor 4D Docking", "Induced Fit (Flexibility) Docking Tutorials","Multiple Receptor Docking","I have multiple proteins overlayed and I would like to color the carbon atoms of each molecule uniquely - how can I do this?", "How do I mutate a residue?","How do I mutate a terminal N or C residue?","How do I change the tautomeric form of Histidine in a structure?", "How do I mutate a residue?","How do I mutate a terminal N or C residue?","How do I mutate a residue?", "How do I mutate a terminal N or C residue?","Workspace Navigation","How can I select the closest residue from the center of mass of a selected residue?", "Making a Spherical Selection.","How to Work With Sequences and Alignments","How to Make a New Sequence", "Constructing a New Peptide","Load Sequence","Constructing a New Compound","Constructing New DNA or RNA", "Constructing a New Peptide","Constructing New Protein and Nucleic Acid Sequences", "Generate New Table","Constructing a New Compound","Constructing a New Compound", "Constructing New DNA or RNA","Constructing New Protein and Nucleic Acid Sequences", "Constructing New DNA or RNA","Writing a Script in GUI.","New Table","Generate New Table", "How do I read in all the structures in a PDB file of a protein solved by NMR?","Load and Display NMR Structures", "Generate Normal Mode Stack","Generate Normal Mode Stack","Introduction","Chemical View Options", "I downloaded and installed ICM. It seems to start fine. However it dies every time I try to open something, giving an NVIDIA error. NVIDIA: Could not open the device file /dev/nvidiactl (Permission denied).", "How to Drag and Drop","Reloading a Saved ICM Object when ICM is Running","Reloading a Saved ICM Object in Windows when ICM is not Running", "Protein Structure Tutorials","What does as_graph mean?","Converting PDB Files Into ICM Objects", "Insert Interactive Objects into Table Cell","Insert Interactive Objects into Table Cell", "Occlusion Shading","Occlusion Shading","PDB Preparation - Occupancy and B-Factors", "Occupancy Display","Occupancy Display","Protein Interface by ODA","Protein-Protein Interface Prediction", "Protein-Protein Docking","Determination of Protein-Protein Docking Interface","Determination of Protein-Protein Docking Interface", "Protein-Protein Docking Procedure","Save Project Compatible with ICM 3_5","Label Variables", "How can I display the dihedral angle?","Open","Open","Open","Reading a Table","Open with Password", "Movie Making","Open with Password","Protein Interface by ODA","Protein-Protein Interface Prediction", "Protein-Protein Docking","Determination of Protein-Protein Docking Interface","Protein-Protein Docking Procedure", "Optimize H,His,Asn,Gln,Pro","Optimize H,His,Asn,Gln,Pro","(Un)display Origin","I have the XYZ origin cross displayed - How can I undisplay this?", "Alignment and Table Selections","When I view my docking run my ligand never jumps into the box - what did I do wrong?", "I have multiple proteins overlayed and I would like to color the carbon atoms of each molecule uniquely - how can I do this?", "How do I superimpose two proteins?","How to Change ActiveICM Component Properties", "Crystallographic Neighbor","Crystallographic Neighbor","Pairwise APF Alignment/Superposition", "Flexible APF Superposition to Template","APF Tools","Parallelization","Parallelization", "Molcart Administration","Isis Draw Copy and Paste","Copy Cut and Paste Row","Running VLS Jobs in PBS UNIX Cluster Environment", "Principal Component Analysis","How to Extract a Sequence from a PDB Structure.", "Load","Searching the PDB","Query PDB by Ligand Code","How to Edit and Convert a Chemical from the PDB into an ICM Object", "Converting a Chemical from the PDB","Protein Structure Tutorials","I would like to have a local copy of the PDB - any advice?", "I would like to have a local copy of the NCBI Blast database- any advice?","How Do I renumber the residues in a PDB file", "Converting a Chemical from the PDB using the Graphical Display","Converting a Chemical from the PDB using the ICM Workspace", "How to write a pdb file?","Display PDB Header","PDB Preparation - Residue Alternative Orientation", "Searching the PDB","Hyperlinks to PDB Website and UniProt","Sensitive PDB Similarity Searches", "ICM Convert","ICM Convert","Recent PDB Codes","How to load a PDB Structure","PDB Search Tab", "PDB Search Results Table","PDB Search Results Table","PDB Search by Field","PDB Search by Homology", "PDB Search by Identity","PDB Search Results Table","PDB Search with External Seqeuence", "Constructing a New Peptide","Perspective","Perspective","Perspective","Pharmacophore Drawing and Searching", "Pharmacophore Draw 2D","Pharmacophore Draw 3D","Pharmacophore Search","Color Chemical Structure", "How to color a 2D chemical sketch by pharmacophore feature.","2D Pharmacophore Searching", "3D Pharmacophore Searching","Pharmacophore Draw 3D","Pharmacophore Draw 2D","Pharmacophore Draw 3D", "Pharmacophore Draw 2D","Pharmacophore Draw 3D","Pharmacophore Draw 3D","Pharmacophore Draw 3D", "Pharmacophore Drawing and Searching","Pharmacophore Search","3D Pharmacophore Searching", "2D Pharmacophore Searching","Label Variables","How can I display the dihedral angle?", "Phylogenetic Trees","Phylogenetic Trees","Making Basic Selections","Making Sequence Selections in the ICM Workspace", "Molecular Graphics","How to use the Graphics window controls","How to use the Graphics window controls", "How to Make a Picture","Quick Image","Insert Image","How to Make a Picture","Planar Angle", "Label Variables","Planar Angle","How can I display the dihedral angle?","Protein Structure Analysis", "Display Planar Angle","Mesh Clipping","Clipping Tools","Mesh Clipping","Mesh Clipping", "Graphic Layers","The front and back part of my structure have been clipped away how do I restore these regions in my display.", "I would like to create a movie wherein I \"walk\" through the molecule by moving the front clipping plane to the end. Can I write a loop that moves the clipping and generates an image after every step to generate my movie afterwards?", "How can I display a structure in many different representations simultaneously?", "How can I display a structure in many different representations simultaneously?", "Preferences","Plot Preferences","How to Plot Histograms and Scatterplots of VLS Data", "Plotting Table Data","Column Histogram","Plotting two columns","Plotting two columns", "Add a title to a plot","Change Axis Data","Change Mark Shape or Size","Change Mark Color", "Grid and Axis Display","Least Squares Fitting","Zoom, Translate and Center","Plot Selection", "Print Plot","Saving a Plot Image","Table Inline Plots","How to Generate Plots and Histograms", "How to make an X-Y scatter plot.","Change Axis Data","Change Mark Color","Tools Menu - Extras", "Plot Function","Grid and Axis Display","Add a title to a plot","Table Inline Plots", "Logarithmic Plots","Change Mark Shape or Size","Plot Preferences","Least Squares Fitting", "Plot Selection","Zoom, Translate and Center","Grid and Axis Display","Grid and Axis Display", "Grid and Axis Display","Table Inline Plots","Logarithmic Plots","Build Prediction Model", "Predict","Learn and Predict","Which score value should I use for analysis.","Quick Image", "Make High Quality Publication Images","Write Image","Insert Image","Saving Chemical Structures and Images", "Saving Chemical Images","How to Display a Binding Pocket Surface","icmPocketFinder", "How to Display the Ligand Binding Pocket Surface and Neighboring Residues.","Identfy Ligand Pockets", "Small Molecule Docking","How can I find out which residues are surrounding a ligand binding pocket?", "How do I display only the residues that surround the ligand binding pocket?","How do I identify the binding pockets in my receptor?", "How do I show the sequence conservation around the ligand binding site?","Pocket Display Options", "Post Screen Visualization (Post Screen Visualization}","How to Display a Binding Pocket Surface", "How to Display a Binding Pocket Surface","Image Preferences","Post Screen Analysis", "Image Preferences","VLS Preferences","Creating Fully Interactive Slides for PowerPoint and the Web Tutorial", "FAQ ActiveICM","Protein-Protein Docking Batch","Epitope Selection","Protein-Protein Make Receptor Maps", "Complex Refinement","Display Grid Docking Results","Protein-Protein Docking Procedure", "Protein-Protein Ligand Setup","Protein-Protein Set Project","Protein-Protein Receptor Setup", "How to Use ActiveICM in PowerPoint","Advanced use of activeICM: Macros to direct visualisation changes", "When using ActiveICM is there a way to set a RELATIVE path to an icb file rather than ABSOLUTE?", "Predict Secondary Structure","Build Prediction Model","Predict","Learn and Predict", "Predict","What is considered a good druglikeness value?","Is there a way to build a classification model using the APF output?", "Predict","Predict","Preferences","Preferences","I would like to have a local copy of the PDB - any advice?", "I would like to have a local copy of the NCBI Blast database- any advice?","Insert a Dialog Box", "ActiveICM","How to Use ActiveICM in PowerPoint","Molecular Animations, Slides, and Documents", "I have a small molecule which already has the 3D coordinates defined. How can I load the molecule and not optimize it so as to preserve the assigned 3D coordinates?", "Adding and rotating a fragment in molecular editor by clicking-holding-and-dragging.", "Preview and Export","Set Formal Charges","Principal Component Analysis","A little theory on learning", "Print Plot","Save and Print Tree","Print Plot","Image Preferences","When I setup the receptor I am asked to move a probe - what is this?", "Problem with stereo?","Troubleshooting","Defective graphics on a laptop or Windows computer with a low end graphics card.", "Extract from ICB","Protein-Protein Set Project","Set Project Name","Close Project", "Save Project As","Propogating a selection to all atoms in a residue.","Labeling Atoms", "Calculate Properties","I have a chemical table displayed - how can I add columns of chemical properties associated with each chemical in my table?", "Property Monitor","I have a chemical table displayed - how can I add columns of chemical properties associated with each chemical in my table?", "I have a small molecule displayed in 3D in a loaded PDB file. How can I extract this molecule into an ICM Chemical Table?", "What is considered a good druglikeness value?","I do not see the chemical property monitor in the molecular editor. Where is it?", "Post Screening Tools - Calculate Properties","Property Monitor","Protect Shell Objects From Deletion", "Protect Shell Objects From Deletion","Working with Sequences and Alignments","How can I merge two separate objects into one?", "Protein Health","Protein Health","Protein Health","Working with Protein Structures", "Protein Structure Analysis","Identify Closed Cavities","Contact Areas","Measure Distances", "Find Related Chains","Dihedral Angle","Planar Angle","Export Ramachandran Plot", "Ramachandran Plot Interactive","Calculate RMSD","Surface Area","Protein Structure Tutorials", "Protein Superposition","Select Proteins for Superposition","Superimpose by 3D","Arrange as Grid", "Superimpose Multiple Proteins","Protein Interface by ODA","Protein-Protein Interface Prediction", "Protein-Protein Docking","Determination of Protein-Protein Docking Interface","Protein-Protein Docking Procedure", "Protein-Protein Set Project","Protein-Protein Receptor Setup","Protein-Protein Ligand Setup", "Protein-Protein Make Receptor Maps","Protein-Protein Docking Batch","Display Grid Docking Results", "Complex Refinement","Epitope Selection","ICM Convert","ICM Convert","How do I change the tautomeric form of Histidine in a structure?", "Protein-Protein Docking","Property Monitor","Label Variables","How can I display the dihedral angle?", "Direct link to PubMed","Select by Purple 3D Box","How to Edit and Convert a Chemical from the PDB into an ICM Object", "How to Make an Alignment using Drag and Drop","How to Display Hydrogen Bonds","How to Convert a Chemical from the PDB using the Graphical Display", "Converting a Chemical from the PDB using the ICM Workspace","How to Display the Ligand Binding Pocket Surface and Neighboring Residues.", "Making Basic Selections","Making Sequence Selections in the ICM Workspace","How to Work With Sequences and Alignments", "How to Load a FASTA Format File","How to Download a SwissProt sequence","How to Make a New Sequence", "How to Extract a Sequence from a PDB Structure.","Build Prediction Model","Predict", "Build Prediction Model","Predict","Does ICM support quad-buffer stereo?","Write Image", "General Preferences","Build Model","How do I perform a chemical search","How do I make a new molcart database from a query search?", "How do I perform a text query on a database in MolCart?","Query Local Database", "Query PDB by Keyword or PDB Code","Query PDB by PDB Field","Query PDB by Ligand Code", "Query PDB by Sequence","Query Processing","Query Setup","How to Make a Picture", "How to remove chain breaks (dotted lines)","How to Move a Structure in the Graphical Display", "How to load a PDB Structure","How to Change Protein Representation","How to Make Selections", "How to Change the Selection Level and Mode","How to Make a Sequence Alignment","How to Check What is Selected", "Display Distance Between Two Atoms - the quick way","How to Color","Quit","Enumerate by Scaffold", "Chemical View Options","Convert to Racemic","Convert to Racemic","I am docking a racemic compound how can I sample both R and S states during docking?", "Making a Spherical Selection.","General Preferences","Display Rainbow, Box, Ruler", "Color Chemical Structure","Export Ramachandran Plot","Export Ramachandran Plot", "Protein Structure Analysis","Export Ramachandran Plot","Change Speed, Range and Cycle Length of Animation", "General Preferences","Re-Dock and Minimize Ligand","Generating Chemical Fragments", "Enumerate by Reaction","Enumerate by Reaction","Open","Reloading a Saved ICM Object when ICM is Running", "Recent Files","Searching the PDB","Loading Your PDB File","Load Sequence","Loading Chemical Structures", "Reading a Table","How to load a PDB Structure","PDB Search Results Table","How to Download a SwissProt sequence", "Working with Tables","Enumerate by Reaction","Mesh Clipping","Mesh Clipping","Recent Files", "Recent PDB Codes","Multiple Receptor 4D Docking","Protein-Protein Receptor Setup", "Epitope Selection","Multiple Receptor Conformation Ensemble Docking Example","I do not have ICM-VLS but I would like to calculate the binding energy of my docked complex - how can I do this?", "I want to dock to the receptor and include other molecules in the receptor such as a tightly bound water molecule - how can I do this?", "How can I run docking with a flexible receptor?","Multiple Receptor Docking","Receptor Considerations", "Display the receptor pocket surface","Display the receptor pocket surface","Display the ligand pocket surface", "Explicit Group Docking","Restore Recent Backup","Making Basic Selections","Making Sequence Selections in the ICM Workspace", "Redo","Redo","Undo and Redo","Regularization","Refine Side Chains","Refine Side Chains", "Epitope Selection","Least Squares Fitting","Learn","A little theory on learning", "Regularization","Regularization","Regularization","Regularization","Find Related Chains", "Learn and Predict","Docking Preferences","Introduction","Reloading a Saved ICM Object when ICM is Running", "Reloading a Saved ICM Object in Windows when ICM is not Running","Reload a Docking Project", "How do I reload a docking project?","Reload a Docking Project","Reloading a Saved ICM Object in Windows when ICM is not Running", "Reloading a Saved ICM Object when ICM is Running","How to remove chain breaks (dotted lines)", "If I have multiple graphical selections how can I remove one without losing the others?", "Can you suggest some ways to remove a selection completely?","I have the XYZ origin cross displayed - How can I undisplay this?", "How do I remove unwanted metal and counterions from an SDF file?","Standardize Table", "Standardize Table","Save Project As","How Do I renumber the residues in a PDB file", "Chemical Find and Replace","Find Best Replacement Group","Save Viewpoint","Font Preferences", "What does as_graph mean?","How do I change the tautomeric form of Histidine in a structure?", "How can I select the closest residue from the center of mass of a selected residue?", "PDB Preparation - Residue Alternative Orientation","Residue Content","How to make a selection by typing in the residue numbers?", "Propogating a selection to all atoms in a residue.","Bioinfo Menu","Bioinfo Menu", "Residue Content","How do I mutate a residue?","How do I mutate a terminal N or C residue?", "How to Display the Ligand Binding Pocket Surface and Neighboring Residues.","How can I find out which residues are surrounding a ligand binding pocket?", "Move and Resize Mesh","Advanced Image Options.","Query PDB by PDB Field","Restore Recent Backup", "Mesh Clipping","Mesh Clipping","Restoring font size and other GUI parameters on MAC : molsoft.com.plist", "Restore Recent Backup","Display Grid Docking Results","Docking Results - View Stack Conformations", "Review and adjust binding site","Enumerate by Scaffold","How to remove chain breaks (dotted lines)", "Ribbon Preferences","Display Tab","Structure Representation","Ribbon Representation", "Some structures are displayed as noodles (the \"worm\" representation). Why are they displayed improperly?", "How to remove the dotted lines in chain breaks.","How to make a transparent ribbon?", "Some structures are displayed as noodles (the \"worm\" representation). Why are they displayed improperly?", "Ribbon Preferences","Ribbon Preferences","Ribbon Representation","Ribbon Representation", "Ribbon Representation","Ribbon Representation","Ribbon Preferences","How to: Right Click Options", "How to: Right Click Options","Substructure Superposition","Rigid Substructure Superposition", "Rigid Superposition of Compounds in a Table onto a Template in The Graphical Display", "Right Click Options","Query Setup","Chemical View Options","Generate 3D Conformers", "Substructure Superposition","RMSD","RMSD","Protein Structure Analysis","Calculate RMSD", "How can I calculate the RMSD between two protein structures?","Can you give me some tips on which options to use for RMSD calculations?", "Animate View","Animate View","Molecular Animations, Slides, and Documents","Molecular Animations and Transitions", "Make Animation","Rock","Change Speed, Range and Cycle Length of Animation","How can I calculate the RMSD between two protein structures?", "RMSD","Calculate RMSD","How to Move a Structure in the Graphical Display","Animate View", "Molecular Graphics","Animate View","Molecule Move Buttons","Rotation","Custom Rotation", "Molecular Animations, Slides, and Documents","Molecular Animations and Transitions", "Make Animation","Rotate","Rotate Chemical for Best-Fit","How to rotate a 2D chemical sketch so it fits nicely in its cell in a chemical table?", "Rotate Chemical for Best-Fit","Adding and rotating a fragment in molecular editor by clicking-holding-and-dragging.", "Easy Rotate","Change Speed, Range and Cycle Length of Animation","Adding and rotating a fragment in molecular editor by clicking-holding-and-dragging.", "How to use the Graphics window controls","Rotation","Working with Tables","Change Column and Row Width", "Copy Cut and Paste Row","Mark and Select Rows","Mark a Row","Mark a Row","How to show and hide columns and rows in a chemical spreadsheet.", "How to show and hide columns and rows in a chemical spreadsheet.","Display Rainbow, Box, Ruler", "How can I run the docking simulation from the command line?","FAQ ActiveICM","How to remove salts, explicit hydrogens and standardize chemical groups.", "Substructure Superposition","Docking Preferences","Docking Preferences","Save Mesh", "Write Image","Saving an Animation","Saving a Plot Image","Save and Print Tree","ICM and AutoSave", "Save and Append Chemical Structures","How to Save Ligand Receptor Complex as PDB", "Write Image","Saving a Plot Image","How to Save Ligand Receptor Complex as PDB", "How to Save an ICM Object","Save, Print and Delete","How to Save an ICM Project File", "How to Edit Slides","How to Edit Slides","Save a Table","Save and Print Tree","How to Make a Picture", "Write Image","How to Save an ICM Object","Save with Password","Write Image","How to Save an ICM Project File", "Save Project","Save Project As","Save Project Compatible with ICM 3_5","Table View Save", "Save Project","Save Project","Align/Color by 2D Scaffold","General Preferences", "Docking Results - Scan Hits","Docking Results - Scan Hits","How to Plot Histograms and Scatterplots of VLS Data", "To construct a scatterplot of your VLS data","VLS Results","Some compounds are missing from my HITLIST.", "What constitutes a good docking score?","Why is there always a small difference between the score calculated interactively by scanScoreExternal and that obtained by docking (VLS)?", "VLS Preferences","APF Tools","Ligand Docking Tutorials","Virtual Ligand Screening to Ricin Receptor", "Virtual Ligand Screening","Virtual Ligand Screening","VLS Getting Started","Induced Fit (Flexibility) Docking Tutorials", "Movie Making","Screen-grabbing Movie","Writing a Script in GUI.","Writing a Script in GUI.", "Insert Script","Insert a Dialog Box","How do I write a script to calculate solvent-accessible surface and tabulate the results to show area for each residue in a protein?", "FAQ-Script","How can I write a script in the Graphical User Interface?","I am having problems with my ICM script when running from the unix command line.", "How do I use the Dollar $ in ICM Scripts?","Color Chemical Structure","Saving Chemical Structures and Images", "Saving from a chemical table.","Saving Chemicals in the Molecular Editor","Saving Chemicals in the ICM Workspace", "Saving Chemical Images","Molcart","Convert 2D to 3D","How to make a local database.", "Virtual Ligand Screening to Cyclooxygenase","How can I download the MolCart vendor compounds provided by MolSoft?", "I have a database in MolCart and I want to save it in SDF format - how can I do this?", "Query PDB by Ligand Code","Molcart","Molcart Search","Browse Database","How do I perform a text query on a database in MolCart?", "Filter Search","Search in Workspace","Query PDB by Sequence","Query PDB by PDB Field", "Search in Workspace","Set Formal Charges","Assign Helices and Strands","Assign Helices and Strands", "How do I color a structure by secondary structure?","Predict Secondary Structure", "Bioinfo Menu","Ribbon Representation","Bioinfo Menu","Working with Tables","Mark and Select Rows", "How can I select the closest residue from the center of mass of a selected residue?", "Tree Selection","Selecting Amino Acids","Molecular Editor Selections","Select Duplicates", "Selecting Neighbors","Selecting Neighbors: Graphical","Selecting the Whole Object", "Display and Select Proteins for Superposition","Tree Selection","How to Make Selections", "How to Change the Selection Level and Mode","How to Check What is Selected","How to Make Selections", "How to Change the Selection Level and Mode","How to Check What is Selected","How to Make Selections", "How to Change the Selection Level and Mode","How to Check What is Selected","Select by Purple 3D Box", "How to Make Selections","How to Change the Selection Level and Mode","How to Check What is Selected", "How to Make Selections","How to Change the Selection Level and Mode","How to Check What is Selected", "Select All","Selecting Neighbors: Graphical","Plot Selection","Tree Selection","Tree View", "Graphical Selections Tutorial","Making Basic Selections","Making Sequence Selections in the ICM Workspace", "How do I specify a particular color for only the carbon atoms of a molecules?","If I have multiple graphical selections how can I remove one without losing the others?", "Can you suggest some ways to remove a selection completely?","What does as_graph mean?", "How can I select only the backbone atoms?","How to check on the display status of an object in the command line.", "I would like to delete all the residues in my protein except for the ones surrounding the ligand binding pocket.", "How do I display the distance between two atoms?","How can I select the closest residue from the center of mass of a selected residue?", "I want to dock to the receptor and include other molecules in the receptor such as a tightly bound water molecule - how can I do this?", "Clear Selection","Neighbor Selection","Graphical Selections","Alignment and Table Selections", "Select All","Altering a Selection","Selecting Amino Acids","Graphical Selections", "Selection","Basic Selections","Altering a Selection","Clear Selection","Making Table Selections", "Filter Selection","Selection","Filtering a Selection.","Graphical Selections","Selecting Neighbors: Graphical", "Invert Selection","Making Table Selections","Graphical Selections","Selection Level", "Selection Mode","Neighbor Selection","Selecting Neighbors","Selecting Neighbors: Workspace", "Selection","Neighbor Selection","Selecting the Whole Object","Alignment and Table Selections", "Graphical Selections","Selection","Making Table Selections","Selection","Propogating a selection to all atoms in a residue.", "Making Table Selections","Selecting Neighbors","Neighbor Selection","Making a Spherical Selection.", "Display and Select Proteins for Superposition","Select Proteins for Superposition", "Alignment and Table Selections","Making Table Selections","Making Table Selections", "Graphical Selections","Selection Tools","Basic Selections","Altering a Selection", "Filter Selection","Selecting the Whole Object","Workspace Selections","Selecting Neighbors: Workspace", "Invert Selection","Making Selections","Link to Structure","Selecting Neighbors: Workspace", "How to Download a SwissProt sequence","How to Load a FASTA Format File","How to Make a New Sequence", "How to Extract a Sequence from a PDB Structure.","How to Make an Alignment using Drag and Drop", "Bioinfo Menu","Query PDB by Sequence","Uniprot Sites","Working with Sequences and Alignments", "Load Sequence","Bioinfo Menu","Multiple Sequence Alignment","Build Model","Sequence and Alignment Tutorials", "Protein Structure Tutorials","How do I show the sequence conservation around the ligand binding site?", "Bioinfo Menu","Phylogenetic Trees","Sequence to Structure alignment","Set Sequence Type", "Set Sequence Type","How to Make a Sequence Alignment","Align Two Sequences","Drag and Drop", "Set Sequence Type","Set Sequence Type","Sequence Search and Align","Sequence to Structure alignment", "How to Work With Sequences and Alignments","Searching the PDB","Working with Sequences and Alignments", "I would like to have a local copy of the NCBI Blast database- any advice?","Extract Unique Sequences", "Extract Unique Sequences","Extract Unique Sequences","Set Chemical Table 3D Browse Mode", "How do I set a formal charge?","Set Formal Charges","Edit Structure","Edit Structure", "MMFF","MMFF","Edit Structure","Edit Structure","Making a disulfide bond.","How do I make a disulfide bond?", "Edit Structure","Edit Structure","Edit Structure","Edit Structure","Edit Structure", "Edit Structure","MMFF","MMFF","Is there a way to build a classification model using the APF output?", "Protein-Protein Ligand Setup","When I setup the receptor I am asked to move a probe - what is this?", "Setup Ligand and Receptor","Shading and Boxing an Alignment","Occlusion Shading", "Shadows","How do I color a structure by secondary structure?","Shell Preferences", "Labeling Residues","General Preferences","Light Tab","Graphics Preferences","View Slide Show", "Hide and Show Columns","Hide and Show Columns","Chemical Table Side-by-Side View", "Chemical Table Side-by-Side View","Side-by-Side Stereo","Refine Side Chains","Complex Refinement", "Ligand and Receptor Complex Refinement","Contour Electron Density Map","Convert Xray Density to Grid", "Contour Electron Density Map","Convert Xray Density to Grid","Find Related Chains", "Compare Two Sets","How do I view a stack of solutions after a simulations?","FAQ-Simulations", "Editing structure using keyboard","Uniprot Sites","Sketch Accents","Sketch Accents", "Sketch Accents","Display Tab","Structure Representation","Skin Representation","How can I change the color of a grob atom based surface according to the underlying atom coloring scheme?", "Mesh Clipping","Mesh Clipping","Clipping Tools","Saving an Animation","View Slide Show", "How to Add Text or Edit a Molecular Document","How do I set a blend transition effect between two slides?", "How to Add Smooth Blending and Transition Effects Between Slides","Slide Navigation", "Slide Navigation","How to View and Navigate Slides","How to Add Smooth Blending and Transition Effects Between Slides", "Edit Slide","How to Add Smooth Blending and Transition Effects Between Slides","How to Add Smooth Blending and Transition Effects Between Slides", "How to Add Smooth Blending and Transition Effects Between Slides","Molecular Animations, Slides, and Documents", "Making Slides","How to View and Navigate Slides","What is an iSee File?","Loading Chemical Structures", "Property Monitor","Calculate Properties","Convert","Convert Smiles to 2D","Convert Structure to Smiles", "How do I write a script to calculate solvent-accessible surface and tabulate the results to show area for each residue in a protein?", "Sorting the compounds in your HITLIST","Sort Table","Sorting the compounds in your HITLIST", "Data Clustering","Light Tab","What are the minimum specifications to run ICM on my computer?", "What are the minimum specifications to run ICM on my computer?","Change Speed, Range and Cycle Length of Animation", "sphere","sphere","How do I display only the residues that surround the ligand binding pocket?", "I would like to delete all the residues in my protein except for the ones surrounding the ligand binding pocket.", "How do I show the sequence conservation around the ligand binding site?","Making a Spherical Selection.", "R-Group Decomposition","3D to 2D Depiction","How can I calculate the RMSD between two protein structures?", "Set Sequence Type","Viewing Your Docking Results","Display Grid Docking Results", "How do I view a stack of solutions after a simulations?","Standard ICM Tables","Standardize Table", "Standardize Table","Molcart Getting Started","Small Molecule Docking","I am having problems with my ICM script when running from the unix command line.", "Can you give me some tips on which options to use for RMSD calculations?","Image Preferences", "Chemical View Options","Stereo Hardware Questions","Does ICM support quad-buffer stereo?", "Problem with stereo?","Hardware Stereo","Side-by-Side Stereo","Stereo Hardware Questions", "Convert to Racemic","Generate Stereoismers","General Preferences","Still","Interrupt Animation", "Save Viewpoint","Saving an Animation","How can I store a view and return to it later?", "Save Viewpoint","How can I store a view and return to it later?","Protein Health", "Protein Health","I would like to delete all the residues in my protein except for the ones surrounding the ligand binding pocket.", "Biomolecule Generator","Biomolecule Generator","Learn and Predict","Protein Structure Tutorials", "FAQ Structure","Generate Normal Mode Stack","Generate Normal Mode Stack","Structure Representation", "Convert Structure to Smiles","How to Display a Molecule","How to Display a Molecule", "Searching the PDB","Cheminformatics","Reading Chemical Structures","General Preferences", "Find and Replace","Molcart Search","Annotate By Substructure","How do I perform a chemical search", "How do I make a new molcart database from a query search?","Annotate By Substructure", "How do I write a script to calculate solvent-accessible surface and tabulate the results to show area for each residue in a protein?", "Making a disulfide bond.","Tools Menu - Superimpose","Superimpose Button","Superimpose Button", "Superimpose Button","I have multiple proteins overlayed and I would like to color the carbon atoms of each molecule uniquely - how can I do this?", "How do I superimpose two proteins?","How can I calculate the RMSD between two protein structures?", "Can you give me some tips on which options to use for RMSD calculations?","Proteins by 3D", "Arrange as Grid","Multiple Proteins","Proteins by 3D","Superimpose by 3D","Proteins by 3D", "Superimpose by 3D","Arrange as Grid","Arrange as Grid","Proteins by 3D","Superimpose by 3D", "Flexible Substructure Superposition","Proteins by 3D","Superimpose by 3D","Multiple Proteins", "Superimpose Multiple Proteins","Rigid Superposition of Compounds in a Table onto a Template in The Graphical Display", "Rigid Substructure Superposition","Rigid Superposition of Compounds in a Table onto a Template in The Graphical Display", "Rigid Substructure Superposition","Flexible Substructure Superposition","Substructure Superposition", "Pairwise APF Alignment/Superposition","Flexible APF Superposition to Template","General Preferences", "Display Tab","Structure Representation","Surface Representation","Meshes - Surface - Grobs", "How can I change the color of a grob atom based surface according to the underlying atom coloring scheme?", "Surface Area","Protein Structure Analysis","Surface Area","Surface Area","Surfaces", "How to Display the Ligand Binding Pocket Surface and Neighboring Residues.","How do I display only the residues that surround the ligand binding pocket?", "How to Download a SwissProt sequence","Load Sequence","Crystallographic Neighbor", "Biomolecule Generator","Crystallographic Neighbor","Biomolecule Generator","Protein Preparation and Crystallographic Analysis Tutorial", "PDB Preparation - Symmetry","Crystallographic Neighbor","Reading a Table","Save a Table", "PDB Search Tab","Display and Convert Molecule","Copy Molecule","Chemical View Options", "Zoom, Translate and Z-rotate a Chemical in a table.","Set Chemical Table 3D Browse Mode", "Rotate Chemical for Best-Fit","Color Chemical Structure","3D to 2D Depiction","Generate 3D Conformers", "Rigid Superposition of Compounds in a Table onto a Template in The Graphical Display", "Working with Tables","Copy Cut and Paste Row","Column Format and Custom Actions", "Mark and Select Rows","Plotting Table Data","Column Histogram","Plotting two columns", "Add a title to a plot","Change Axis Data","Change Mark Shape or Size","Change Mark Color", "Grid and Axis Display","Least Squares Fitting","Zoom, Translate and Center","Plot Selection", "Print Plot","Cluster","How do I write a script to calculate solvent-accessible surface and tabulate the results to show area for each residue in a protein?", "How can I change the layout of a chemical table?","How can I convert a chemical in a chemical table into 3D?", "I have a chemical table displayed - how can I add columns of chemical properties associated with each chemical in my table?", "I have a small molecule displayed in 3D in a loaded PDB file. How can I extract this molecule into an ICM Chemical Table?", "Table Alignment","Clone a Table","Table Color","Column Format and Custom Actions", "Copy Cell","Copy Selection to an ICM Table","Delete a Table","Editing a Table","Editing a Table", "Table Filtering and Appending","Table Search","Chemical Find and Replace","Table Font", "How to change font size in html-documents, alignments, terminal, table, graphics?", "Table View (Grid Layout)","Column Histogram","Inserting Columns","Table View (Grid Layout)", "Mark a Row","Mark a Row","Mouse and Cursor Actions on a Table","Basic Table Navigation", "New Table","Inserting Columns","Plotting Table Data","Print a Table","Rename a Table", "Table right click options","Saving a table","Saving a table","Table Search","Table Search", "Making Table Selections","Page Setup","Table Sorting","Split Chemical(s) into Fragments", "Table View (Grid Layout)","Table View (Grid Layout)","Table View Save","Zoom, Translate and Z-rotate a Chemical in a table.", "Mouse and Cursor Actions on a Table","Table Alignment","Table Filtering and Appending", "Clone a Table","Table Color","How to add columns into a chemical spreadsheet.","Inserting Columns", "Column Statistics","Hide and Show Columns","How to show and hide columns and rows in a chemical spreadsheet.", "How to compare two chemical spreadsheets.","How to copy, cut and paste columns and rows in a chemical spreadsheet.", "Mouse and Cursor Actions on a Table","Table right click options","Delete a Table", "Is there a way to determine the name of the current table displayed GUI?","Mouse and Cursor Actions on a Table", "How to edit data inside a chemical spreadsheet.","How to export your chemical spreadsheet into Excel.", "Export to Excel","Export to Excel","Export to Excel","How to filter columns in a chemical spreadsheet.", "Table Filtering and Appending","How to use find and replace in a chemical spreadsheet.", "Basic Table Navigation","Table Font","Is there a way to determine the name of the current table displayed GUI?", "Basic Table Navigation","Hide and Show Columns","How to insert hyperlinks to the PDB, PubMed, and Uniprot.", "Inserting Rows","Merge Two Sets","How to mark and label rows in a chemical spreadsheet.", "Page Setup","How to mark and label rows in a chemical spreadsheet.","Merge Two Sets", "How to merge two chemical spreadsheets.","Merge Two Sets","Mouse and Cursor Actions on a Table", "Rename a Table","Generate New Table","Table right click options","Page Setup","Page Setup", "How to print a chemical spreadsheet.","Basic Table Navigation","Print a Table","Reading a Table", "Rename a Table","Table right click options","Inserting Rows","Append Rows","How to save a chemical spreadsheet in sdf format.", "Saving a table","Basic Table Navigation","Save a Table","Page Setup","Basic Table Navigation", "How to save a chemical spreadsheet in sdf format.","Making Table Selections","Page Setup", "Sort Table","How to sort a column(s) in a chemical spreadsheet.","Table Sorting", "Standard ICM Tables","How to change the view of a chemical spreadsheet - form, table and grid.", "Chemical Table Side-by-Side View","Basic Table Navigation","Compare Two Sets","Working with Tables", "Generate Tautomers","How do I change the tautomeric form of Histidine in a structure?", "Generate Tautomers","Local Flexibility","Local Flexibility","Build Model","Substructure Superposition", "How can I guide my docking to a known conformation of a smilar ligand?","Chemical View Options", "How to change font size in html-documents, alignments, terminal, table, graphics?", "Font Preferences","How to Make Molecular Documents - Link HTML Text to Slides","How to Add Text or Edit a Molecular Document", "Document Navigation","Chemical View Options","Molcart Search","How do I perform a text query on a database in MolCart?", "Search a Database by Text","Meshes Tab","Generate 3D Conformers","Substructure Superposition", "What does thoroughness mean?","Display and Convert Molecule","I have a small molecule which already has the 3D coordinates defined. How can I load the molecule and not optimize it so as to preserve the assigned 3D coordinates?", "General Preferences","How to Move Windows","How to Move Windows","How long does it take to dock one ligand using ICM-VLS?", "Convert","Tools Menu - 3D Predict","Tools Menu - Analysis","Append Rows","Tools Menu - Extras", "Plot Function","icmPocketFinder","Protein Interface by ODA","Tools Menu - Superimpose", "Tools Menu - Table","Build Prediction Model","Cluster Set","Merge Two Sets","Predict", "Torsion Angles","How can I change the torsion angle?","Molecule Move Buttons","Torsion Angles", "How do I set a blend transition effect between two slides?","Molecular Animations, Slides, and Documents", "What is an iSee File?","How to Move a Structure in the Graphical Display","Molecular Graphics", "Molecule Move Buttons","Zoom, Translate and Z-rotate a Chemical in a table.","How to use the Graphics window controls", "Translation","Translation","Six Frame Translation","Zoom, Translate and Center", "Color and Mesh Display","Advanced Image Options.","How to make a transparent ribbon?", "Phylogenetic Trees","Phylogenetic Trees","Tree Selection","Save and Print Tree", "Tree View","Phylogenetic Trees","How to reorder branches and change the distance of trees.", "How to edit the tree - labels, spacing and coloring.","How to reorder branches and change the distance of trees.", "ICM graphics crashes.","Defective graphics on a laptop or Windows computer with a low end graphics card.", "Troubleshooting","How to truncate a mesh object?","ICM crashes, or hangs if you are trying to start the Chemical Editor, or a Query window", "Save a Table","PDB Preparation - Residue Alternative Orientation","PDB Preparation - Occupancy and B-Factors", "PDB Preparation - Symmetry","How to display hydrogen bonds between a ligand and receptor.", "Multiple Receptor Conformation Ensemble Docking Example","PDB Searching","Converting a PDB File into an ICM Object", "Homology Modeling Tutorials","Homology Modeling","Biomolecule Generator","Draw Chemical", "Chemical Similarity Searching","Advanced Chemical Similarity Searching","Ligand Docking Tutorials", "Re-Dock Biotin to the Streptavidin Receptor","Re-Dock an Inhibitor to Ricin Crystal Structure", "Virtual Ligand Screening to Ricin Receptor","Virtual Ligand Screening to Cyclooxygenase", "2D Pharmacophore Searching","3D Pharmacophore Searching","Chemical Searching","Edit Chemical", "Graphical Selections Tutorial","Creating Fully Interactive Slides for PowerPoint and the Web Tutorial", "Sequence and Alignment Tutorials","Linking Sequence Alignment to Structure","Display and Superimpose Protein Kinase Structures in Preparation for the Tutorial", "Identify Sequence Conservation in Ligand Binding Pocket","Tutorials","Tween","Display and Convert Molecule", "I have a small molecule which already has the 3D coordinates defined. How can I load the molecule and not optimize it so as to preserve the assigned 3D coordinates?", "Mesh Clipping","Mesh Clipping","How to use the ICM Workspace Panel","Display and Undisplay Hydrogens", "I have the XYZ origin cross displayed - How can I undisplay this?","How to check on the display status of an object in the command line.", "(Un)display Origin","Preferences","Undo","Undo","Undo and Redo","Undo and Redo", "How to Download a SwissProt sequence","Uniprot Sites","Uniprot Sites","Chemical View Options", "Select Duplicates","Biomolecule Generator","Biomolecule Generator","What are the units of the energy values displayed after docking?", "I am having problems with my ICM script when running from the unix command line.", "Introduction","How to Use ActiveICM in PowerPoint","Introduction","Molcart Administration", "A dictionary of chemical groups.","Undisplay All","Display Clash","Font Preferences", "What does as_graph mean?","Generate 3D Conformers","Generate 3D Conformers","Movie Making", "Movie Making","Save Viewpoint","View Slide Show","Chemical View Options","How can I store a view and return to it later?", "How do I view a stack of solutions after a simulations?","Animate View","Center", "Color Background","Viewing Your Docking Results","Fog","Macro Shape","View Menu", "Mesh Clipping","Perspective","Selection Level","Selection Mode","Shadows","Sketch Accents", "View Slide Show","View Menu","Tree View","Undisplay All","Stack","Stack","Virtual Ligand Screening", "Virtual Ligand Screening","VLS Getting Started","Ligand Docking Tutorials","Virtual Ligand Screening to Ricin Receptor", "Virtual Ligand Screening Tutorials","Biomolecule Generator","Biomolecule Generator", "Induced Fit (Flexible) Docking","Explicit Group Docking","Virtual Ligand Screening", "Run VLS in the Graphical User Interface","Post Screening Tools - Calculate Properties", "Virtual Ligand Screening to Cyclooxygenase","Some compounds are missing from my HITLIST.", "What constitutes a good docking score?","Post Screening Tools - Calculate Properties", "Hitlist Result Display","VLS Getting Started","To construct a histogram of your VLS data", "How to Plot Histograms and Scatterplots of VLS Data","Virtual Ligand Screening", "VLS Preferences","VLS Results","Run VLS in the Graphical User Interface","To construct a scatterplot of your VLS data", "Post Screen Visualization (Post Screen Visualization}","VLS Results","Property Monitor", "Meshes Tab","Save Mesh","How do I display weak hydrogen bonds?","Creating Fully Interactive Slides for PowerPoint and the Web Tutorial", "Export as ActiceICM Html","Calculate Properties","I have a chemical table displayed - how can I add columns of chemical properties associated with each chemical in my table?", "I do not see the chemical property monitor in the molecular editor. 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