Aug 4 2022 Feedback.
Contents
 
Help Videos
Reference Guide
Getting Started
Protein Structure
Molecular Graphics
Slides & ActiveICM
Cheminformatics
Learn and Predict
MolScreen
3D Ligand Editor
Tables and Plots
Local Databases
KNIME
Tutorials
 
Index

Index

2D, 5.8.8, 7.3.24, 7.3.28, 7.14, 7.17.2, 7.17.4FTP.createFile, 3.7.11
     Interaction Diagram, 10.3.7     keep File, 3.7.11
     bioisostere, 7.9.1     proxy, 3.7.11
     from PDB, 7.1.1Filter.zip, 3.7.2
     screening, 9Force Auto Bond Typing, 3.7.11
     to 3D, 7.17, 7.17.3Free Wilson, 7.33.2
     depiction, 7.17.2GIF, 2.6.1.15, 5.16, 5.16.2
3D, 5.6, 5.8.8, 7.1.3, 7.3.24, 7.3.28, 7.3.31, 7.17.2, 14.2GRAPHIC.store Display, 3.7.3
     QSAR, 7.36.4, 8.4, 14.8     NtoC Rainbow, 3.7.4
     chemical, 7.4.16, 7.17.1     alignment Rainbow, 3.7.4
     interactive ligand editor, 2.7.5     atomLabelShift, 3.7.7
     ligand editor, 10.3.4     ballStickRatio, 3.7.1
     object, 5.3.9     center Follows Clipping, 3.7.3
     pharmacophore, 10.3.11     clash Style, 3.7.3
     print, 5.7     clashWidth, 3.7.3
     printing, 5.7     clip Grobs, 3.7.3
     screening, 9          Skin, 3.7.3
     stereo, 5.6          Static, 3.7.3
3DQsar, 8.4     discrete Rainbow, 3.7.4
3Dqsar tutorial, 14.8     displayLineLabels, 3.7.7
     bioisostere, 7.9.2     displayMapBox, 3.7.3
     predict local flexibility, 4.5.13     distance Label Drag, 3.7.1
          protein health, 4.5.12     dnaBallRadius, 3.7.9
          tools identify ligand binding pocket, 4.5.15     dnaRibbonRatio, 3.7.9
               oda, 4.5.14     dnaRibbonWidth, 3.7.9
4D dock, 10.16     dnaRibbonWorm, 3.7.9
     docking, 3.2.2     dnaStickRadius, 3.7.9
APF, 7.35.3, 7.36.4, 8.4, 9, 9.6, 14.8     dnaWormRadius, 3.7.9
     template, 7.35     font Scale, 3.7.7
ActiveICM, 2.6.1.12     fontColor, 3.7.7
Atom Single Style, 3.7.3     fontLineSpacing, 3.7.7
Atomic Property Fields, 8.4, 14.8     grobLineWidth, 3.7.3
Baell, 7.4.9     hbond Ball Period, 3.7.1
Beep, 3.7.11               Style, 3.7.1
BlastDB Directory, 3.7.2     hbondAngleSharpness, 3.7.1
     alphas, 5.8.3     hbondMinStrength, 3.7.1
COLLADA, 2.6.1.7     hbondStyle, 3.7.1
CPK, 2.7.1     hbondWidth, 3.7.1
ChEMBL, 3.2.3, 7.1     hetatmZoom, 3.7.1
Chemical Cluster, 14.4.3     hydrogenDisplay, 3.7.1
     Search, 14.4.2     light, 3.7.3
Clash Threshold, 3.7.10     lightPosition, 3.7.3
DNA, 3.3     mapLineWidth, 3.7.3
Decomposition, 7.33.3     occupancy Radius Ratio, 3.7.3
Dock Directory, 3.7.2     occupancyDisplay, 3.7.3
Drug Bank, 3.2.8     quality, 3.7.3
Editor, 3.7.2     rainbow Bar Style, 3.7.4
FILTER.Z, 3.7.2     resLabelDrag, 3.7.7
     gz, 3.7.2     resize Keep Scale, 3.7.3
     uue, 3.7.2     ribbonRatio, 3.7.9
     ribbonWorm, 3.7.9     lineWidth, 3.7.6
     rocking, 3.7.4     lineWidth2D, 3.7.6
          Range, 3.7.4     orientation, 3.7.6
          Speed, 3.7.4     paper Size, 3.7.6
     selectionStyle, 3.7.3     previewResolution, 3.7.6
     site Label Drag, 3.7.7     previewer, 3.7.6
               Shift, 3.7.7     print, 3.7.6
     siteArrow, 3.7.7     printerDPI, 3.7.6
     stereoMode, 3.7.3     scale, 3.7.6
     stickRadius, 3.7.1     stereoAngle, 3.7.6
     surfaceDotDensity, 3.7.3     stereoBase, 3.7.6
     surfaceDotSize, 3.7.3     stereoText, 3.7.6
     surfaceProbeRadius, 3.7.3INCHI, 7.17.3
     transparency, 3.7.3IQR, 11.4.6
     wire Width, 3.7.1Icm Prompt, 3.7.10
     wormRadius, 3.7.9InChi, 7.3.20, 7.4.12, 7.17.3
     xstick Backbone Ratio, 3.7.1     key, 7.3.20
          Hydrogen Ratio, 3.7.1Interaction Diagram 2D, 10.3.7
          Style, 3.7.1     Directory, 3.7.2
          Vw Ratio, 3.7.1JPEG, 2.6.1.15
GROB.arrowRadius, 3.7.3KMZ, 2.6.1.7
     atomSphereRadius, 3.7.3Log Directory, 3.7.2
     contourSigmaIncrement, 3.7.3LogP, 8, 11.6
     relArrow Size, 3.7.3LogS, 8, 11.6
     relArrowHead, 3.7.3MOL, 7, 7.3.3, 7.3.24, 7.3.25, 7.3.26, 7.3.27, 11.2
GUI.auto Save, 3.7.4MOLT, 12.1
               Interval, 3.7.4MOVIE.frame Grab Mode, 3.7.4
     enumberation Memory Limit, 3.7.11MPO, 7.31
     max Nof Recent Files, 3.7.11Map Atom Margin, 3.7.10
          Sequence Length, 3.7.4     Sigma Level, 3.7.10
     splash Screen Delay, 3.7.11Markush, 14.4.9
               Image, 3.7.11     create, 14.4.7
     table Row Mark Colors, 3.7.4     File Size Mb, 3.7.11
     workspace Folder Style, 3.7.4Max_Fused_Rings, 7.11
     workspaceTabStyle, 3.7.4Mnconf, 3.7.10
HTTP.proxy, 3.7.11Model, 8.4
     support Cookies, 3.7.11MolPSA, 7.11
     user Agent, 3.7.11MolScreen, 9
Hbonds, 10.3.4MolVol, 7.11
How To Guide, 2Molcart, 7.5.3
Html, 3.2.1.6MoldHf, 7.11
Http Read Style, 3.7.11Movie.fade Nof Frames, 3.7.4
Hydrogen.bond, 3.7.5     quality, 3.7.4
ICM Browser How To, 2.1          Auto, 3.7.4
          Pro How To, 2.2Nof_Atoms, 7.11
IMAGE.bondLength2D, 3.7.6Nof_Chirals, 7.11
     color, 3.7.6Nof_HBA, 7.11
     compress, 3.7.6Nof_HBD, 7.11
     gammaCorrection, 3.7.6Nof_Rings, 7.11
     generateAlpha, 3.7.6Nof_RotBonds, 7.11
PAINS, 7.4.9, 7.11.3SALI, 7.33.5, 14.4.11
     chemica, 7.4.9SAR, 8, 9.6, 11.4.25, 11.6
PCA, 8.1, 8.5, 14.4.4     table, 7.33.3, 14.4.9
     analysis, 7.26SDF, 7, 7.3.24, 7.3.25, 7.3.26, 7.3.27, 11.2
PDB, 3.2.1.6, 4.1.2, 4.3.3, 7.1.1, 10.19SEQUENCE.site Colors, 3.7.4
     Directory, 3.7.2SITE.label Style, 3.7.7
          Style, 3.7.2     labelOffset, 3.7.7
     link, 11.1.40     wrap Comment, 3.7.7
     Search, 2.6.2.12, 2.6.2.13, 2.6.2.14, 2.6.2.15, 2.6.2.16SLIDE.ignore Background Color, 3.7.4
          Field, 2.6.2.13          Fog, 3.7.4
          Homology, 2.6.2.15SMILES, 7.1.2, 7.2.4, 7.4.12
          Identity, 2.6.2.14Select Min Grad, 3.7.10
          Sequence, 2.6.2.16Show Res Code In Selection, 3.7.7
     convert, 4.1.2SureChEMBL, 3.2.4
PFAM, 2.6.1.7Swissprot, 2.6.1.7
PLOT.Yratio, 3.7.8     Dat, 3.7.2
     color, 3.7.8     link, 11.1.40
     date, 3.7.8Temp Directory, 3.7.2
     draw Tics, 3.7.8USER.email, 3.7.11
     font, 3.7.8     friends, 3.7.11
     fontSize, 3.7.8     full Name, 3.7.11
     labelFont, 3.7.8     organization, 3.7.11
     lineWidth, 3.7.8     phone, 3.7.11
     logo, 3.7.8Uniprot, 11.1.40
     markSize, 3.7.8Van Drie, 7.33.5
     orientation, 3.7.8     Label Style, 3.7.7
     paper Size, 3.7.8Water Radius, 3.7.10
     previewer, 3.7.8Wilson, 7.33.2
     rainbowStyle, 3.7.8Wire Style, 3.7.1
     seriesLabels, 3.7.8XPDB Directory, 3.7.2
PLS, 8.1Xstick, 2.7.1
PNG, 2.6.1.15, 3.1.14, 5.16, 5.16.2a-bright, 2.7.2
Projects Directory, 3.7.2about model, 8.1.1
Prosite Dat, 3.7.2acceptor, 7.4.9, 7.36.1
     Viewer, 3.7.2active, 6.7
Pub Chem, 3.2.9activeICM, 6.8
PubMed, 3.2.1.7activeicm, 6.7, 6.12, 6.14, 6.14.1
     Reference, 11.1.40     advanced, 6.14
Pubchem, 3.2.9     background images, 6.15
QSAR, 8, 8.1, 11.6, 14.8     control, 6.13
R, 7.8, 7.33.1activeicmjs, 6.16
R-Group, 7.33.3activity cliff, 7.33.5, 7.33.6, 14.4.11
R-groups, 10.5.3          tutorial, 14.4.11
REAL, 7.5.5activityy, 8, 11.6
RMSD, 4.4.2add database, 7.10.3
RNA, 3.3     new data, 7.3.7
Ramachandran Plot, 4.5.9     to table, 10.5.7
Real Format, 3.7.10adding fragment, 7.4.8
     Label Shift, 3.7.7          in editor, 7.4.8
          Style, 3.7.7administration, 7.10.5
alias, 7.4.5as2_graph, 3.6.5
align, 3.1.11, 7.14assign, 5.1.3
     color 2D scaffold, 7.14     2D coordinates, 7.17.2
alignment, 7.35.1, 7.35.2atom, 3.7.5, 7.3.28
allosteric, 4.5.15atomLabelStyle, 3.7.7
alpha, 2.7.2atomic energy circles, 10.3.5
     channel, 3.7.6     property field, 7.35.1, 7.35.2, 10.3.11
ambient, 2.7.2               score, 7.36.2
amidinium, 7.15          fields, 4.4.6, 7.36, 7.36.1, 7.36.3, 14.6
amino acid, 3.3attachment, 7.4.3, 7.5.1
     acids, 7.4.6     point, 7.32.4
anaglyph, 5.6author, 3.2.1.3
analysis, 2.6.4     close tree, 7.25.5
angle, 4.5.7, 4.5.8, 5.8.5, 5.9, 5.12.6     play slide, 6.13
animate, 2.6.3.15, 5.10.7available properties, 7.11.1
     view, 5.10.7ave, 11.7.1
animation, 5.10.7.1, 5.10.7.2, 5.10.7.3, 5.10.7.4avi, 5.16, 5.16.2
     store, 5.10.7.4axes, 11.4.15
animations, 6axis, 11.4.11
annotate, 3.6.21, 7.13     options, 11.4.10
     by substructure, 7.13     grid, 11.4.10
     plot, 11.4.24     range, 11.4.10
antialias, 2.6.1.15, 2.6.3.10     title, 11.4.10
     lines, 2.6.3.17b-factor, 4.5.13, 14.3.10
     lines, 2.6.3.17backbone, 5.1.10
apf, 4.4.6, 7.35.1, 7.35.2, 7.36, 8, 10.3.11, 10.18, 14.6, 14.6.1, 14.6.2, 14.6.3, 14.6.4, 14.6.5background, 5.4.2, 5.4.3
     flexible template, 7.35.2     images activeicm, 6.15
     pairwise, 7.35.1     image, 5.4.3
     super, 7.35backup, 2.6.2.11
     template, 10.13bad, 7.11
     tools, 7.36     groups, 7.4.9
          3DQSAR, 7.36.4ball, 3.7.5
          consensus ph4, 7.36.1     and stick, 2.7.1
          pairwise score, 7.36.2balloon, 11.4.26
          screen, 7.36.3bases, 7.4.6
     tutorial, 14.6basicsel, 3.6.2
          cluster, 14.6.5bayesian classifier, 8
          consensus, 14.6.2bbb, 7.11.4
          score, 14.6.3best, 7.3.34
          screen, 14.6.4bicyclics, 7.4.6
          superposition, 14.6.1binding properties, 5.3.1
     alignment, 7.35.3bioinfo menu, 2.6.4
append, 11.1.44bioisoester, 7.9
     table, 11.1.44bioisostere, 7.9, 7.9.1, 7.9.2, 10.8
     rows, 2.6.10.7biological, 4.3.3
applying prediction models, 8.2biomolecule, 2.6.5, 4.3.3, 14.3.8, 14.3.12
area, 4.5.3, 4.5.14, 14.3.5blast, 3.2.5
aromatic, 7.3.28, 7.36.1     search, 3.2.5
arrange, 3.1.13.1blood brain barrier, 7.11.4
     window, 3.1.13.1bond, 4.2.3, 4.2.3.1, 4.2.3.2, 7.4.10
bonding, 5.1.8     group, 7.4.5
     preferences, 3.7.1     groups, 7.4.5, 7.4.8
box, 3.7.7, 5.8.15     modifiers, 7.32.2
     size, 10.9.1     properties, 14.4.4
browse, 7.3.31     right click, 7.4.3
     mode, 7.3.31     search, 7.5
     molt, 12.2          filter, 7.5.2
build, 5.10.7.1          text, 7.5.4
buttons, 6.14     sketch, 14.4.1
bye, 2.6.1.19     space, 7.27
     alpha, 5.1.10     spreadsheet, 3.2.3, 7.1.3, 7.3.1, 7.4.14, 14.4.1
     trace, 5.1.10          compare, 7.3.22
ca-trace, 5.1.10          template, 7.3.2
cache, 6.14.1     spreadsheets, 7.3
calculate, 7.11     substituent, 7.9
     properties, 7.11     substructure, 3.2.1.1
carboxylic acid, 7.15     table, 10.10
cartesian, 7.20          display, 7.3.3
cavities, 4.5     tables, 11.2
     closed, 4.5.4     toxicity, 7.11.3
cell, 4.3.2     2D, 7.7
center, 2.6.3.20, 3.1.3, 5.12, 5.12.5, 10.3.13, 11.1.40     3D, 7.7
     on ligand, 10.3.13     append, 7.4.13
     and representative members, 11.7.2     clustering, 7.25, 7.25.1
change box size, 10.9.1     convert, 7.7, 7.7.1, 7.7.2, 7.7.3
     height of all rows, 11.1.7     draw, 7.4.1
     ligand, 10.5.1     duplicates, 7.3.21
     row height, 11.1.7     editor, 7.2, 7.2.2, 7.2.4, 7.2.5, 7.2.6
     selection, 3.6.7     load, 7.1
     speed range, 5.10.7.2     merge, 7.29
charge, 2.6.3.21, 5.8.2, 7.4.3, 7.5.1, 7.7.1, 7.7.2, 7.7.3, 7.36.1     new, 7.4.1
check box, 6.6.6     properties, 7.3.19
     export excel, 7.2.3     query, 7.4.3, 7.5.1, 7.5.3
     save, 7.2     read, 7.1
          3D, 7.2.5     save, 7.2, 7.2.2, 7.2.4, 7.2.5, 7.2.6, 7.4.13
          editor, 7.2.4     search, 7.4.3, 7.5, 7.5.1, 7.5.3
          image, 7.2.6     similarity, 7.4.3, 7.5, 7.5.1, 7.5.3
          table, 7.2.2     spreadsheet, 7.2, 7.2.2, 7.2.4, 7.2.5, 7.2.6, 7.3
     super, 7.34     structure, 7.4.13
     view, 7.3.28     superimpose, 7.34.1, 7.34.2, 7.34.3
chembl, 3.2.3, 3.2.4     superposition, 7.35, 7.35.3
chemical, 7, 7.3.28, 7.3.30, 7.3.31, 7.3.34, 7.3.35, 7.4.10, 7.8, 7.10.4, 7.11.3, 7.17.2, 7.21, 7.32.4, 7.32.5, 7.34, 7.35.1, 7.35.2, 11.7.1, 14.4.4     table, 7.3, 11.2
     clustering, 7.25, 7.25.6cheminformatics, 7, 7.3
     dictionary, 7.4.4, 7.4.5, 7.4.6     tutorials, 14.4
     draw, 14.4.1chemistry, 7.21
          spreadsheet tutorial, 14.4.1     convert, 7.17
     edit buttons, 7.4.11          2dto3d, 7.17.1
     editor, 7.4, 7.4.8     pca, 7.26
     fingerprint, 9     smiles, 7.17.3
     fragments, 7.3.33     duplicates, 7.30
chemspace append, 14.4.4.4     plot, 11.4.6
     build visualize, 14.4.4.1     row width, 11.1.22
     compare, 14.4.4.8     statistics, 11.1.32
     delete row, 14.4.4.3     visibility order, 11.1.28
     distinguish, 14.4.4.7     color, 11.1.10
     export, 14.4.4.5     hide, 7.3.8
     project, 14.4.4.6     show, 7.3.8
     select, 14.4.4.2combinatorial chemistry, 7.32
chi, 5.8.5     library, 14.4.8
chiral, 7.22combine, 2.6.10.5
chirality, 7.22     display style, 3.7.9
clash, 3.7.5, 5.8.14compact tree, 7.25.5
classes, 7.3.28compare, 7.3.29, 7.28, 7.29
classification model, 9.5     table, 7.3.22
clear display and planes, 2.6.3.2     tables, 7.28
     selection, 3.6.6compatible, 2.6.1.10
     planes, 2.6.3.2complex, 7.6
click, 3.1.12, 5.11, 5.12compound, 3.2.1.3, 7.21, 11.2
clip, 5.3.10, 5.13.1compress, 3.7.6
clipboard, 5.15.3, 11.7.3compressed, 11.1.6
clipping planes, 5     table view, 11.1.6
     tool, 5.13conditions, 7.5.2
     tools, 5.13     gen, 7.20
clone, 2.6.1.2conformation, 7.20
close, 5.3.3, 5.3.4, 10.21conformational entropy, 7.24
     downstream cluster, 7.25.5conformers, 7.20
     project, 10.21connect, 5.3.9.1, 5.12, 5.12.7
     cavities, 4.5.15     object, 5.12.7
cluster, 11.7.1connectivity, 7.4.3, 7.5.1
     representative.center, 7.25.2consensus, 7.36, 14.6.2
clustering, 11.7, 14.4.3     pharmacophore, 7.36.1
cns, 7.31construct, 2.6.1.1, 5.10.7.1
collada, 2.7.6, 5.3.7     molecule, 2.6.1.1
color, 4.5.12, 5.3.2, 5.3.3, 5.3.4, 5.3.9.4, 5.4, 5.4.1, 5.8.2, 5.8.3, 7.3.35, 7.14, 11.1.45, 11.7.4     object, 2.6.1.1
     background, 5.4.2contact, 4.5, 4.5.3, 14.3.5
     by, 5.4     surface, 5.3.2
     chemical, 7.3.35contacts, 5.3.3, 5.3.4, 7.6, 10.3.12
     surface by proximity, 5.3.3contour, 4.3.6, 4.3.7
               selection, 5.3.4convert, 4.1.2, 7.17.1, 7.17.5
     table, 7.3.27     chemical, 7.3.24
     2D sketch, 7.5.6.5          2D 3D, 7.7
     background, 2.6.3.18, 5.4.2          3D molecular editor, 7.4.16
     distance, 5.8.10     local database, 2.6.1.6
     mesh, 5.3.9.3     pdb, 14.3.2
     table, 7.3.27          chem, 7.7.1
coloring, 5.4.1     local.database, 2.6.1.6
coloumn, 11.1.25     smiles, 7.17, 7.17.3, 7.17.4
column, 11, 11.1.6, 11.1.22, 11.1.39, 11.1.40, 11.4, 11.4.1converting pdb, 4.1.2
     annotation, 11.1.41coordinates, 7.1.3
     order, 11.1.29copy, 7.3.25, 7.4.11, 7.4.18, 7.5.6.2, 11.1.35
     chemical, 7.3.25     all, 2.6.2.2
     paste row, 11.1.35     angle.label, 5.9.4
     row, 11.1.36     column, 11.1.38
     rows, 11.1.44     distance.label, 5.9.4
     selection to table, 11.1.37     label, 5.8.9
     chemical, 7.3.16     row, 11.1.38
covalent, 10.10.1     selection, 2.6.2.1
     bond, 4.5.11dendrogram, 7.27.1
     docking, 10.17density, 4.3.4, 4.3.6, 4.3.7
cpk, 5.1.5depth, 5.3.12, 5.10.5
crash, 2.6.2.11dfa, 9.3.3
creat, 6.6.1dfz, 9.3.2
create, 11.1.1dialog, 6.6.5
     markush, 7.32.3diffuse, 2.7.2
     new objects, 3.3dihedral, 4.5.8, 5.8.5
cross section, 5.13     angle, 4.5
cryptic, 4.5.15directories preferences, 3.7.2
crystal, 4.3.2directory, 3.7
crystallographic analysis, 4.3dislay ligand receptor interaction, 7.6
          biomolecule, 4.3.3display, 3.1.4, 3.1.13.1, 3.7, 4.2.3, 4.2.3.1, 4.2.3.2, 5.8.14, 5.14, 7.22
          contour map, 4.3.6     delete distances, 5.9.4
          convert2grid, 4.3.7     dihedral, 5.9.3
          crystallographic cell, 4.3.2     distance restraints, 5.8.13
          load eds, 4.3.4     distance2, 5.9.1
          maps cell, 4.3.5          angles, 5.9
          symmetry packing, 4.3.1     formal charge, 5.1.9
          tools, 14.3.8     gradient, 5.8.16
     cell, 2.6.5     hbonds, 10.3.4
     neigbor, 4.3.1     hydrogen, 5.1.7
     neighbors, 2.6.5          atoms ligand editor, 10.3.3
crystallography, 4.3.4, 4.3.6, 4.3.7     mesh, 5.3.5
csv, 7.2.3, 11.1.2, 11.1.3, 11.1.21     meshes, 5.3.8
current.slide, 6.13     options, 10.3
curves, 11.4.5     planar angle, 5.9.2
custom, 5.12, 7.3.3, 7.34     tab, 2.7.1
     actions, 11.1.40     tether, 5.8.12
     fragments, 7.13     toggle, 5.8.15
     label, 5.8.8     CPK, 5.1.5
     rotation, 5.12.2     angle, 5.9.2
cut, 11.1.35     chemical, 7.3.3
cys, 4.5.11     dihedral.angle, 5.9.3
cysteine reactivity, 4.5.11     distace, 5.8.10
database, 7.10, 7.32.4, 12.1     distance, 5.8.13, 5.9.1
decompose.library, 14.4.9     electrostatic, 2.6.3.21
decomposition, 7.32.4, 7.33.1, 11.4.25     energy.gradient, 5.8.16
default, 3.1.13     hydrogen, 5.1.7
delete, 2.6.2.1, 3.6.6, 6.6.8          polar, 5.1.7
     all, 2.6.2.2     macroshape, 5.3.6
     column row, 11.1.38     meshes, 5.3.5
     label, 5.8.9          and display.macroshape, 2.7.6
     origin, 5.8.11     ligand, 10.5, 10.5.1
     potential, 2.6.3.21          2D, 10.5.1
     representations, 2.7.1          editor preferences, 10.2
     restraints, 5.8.13          multiple substituents, 10.5.2
     ribbon, 5.1.3          tools, 2.6.2.17
     skin, 5.1.4     menu, 2.6.2
     surface, 5.1.6, 5.3.1     molecular document, 6.6.1
     surfaces, 2.7.6     molecule, 7.4
     table, 7.3.3     molt, 12.3
     tethers, 5.8.12     selection, 2.6.2.5
     wire, 5.1.1     slide, 6.4.1
     xstick, 5.1.2     table row, 11.1.24
distance, 4.5, 4.5.6, 5.8.10, 5.9, 7.28     molecule, 7.3.26
     label, 3.7.7     structure, 7.3.26
distances, 2.7.3editpdbsearch, 2.6.2.12
diverse set, 11.7eds, 4.3.4, 4.3.6, 4.3.7
dock, 10.10, 10.10.1effort, 7.20, 7.34
     apf, 10.18electron, 4.3.4, 4.3.6, 4.3.7
     table, 10.10     denisty map, 4.3.5
          covalent, 10.10.1     densitry map.contour, 2.6.5
docking, 4.5.14, 10.10, 10.10.1, 10.11          map, 2.6.1.7, 2.6.5, 4.3.4, 4.3.6
     templates, 10.13electrostatic potential, 2.6.3.21
document, 6.6.4, 6.6.5     surface, 5.3
     navigation, 6.6.7electrostatics, 5.3.1
documents, 5.15.3elegant sketch, 5.10.4
donator, 7.4.9element, 7.4.10
     envelope, 2.7.1embed browser, 6.11
     surface, 3.7.5     powerpoint03, 6.8
dotted line, 5.1.3     powerpoint07, 6.9
double, 7.4.10     powerpoint10, 6.10
doublet, 7.4.7     activeicm, 6.13
dpc, 9.3.4          script, 6.13
drag, 3.1.11, 3.7.7, 5.8.3, 6.6.4     browser, 6.7, 6.11
     residue label, 2.6.3.16     firefox, 6.7, 6.11
draganddrop, 3.1.11     internet.explorer, 6.7, 6.11
draw, 7.4.18, 7.32.5     microsoft, 6.7
     chemical, 7.4.1     powerpoint, 6.7, 6.8, 6.9, 6.10
drop, 3.1.11, 6.6.4enamine, 7.5.5
drug, 7.11energy, 4.5.12, 5.8.14, 7.24, 7.24.2
     bank, 3.2, 3.2.8, 7.1entropy, 7.24.1
     like, 7.11.4enumerate formal charge states, 7.16
drugbank, 7.1     reaction, 14.4.10
druglikeness, 7.4.9enumeration, 7.32.4
dsPocket, 3.1.8eps, 7.2.6
easy rotate, 2.6.3.12eraser, 7.4.11
ecfp, 8.3evaluate score strain, 10.4
edit, 4.2.3.1, 10.5.8exact, 7.28
     2D, 10.5.1excel, 7.2.3
     add sequence, 7.4.17exclude fragment, 7.5.2
     chemical moledit, 7.3.26     volume, 10.3.11
explicit, 7.3.28     row, 11.1.31
export, 4.5.10frequency, 7.3.35
     dock project, 10.20front, 5.3.10, 5.13.1
     pdb, 3.5full scene antialias, 2.6.3.10
extra windows, 5.2     screen, 2.6.3.8
extract, 3.4.2, 7.1.3function, 11.1.26, 11.1.32
     2D, 7.1.1functional.groups, 7.13
     3d coordinates to spreadsheet, 7.1.3general preferences, 3.7.5
     icb, 2.6.1.5generalselecttools, 3.6.1
     object icb, 3.4.2generator, 4.3.3, 7.20
     icb, 2.6.1.5getting started, 3
     pharmacophore, 7.5.6.4giga search, 7.5.5
file, 2.6.1.3          enamine, 7.5.5
     close, 2.6.1.13glasses, 5.6
     compatible, 2.6.1.10google, 2.6.1.7
     export, 2.6.1.12     objects, 5.3.7
     high quality image, 5.15.1     3D, 2.7.6, 5.3.7
     load, 2.6.1.7graphical display, 7.7.2, 7.7.3
     menu, 2.6.1          tutorial, 14.1
     password, 2.6.1.11               2D3D labels, 14.1.4
     preferences, 2.6.1.16               annotation, 14.1.2
     quick image, 2.6.1.14               color representation, 14.1.1
     icb, 3.1.10               labels, 14.1.3
     recent, 2.6.1.17graphics, 3.1
     bak, 2.6.2.11     controls, 5
filter, 12.2     effects, 5.10
     selection, 3.6.8     panel, 5.2
find chemical, 7.3.32     preferences, 3.7.3
fingerprint, 8, 8.3, 14.7     shadow, 2.6.3.13, 5.10.2
     method, 8.3grid, 7.3.3, 7.34
fit, 7.3.34grob, 3.7.5, 4.3.4, 4.3.6, 4.3.7, 5.3
fitting, 11.4.16group, 7.33.1, 10.6
flex super, 7.34.3     column, 11.1.46
flexibility, 4.5.13groups, 7.8, 7.11, 7.12
flexible, 7.34guanidinium, 7.15
     docking, 10.14gui, 3.1.1, 3.7.4
     receptor groups, 10.14     menus, 2.6
fog, 2.6.3.5, 5, 5.10.1     preferences, 3.7.4
font, 3.7, 3.7.7, 4.2.3.1, 5.8.2, 5.8.3, 7.3.28, 11.1.40, 11.7.4     tabs, 2.7
     preferences, 3.7.7h-bond, 4.2.3, 4.2.3.1, 4.2.3.2
form view, 11.1.5halogen, 7.11.2
formal charge, 5.1.9, 7.15, 7.16hardware stereo, 2.6.3.7
format, 11.1.2, 11.1.40hbond, 4.2, 14.3.6
formula, 7.4.9, 7.11header, 3.2.1.6, 11.4.9
fragment, 7.3.35, 7.33.1, 10.11health, 4.5.12
     linking, 10.11heatmap, 11.4.7
fragments, 7.8     example, 11.4.7.1
free radical, 7.4.7help, 1
     wilson regression analysis, 7.33.2     videos, 1
freeze column, 11.1.30hetero, 7.3.28
hide, 11.1.39          icm browser convert display pocket, 2.1.4
     column, 11.1.28                    distances angles, 2.1.9
high, 2.6.1.15                    get started, 2.1.1
     quality, 2.6.3.11                    graphical display, 2.1.2
highlight new data, 7.3.7.1                         effects, 2.1.5
histogram, 11.4, 11.4.1, 11.4.9, 11.4.11, 11.4.13, 11.4.14, 11.4.15, 11.4.16, 11.4.17, 11.4.18, 11.4.20, 11.4.22                    images, 2.1.7
     bins, 11.4.3                    labels annotation, 2.1.6
     options, 11.4.2                    pro crystallographic tools, 2.2.6
     bin.size, 11.4.2                         get started, 2.2.1
     bins, 11.4.3                         graphics, 2.2.2
     color, 11.4.2                         plots, 2.2.8
     source, 11.4.2                         sequence analysis, 2.2.7
     style, 11.4.2                         structure analysis, 2.2.3
     title, 11.4.2                         superimpose, 2.2.5
homology, 3.2.1.2, 3.2.5                         surfaces, 2.2.4
hover, 11.4.26                    selections, 2.1.3
     3D editor, 14.5                    superimpose, 2.1.8
     add columns, 7.3.4          search, 3.2
     cluster center, 7.25.2          use gui, 3.1
     color 2D by ph4, 7.5.6.5html, 2.6.1.12, 3.3, 6.6.1, 6.6.7
     copy 2D, 7.3.16hybridization, 7.4.3, 7.5.1
          paste, 7.3.6hydrogen, 4.2.3, 4.2.3.1, 4.2.3.2, 5.1.8, 7.4.3, 7.5.1, 14.3.6
     decompose, 14.4.9     atom display, 10.3.3
     duplicate chemicals, 7.3.21     bond, 4.2, 5.1.8, 7.6, 14.3.6
     edit table, 7.3.17          donor, 7.36.1
          tree, 7.25.4          label edit, 4.2.3.1
     excel, 7.3.10               move, 4.2.3.2
     extract 3D ph4, 7.5.6.4     bonds, 4.2.4
     filter, 7.3.12     bond, 7.4.9
     find replace, 7.3.13hydrogens, 7.3.28
     mark row, 7.3.14     remove, 7.3.18
     markush, 14.4.8hyperlink, 6.6.1, 6.6.2, 11.1.40
          structure, 14.4.7hyrophobic, 7.36.1
     merge tables, 7.3.23iSee, 2.6.1.5, 2.6.1.12, 3.1.10, 5.15.3, 14.2
     properties, 7.3.19icb, 3.4.2, 3.5
     reactions, 14.4.10     chemist howto chemical search, 2.4.3
     reorder, 7.25.3               cluster, 2.4.5
     sdf, 7.3.9               combi library, 2.4.7
     show hide, 7.3.8               ph4, 2.4.4
     sort column, 7.3.5               plots, 2.4.8
     standardize, 7.3.18               sketch, 2.4.1
     table hyperlinks, 7.3.15               spreadsheets, 2.4.2
          print, 7.3.11               stereoisomers tautomers, 2.4.6
          activeicm, 2.3          pro 3D ligand editor, 2.5.1
               create molecular documents, 2.3.3               chem3D, 2.5.2
                    slides, 2.3.2               chemsuper, 2.5.4
               getting started, 2.3.1               energy, 2.5.3
               ppt, 2.3.4               qsar, 2.5.5
               web, 2.3.5               tutorials, 2.5
          chemical clusering, 7.25.1          tutorials, 2.4
     script, 11.1.40     color, 5.8.7
icmPocketFinder, 4.5.15     move, 5.8.4
icmjs, 6.16     residues, 5.8.3
icmpocketfinder, 14.3.7     sites, 5.8.6
id, 11.1.27     variables, 5.8.5
identity, 3.2.1.2     2D, 2.7.3
image, 3.1.14, 3.7, 3.7.5, 5.15.3, 6.6.3, 7.2, 7.2.6, 11.4.21     3D, 2.7.3, 5.8.1
     advanced, 5.15.3     atom, 5.8.1
     preferences, 3.7.6     atoms, 5.8.2
     multiple, 2.6.1.7     color, 5.8.7
     quality, 2.6.3.11     custom, 5.8.8
     quick, 2.6.1.14, 5.15.2     delete, 5.8.1, 5.8.9
images, 5.15     distance, 5.8.10
improve model, 8.1.3     drag, 2.6.3.16
inchi, 7.17.3     move, 2.6.3.16, 5.8.4
increment, 11.1.27     residue, 5.8.1
     id, 11.1.27     residues, 5.8.3
index models, 9.1.2     site, 5.8.1
induced fit, 10.14     sites, 5.8.6
insert, 6.6.4     variable, 5.8.1
     column, 11.1.26     variables, 5.8.5
     image, 6.6.3, 11.1.34labeling, 5.8.1
          table, 11.1.34labels, 5.8, 7.3.28
     row, 11.1.33     distances, 5.8.10
     script, 6.6.4     tab, 2.7.3
install, 7.10.1landscape, 3.7.6
interaction, 4.5.3, 7.6large chemical space, 14.4.4
interactions, 10.3.12     sdf, 7.1.2
interactive, 14.2layer, 5.14
interrupt, 5.10.7.3layers, 5.14
     animation, 5.10.7.3learn, 7.18, 7.19, 8, 8.1, 11.6
invert selection, 11.1.23learning, 8
iqr, 11.4.23     theory, 8.5
isee, 6.6.5least.squares, 11.4.16
isis, 7.4.18library, 7.32.4
isotope, 7.4.3, 7.5.1     reaction, 14.4.10
iupac, 7.2.7, 7.3.20ligand, 4.2.2, 7.6, 7.24, 7.24.1, 7.24.2, 10.3.12, 10.3.13, 10.5.8, 10.10, 10.11
javascript, 6.16     based screen, 7.36.3
join, 7.29     best replace, 10.6
jpg, 5.15     code, 3.2.1.3, 3.2.7
     means, 11.7.1     editor, 10, 10.10, 10.10.1, 10.17, 10.18
kcc, 9.3.1, 9.5          bioisostere, 10.8
kernel regression, 9.3.1          covalent docking, 10.17
     chemical, 7.4.10          mrc, 10.16
keyboard mouse, 5.11          preferences, 2.6.2.18
keystokes in chem-edit, 7.4.10     energetics, 7.24
kmz, 2.7.6, 5.3.7          conformational entropy, 7.24.1
knime, 13          strain, 7.24.2
label, 3.7.7, 11.7.4     pocket, 4.2.4
     atoms, 5.8.2          surface, 10.3.2
          display, 4.2macroshape, 2.6.3.22, 5.3, 5.3.6
          interaction, 7.6make, 5.10.7.1, 11.1.1
     strain, 10.3.10     animation, 5.10.7.1
     surface, 4.2.2     apf docking sar model, 9.6
     tether, 10.12     complex, 10.21
     editor, 10, 10.1     molecular document, 6.6
          binding.re-dock ligand, 10.9     molt, 12.1
          display, 10.3     selection, 3.6
          edit, 10.5     molecule, 2.6.1.1
          energy, 10.3     object, 2.6.1.1
          hydrogen.bond, 10.3making molecular slides, 6.1
          pocket, 10.3     html, 6.6
          preferences, 10.2     color, 11.4.14
          restraint, 10.12manual change torsion, 10.5.4
          surface, 10.3map, 3.7.7, 4.3.4, 4.3.6, 4.3.7
          tether, 10.12     cel, 4.3.5
     pocket, 3.1.8mark, 11.1.45
     receptor.contact, 4.5.3     row, 11.1.45
ligand_pocket_interactions, 4.2.4     shape, 11.4.13
ligedit distance restraint, 10.12.2     size, 11.4.13
     tab, 2.7.5markush, 7.25.7, 7.32.1, 7.32.3, 7.33.1
     tether, 10.12.1     library, 14.4.8
light, 2.7.2matched pair, 7.33.6, 14.4.11
     tab, 2.7.2          analysis, 7.33.6
lighting, 5.3.9.4, 5.5materials, 2.7.6
likeness, 7.11max, 11.7.1
line, 3.7.5, 11.7.4maxColorPotential, 3.7.10
lineWidth, 3.7.3maximum common substructure, 7.25.6, 7.27, 7.27.1
links, 3.6.20               dendrogram, 7.27.1
linux, 7.10.1mcs, 7.25.6, 7.27.1
lipinski rule, 7.31     rgroup decomposition, 7.25.7
list, 3.6.18mean, 11.4.6, 11.4.23
load, 2.6.1.3, 2.6.1.17, 4.3.4, 4.3.6, 4.3.7median, 11.4.6, 11.4.23
     nmr model, 3.2.1.4memory, 7.1.2
     protein structure, 4.1.1menu, 6.6.5
local databases, 12     chemistry, 2.6.14
     database.browse, 12.2     docking, 2.6.15
          edit, 12.3     homology, 2.6.13
          query, 12.4     molmechanics, 2.6.16
          row, 12.3     tools chemical search, 2.6.11
lock, 5.3.10, 5.13.1, 7.3.31          molecular editor, 2.6.12
log, 11.4.6, 11.4.11     windows, 2.6.17
logD, 7.11.6merge, 7.29
logP, 7.4.9, 7.11     two sets, 7.29
logS, 7.4.9, 7.11mesh, 4.2.1, 4.2.2, 4.3.4, 4.3.6, 4.3.7, 5.3, 5.3.9.1, 5.3.9.2, 5.3.9.4, 5.3.10, 5.3.11, 5.3.12, 5.13.1
logarithmic, 11.4.11     clip, 5.3.10
logout, 2.6.1.19     color lighting, 5.3.9.4
mac, 7.10.1     options, 5.3.9
machine learning, 14.7     representation, 5.3.9.3
macros, 6.14     save, 5.3.11
meshes, 5.3.2, 5.10.5     zoom, 5.11
     surfaces grobs, 5.3movie, 5.16.1
     tab, 2.7.6     making, 5.16, 5.16.2
metabolic oxidation, 9.7     open, 5.16, 5.16.2
min, 11.7.1mpa, 14.4.11
mmff, 7.4.16mpeg, 5.16, 5.16.1, 5.16.2
     type, 5.8.2mpg, 5.16, 5.16.2
mmp, 14.4.11mpo, 7.31
mnSolutions, 3.7.10multi apf super, 7.35.3
model weight, 8.1.2     panel, 5.2
modification history, 10.5.6     parameter optimization, 7.31
mol, 7.2, 7.2.2, 7.2.4, 7.2.5, 7.2.6, 7.4.13     windows, 5.2
mol2, 7.2, 7.2.2, 7.2.4, 7.2.5, 7.2.6multiple position group scan, 10.7
molcart, 7.10, 7.10.1, 7.10.2, 7.10.3, 7.10.4, 7.10.5, 12     receptor, 3.2.2
     add database, 7.10.3          docking, 10.16
     administration, 7.10.5navigate workspace, 3.6.10
     installation, 7.10.1new icm session, 2.6.1.2
     search, 7.10.4     table, 11.1.1
     start, 7.10.2     table, 11.1.1
molecular, 7.3.30, 7.3.31, 7.3.34, 7.3.35, 7.20nmr model, 3.2.1.4
     animations slides, 6nof, 7.11.2
     documents, 14.2     chemical, 7.11.2
     graphics, 5non-contiguous selection, 3.6.18
     matched pairs, 14.4.11number of sp3, 7.11.2
     table, 7.17.2numbers, 7.3.28
     weight, 7.4.9object, 3.1.11, 3.5, 14.3
     editor, 7.4objects, 4.1.2
moledit, 7.4.8     in table, 11.3
molscreen, 9     in.table, 11.3
     custom model panel, 9.4occlusion, 5.3.12, 5.10.5
     load models, 9.1.1     shading, 5.3.12
               run, 9.1          effect, 5.10.5
     model type, 9.3occupancy, 5.1.3, 14.3.10
     results, 9.2     display, 3.2.1.5
molskin, 5.3.2oda, 4.5.14
molsynth, 7.11.5older version, 2.6.1.10
molt, 12, 12.4omega, 5.8.5
monochrome, 7.3.28online databases, 7.5.5
mouse, 3.1.3, 5.11, 5.12open, 2.6.1.3, 3.4, 11.1.2
mov, 5.16, 5.16.2     file, 3.4
move, 2.6.3.19, 3.1.11, 3.1.13, 4.2.3.2, 5.3.9.1, 5.3.9.2, 5.12, 5.12.7     password, 3.4.1
     column, 11.1.28     with password, 2.6.1.4
     mesh, 5.3.9.2     movie, 5.16, 5.16.2
     slide, 6.4.2     password, 2.6.1.4, 3.4.1
     structure, 5.12optimal, 4.5.14
     tools, 5orange, 3.6.5
     rotate, 5.11     selection, 3.6.5
     slab, 5.11origin, 5.8.11
     translate, 5.11orthosteric, 4.5.15
     z-rotation, 5.11other selection, 3.6.19
package.activeicm, 6.13     R group sar, 7.33.4
packing, 4.3.1     axis, 11.4.11
pairwise, 7.35.1, 7.35.2     color, 11.4.14
     apf score, 7.36     columns, 11.4.6
password, 7.10.5     function, 2.6.9, 2.6.9.1
paste, 7.4.11, 7.4.18, 11.1.35     grid, 11.4.15
pca, 11.5     header, 11.4.9
pdb, 2.6.1.7, 3.2, 3.2.1.1, 3.2.7, 3.5, 7.7.1, 14.3     inline, 11.4.22
     chem gl, 7.7.3     logarithmic, 11.4.12
          iw, 7.7.2     mark, 11.4.13
     dormat, 3.5     mean median iqr, 11.4.23
     html, 3.2.1.6     point label, 11.4.19
     preparation, 14.3.11     preferences, 3.7.8
     search, 3.2.1, 3.2.1.2, 3.2.1.3, 14.3.1          groups, 11.4.25
     recent, 2.6.1.18     regression, 11.4.16
     search, 2.7.4, 3.1.2     selection, 11.4.18
pdbsearchfield, 2.6.2.13     zoom translate, 11.4.17
pdbsearchhomology, 2.6.2.15     axis, 11.4.15
pdbsearchidentity, 2.6.2.14     display, 11.4.15
pdbsearcsequence, 2.6.2.16     grid, 11.4.15
peptide, 3.3     inline, 11.4.22
perspective, 2.6.3.9, 5.10.6     logarithmic, 11.4.12
ph4, 7.5.6pls, 7.18, 7.19, 8, 11.6, 14.7
     draw 2d, 7.5.6.1png, 2.6.1.14, 5.15, 5.15.2, 6.6.3, 7.2, 7.2.6
          3d, 7.5.6.2pocket, 3.1.8, 4.2, 4.2.1, 4.2.2, 4.5.15, 14.3.7
     search, 7.5.6.3     surface, 4.2.1
pharmacophore, 7.3.35, 7.5.6.5, 14.6.2     peptide, 3.1.8
     2D, 14.4.6     properties, 3.1.8
     3D, 14.4.5pocketome, 3.2, 3.2.2
     clone, 7.5.6.2pockets, 4.5.15
     draw2D, 7.5.6.1point label, 11.4.19
     draw3D, 7.5.6.2portait, 3.7.6
     edit, 7.5.6.1, 7.5.6.2post edit ligand, 10.5.8
     move, 7.5.6.2postscript, 3.7.6
     new, 7.5.6.2powerpoint, 14.2
     search, 7.5.6, 7.5.6.3, 14.4.5, 14.4.6ppt, 6.12, 6.14
phi, 5.8.5predict, 7.18, 7.19, 8, 8.2, 11.6
pi, 4.2.5     metabolic oxidation, 9.7
     pi, 4.2.5predicting bioassays, 8.2
picking, 5     compound properties, 8.2
picture, 2.6.1.14, 3.1.14, 5.15.2, 6.6.3preferences, 3.7
     tips, 3.1.14presentatio, 6.6.5
     chart, 11.4.8presentation, 6.7, 6.12
pipi, 4.2.5presentations, 6
pka, 7.15press-and-hold to rotate, 7.4.8
planar, 4.5.7, 5.8.5pretty view, 10.3.6
     angle, 4.5primary aliphatic amines, 7.15
     angle, 5.9.2principal component analysis, 11.5
plane, 5.3.10, 5.13, 5.13.1, 5.14          regression, 8
plot, 3.7, 3.7.8, 11.4, 11.4.1, 11.4.4, 11.4.9, 11.4.11, 11.4.13, 11.4.14, 11.4.15, 11.4.16, 11.4.17, 11.4.18, 11.4.20, 11.4.21, 11.4.22, 11.4.23     components, 8.5
     plot, 11.4.20     learn predict, 7.18
printer.resolution, 3.7.6     predict, 7.19
pro-drug, 7.23quality, 2.6.1.15, 3.7.5
prodrug, 7.23query molt, 12.4
project, 2.6.1.5, 14.4.4.6     processing, 7.5.3
     close, 2.6.1.13     setup, 7.5.1
     rename, 2.6.1.9quick, 3.1.14
properties, 5.8.2, 7.11, 7.11.1     image, 5.15.2
property, 7.4.9     start move structure, 3.1.3
     monitor, 7.4.9          read pdb, 3.1.2
protect, 6.6.8          representation, 3.1.6
protein, 4.4.6          selection, 3.1.5
     health, 4.5.12               level, 3.6.3
     sequence, 7.4.17          what is selected, 3.6.4
     structure, 4     dispalay.distance, 5.9.1
          analysis, 4.5     start color, 3.1.7
               closed cavities, 4.5.4quit, 2.6.1.19
               contact areas, 4.5.3     group, 7.25.7, 7.32.4
               distance, 4.5.6          table, 7.32.2
               find related chains, 4.5.1     groups, 7.32.2
               finding dihedral angle, 4.5.8r-group, 7.25.7, 7.32.2
                    planar angle, 4.5.7     decomposition, 7.25.7
               rama export, 4.5.10     enumeration, 7.25.7
               ramachandran plot, 4.5.9r-groups, 11.4.25
               rmsd, 4.5.2racemic, 7.3.28, 7.17.5
               surface area, 4.5.5radar, 11.4.6
          tutorials, 14.3rainbow, 3.7.5, 5.8.15, 7.3.35
               analysis, 14.3.4ramachandran plot, 4.5, 4.5.10
               contact area, 14.3.5random forest, 8, 14.7
               convert, 14.3.2range, 5.10.7.2
               hydrogen bond, 14.3.6ratio.selection, 3.7.5
               icmpocketfinder, 14.3.7     dock ligand, 10.9
               search, 14.3.1reactions, 7.8, 7.32.5
               superimpose, 14.3.3reactive cysteine, 4.5.11
     superposition, 4.4reactivity, 7.11.3
          select, 4.4.1read, 2.6.1.3, 2.6.1.17, 3.4, 7.3.1
          sites by apf, 4.4.6     chemical, 7.1
          superimpose 3D, 4.4.3          spreadsheet, 7.3.1
               grid, 4.4.5     table, 11.1.2
               multiple proteins, 4.4.4     pdb, 3.1.2
protein-protein, 4.5.14     table, 11
proximity, 5.3.3, 5.3.4reagent, 7.32.5
psa, 7.4.9rear, 5.3.10, 5.13.1
psi, 5.8.5recent files, 2.6.1.17
pubchem, 7.1     pdb codes, 2.6.1.18
publication quality images, 5.3.2receptor, 4.2.1, 4.2.2, 7.6, 10.3.12
pubmed, 3.2.1.7     flexibility, 10.16
purple box, 2.6.3.23, 10.9.1     pocket, 10.3.1
qs hydrogen bond, 4.2.3          surface, 10.3.1, 10.3.2
qsar, 7.18, 7.19, 8.1, 14.7recover, 2.6.2.11
regresion, 11.4.16     speed, 5.10.7.2
regression, 7.33.2, 8.1, 8.5, 14.7rotating fragment in editor, 7.4.8
relationship, 8, 11.6rotation, 5.12.1
relaxed ligand, 10.3.9row, 11, 11.1.22, 11.1.35, 11.1.45
remove.explixit.hydrogens, 7.12     flag, 11.1.13
     salt, 7.12     height, 11.1.7
rename, 11.1.25     mark, 11.1.13
     colunn, 11.1.25     hide, 7.3.8
     project, 2.6.1.9     show, 7.3.8
reorder column, 11.1.29ruler, 5.8.15
replace chemical, 7.3.32     molscreen, 9.1.3
replacement, 10.6rxn, 7.4.13
     group, 10.8sali, 7.33.5
representation, 2.6.3.19     bridge, 14.3.6
residue, 3.7.7salts, 7.3.18
     alternative orientaiton, 14.3.11sample, 7.34
     range, 3.6.18sar, 7.25.7, 7.33, 11.4.25
     content, 2.6.4     analysis, 7.33
residues, 4.2.1, 4.2.2     table, 7.33.3
resize, 5.3.9.1, 5.15.3save, 3.5, 5.3.11, 5.10.7.4, 7.2.3, 11.4.21, 11.7.3
     mesh, 5.3.9.1     SMILES, 7.4.15
resolution, 3.2.1.3     as PDB, 3.5
restore, 2.6.2.11, 5.3.10, 5.13.1          pdb, 3.5
     recent backup, 2.6.2.11     chemical mol, 7.4.13
restraing, 10.12.1, 10.12.2          spreadsheet workspace, 7.2.1
rgroup, 7.32.4          to chemical spreadsheet, 7.4.14
ribbon, 2.7.1, 3.7.9, 5.1.3     docked ligand, 10.19
     preferences, 3.7.9     file, 3.5
     style, 3.7.9     hits, 10.5.7
     breaks, 5.1.3     image plot, 11.4.21
     cylinders, 5.1.3     ligand receptor complex, 10.19
     smooth, 5.1.3     object, 3.1.9
     worm, 5.1.3     pdb, 3.5
ribbonColorStyle, 3.7.9     project icb, 3.1.10
right, 3.1.12     slide, 6.4
     click, 3.1.12     smiles string, 7.4.15
rigid, 7.34     table, 11.1.21
     super, 7.34.2          spreadsheet, 10.5.7
          table, 7.34.1     tree, 11.7.3
ring, 4.2.5, 7.4.3, 7.4.6, 7.5.1          sdf, 7.4.14
     stacking, 4.2.5     image, 2.6.1.15, 3.1.14
rings, 7.3.28, 7.20, 7.34     object, 3.1.9
rmsd, 4.5, 4.5.2     password, 2.6.1.11
rock, 2.6.3.15, 5.10.7, 5.10.7.1, 6     picture, 2.6.1.15
     speed, 5.10.7.2     project, 2.6.1.8, 2.6.1.9, 2.6.1.10, 3.1.10
root mean square deviation, 4.5.2     table.view, 11.1.8
rotate, 2.6.3.15, 3.1.3, 5, 5.10.7, 5.10.7.1, 5.12, 5.12.1, 5.12.2, 6, 7.3.34saving, 2.6.1.8
     chemical, 7.3.34     project, 2.6.1.8
     when pasting, 7.4.8scaffold, 7.14
     easy, 2.6.3.12     hopping, 10.8
     r group, 10.7     alignment, 3.6.19
score, 10.4, 14.6.3, 14.6.5     all, 2.6.2.3
screen, 7.36, 14.6.4     alter, 3.6.7
screenshot, 5.16, 5.16.2     atom, 2.6.2.5
     movie, 5.16.2     basic, 3.6.2
script, 3.3, 6.6.4, 6.6.5     change, 3.6.7
sdf, 7.2, 7.2.2, 7.2.4, 7.2.5, 7.2.6, 7.3.35, 7.10, 7.10.3, 7.17.1, 10.10, 12.1     clear, 2.6.2.7
search, 7.10, 7.10.4, 12.2     column, 11.1.23
     chembl, 3.2.3     filter, 2.6.2.5, 3.6.8
     drugbank, 3.2.8     graphical, 3.6.16
     filter, 7.5.2     invert, 2.6.2.6, 11.1.23
     in workspace, 2.6.2.4     level, 2.6.3.3
     pdb, 3.2.1     mode, 2.6.3.4
          chemical, 3.2.1     near atoms, 2.6.2.8
          ligand code, 3.2.7     neighbors, 2.6.2.5, 2.6.2.8, 3.6.15, 3.6.17
     pocketome, 3.2.2     object, 3.6.11
     pubchem, 3.2.9     other, 3.6.19
     surechembl, 3.2.4     properties, 2.6.2.5
     tab field, 3.2.1.3     range, 11.1.23
          pdb chemical, 3.2.1.1     residue, 2.6.2.5
               sequence, 3.2.1.2     row, 11.1.23
     tautomer, 7.5.3     sphere, 3.6.15
     uniprot, 3.2.6     spherical, 2.6.2.8
     in.workspace, 2.6.2.4     superposition, 4.4.1
secondary aliphatic amines, 7.15     table, 3.6.19, 11.1.23
     structure, 2.6.4, 5.1.3          elements, 11.1.23
select, 3.6.12, 3.6.13, 11, 11.1.45     tools, 3.6.1, 3.6.2, 3.6.7, 3.6.8
     a tree branch, 11.7.2     whole, 3.6.11
     all, 3.6.14     workspace, 3.6.9, 3.6.17
     amino acid, 3.6.13selectioninvert, 2.6.2.6
     duplicates, 7.30selections, 3.6
     molecule, 3.6.12selectneighbors workspace, 3.6.17
     neighbors, 3.6.15     organized network, 7.27
          graphic, 3.6.16sequence, 2.6.4, 3.2, 3.2.1.2, 3.2.5, 3.2.6, 3.3, 7.4.17, 14.3
     object, 3.6.11     pattern, 3.2.1.2
     residue, 3.6.13, 3.6.18set, 7.3.31
          by number, 3.6.18     formal charges, 7.15
          number, 3.6.18setup ligand receptor, 10.1
     tree, 11.7.2shading, 5.3.12
     atom, 3.1.5, 3.6.3shadow, 5.10.2
     graphical, 3.1.5, 3.6.3share model, 8.1.4
     object, 3.1.5, 3.6.3shell preferences, 3.7.10
     purple.box, 2.6.3.23shift, 5.8.3
     residue, 3.1.5, 3.6.3shine, 2.7.2, 3.7.5
     workspace, 3.1.5, 3.6.3shineStyle, 3.7.3
selectall, 2.6.2.3show, 6.3.1, 11.1.39
selecting.neighbors, 3.6.16     hide column, 11.1.39
selection, 3.6.4, 3.6.5, 3.6.21, 5.3.4, 7.4.11, 11.4.18, 11.7.2, 11.7.4side, 7.3.29
     clear, 2.6.2.7     by side, 7.3.29
     neighbors, 2.6.2.8               stereo, 2.6.3.6
sigmaLevel, 4.3.6, 4.3.7     current view, 2.6.3.19
similarity, 7.28strain, 4.5.12, 7.24, 7.24.2, 10.4
single, 7.4.10structure, 4.3.3, 8, 11.6, 14.3
singlet, 7.4.7     analysis, 14.3.4
sites, 4.4.6     representation, 5.1
size, 4.2.3.1     smiles, 7.17.4
sketch accents, 5.10.3structures, 7, 7.1
     markush, 7.32.1style, 3.7.5
     smiles, 7.4.12substituent, 7.9.1, 7.9.2, 7.32.2, 10.5.2
     accents, 2.6.3.14, 5.10.3substructure, 7.10.4, 7.13
skin, 2.7.1, 5.1.4     template, 10.13
slab, 5.3.10, 5.13.1     alerts, 7.13
slice, 5.13superimpose, 2.6.8, 4.4.2, 4.4.6, 14.3.3
slide, 5.10.7.4, 6.2, 6.3.1, 6.6.1     3D, 4.4.3
     effects, 6.5     Calpha, 4.4.3
     movie, 5.16.1     arrange.grid, 4.4.5
          file, 6.2     backbone, 4.4.3
     navigation, 6.3.2     flexible, 7.34.3
     show, 6.3     heavy atoms, 4.4.3
     blend, 6.5     multiple, 4.4.4
     edit, 6.4.1     rigid, 7.34.1, 7.34.2
     effect, 6.5     substructure, 7.34.1, 7.34.2, 7.34.3
     smooth, 6.5superposition, 7.34, 7.35.1, 7.35.2, 14.3.3, 14.6.1
     transition, 6.5surface, 2.7.1, 3.7.5, 4.2.1, 4.2.2, 5.1.6, 5.3, 5.3.3, 5.3.4
slides, 5.16.1, 6, 6.1, 6.3     area, 4.5
smiles, 7.4.9, 7.11, 7.17, 7.17.3, 7.17.4     area, 4.5.5
smooth, 5.3.9.3surfaces, 4.2, 5.3.1, 5.3.2, 5.10.5
solid, 5.3.9.3symmetry, 4.3.1, 4.3.3, 14.3.8, 14.3.9
sort table, 2.6.10.4synthesize, 7.11.5
sorting compounds, 11.7synthetic feasibility, 7.11.5
sp3, 7.11.2system preferences, 3.7.11
spec, 2.7.2tab, 11.1.2, 11.1.21
speed, 5.10.7.2     pdb, 2.7.4
split, 7.33.1table, 3.3, 7.1.3, 7.3.24, 7.3.25, 7.3.28, 7.3.30, 7.3.31, 7.3.34, 7.3.35, 7.17.2, 7.20, 7.34.1, 10.10, 11, 11.1.6, 11.1.35, 11.1.40, 11.1.45, 11.4, 11.4.1, 11.4.4, 11.4.9, 11.4.11, 11.4.13, 11.4.14, 11.4.15, 11.4.16, 11.4.17, 11.4.18, 11.4.20, 11.7.1
spreadsheet, 7.17.2     alignment, 11.1.12
stacking, 4.2.5     clone, 11.1.16
standard table, 11.1     color, 11.1.10
standardize, 7.12     column format, 11.1.40
     table, 7.12     copy, 11.1.36, 11.1.37
start, 7.10.2     delete, 11.1.17
stereo, 3.7.6, 5.6, 7.3.28, 7.4.2     edit, 11.1.24
     bond, 7.4.2     filter, 11.1.43
     hardware, 2.6.3.7     find, 11.1.9
     side-by-side, 2.6.3.6          replace, 7.3.32
stereoisomer, 7.17.5     font, 11.1.11
stereoisomers, 7.22     grid, 11.1.5
stick, 3.7.5     histogram, 11.4.1
stl, 5.7     insert, 11.1.26
stop, 5.10.7.3     layout, 11.1.5
store, 2.6.3.19, 5.10.7.4     learning, 11.6
          row, 11.1.13     portrait, 11.1.18
     mouse, 11.1.47     print, 7.3.11, 11.1.4, 11.1.19
     navigation, 11.1.4     read, 11.1.2
     new column, 11.1.26     rename, 11.1.15
     plot, 11.4     right click, 11.1.14
     print, 11.1.19     row, 11.1.33
     rename, 11.1.15     rows, 2.6.10.7
     rightclick, 11.1.14     save, 7.3.9, 11.1.3, 11.1.4, 11.1.21
     save, 11.1.3     scale, 11.1.18
          selection, 11.1.3     scroll, 11.1.4
     search, 11.1.9     sdf, 7.3.9
     select, 11.1.23     select, 11.1.23
     setup, 11.1.18     setup, 11.1.18
     sort, 11.1.42     sort, 2.6.10.4, 7.3.5, 11.1.42
     split fragments, 7.3.33     standard, 11.1
     view, 11.1.5     view, 7.3.29
          save, 11.1.8     width, 11.1.4
     zoom translate, 7.3.30tables, 7.28, 11
     action, 11.1.47tag, 3.6.21, 10.5.7, 11.1.46
     alignment, 11.1.12tags, 3.6.21
     append, 11.1.43tautomer, 7.21
     clone, 11.1.16tautomers, 7.21
     color, 11.1.10temperature, 4.5.13
     column, 7.3.4, 11.1.26, 11.1.32, 11.1.39template, 7.4.6, 7.34
     columns, 7.3.8templates, 7.4.6
     compare, 7.3.22terminal, 7.3.28
     copy, 7.3.6tether, 10.12.1, 10.12.2
     cursor, 11.1.47text, 3.7.7, 6.6, 6.6.1, 6.6.7, 7.3.28, 7.10.4, 11.4.24
     delete, 11.1.14, 11.1.17     search, 7.5.4
     double.click, 11.1.47texture, 2.7.6
     edit, 7.3.17thoroughness, 7.20, 7.34
     excel, 7.3.10, 11.1.20three, 7.3.24
     filter, 7.3.12, 11.1.43threshold, 3.7.5
     find-replace, 7.3.13tier, 3.1.13
          to screen, 11.1.4     racemic, 7.17
     font, 11.1.11tools 3D, 2.6.6
     grid lines, 11.1.4     analysis, 2.6.7
     hide, 11.1.39     append rows, 2.6.10.7
     hyperlink, 7.3.15     extras, 2.6.9
     insert, 11.1.33          plot function, 2.6.9.1
     join, 2.6.10.5     superimpose, 2.6.8
     label, 7.3.14     table, 2.6.10
     landscape, 11.1.18          Learn, 2.6.10.1
     mark, 7.3.14          clustering, 2.6.10.3
     merge, 2.6.10.5, 7.3.23, 7.29          merge, 2.6.10.5
     mouse, 11.1.47          predict, 2.6.10.2
     name, 11.1.15tooltip, 11.4.26
     new, 11.1.1     balloons, 11.4.26
     options, 11.1.14torsion, 5.12.6, 10.5.4
     orientation, 11.1.18     angles, 5.12, 5.12.6
trace, 5.1.10     fog, 2.6.3.5
transitions, 6     macroshape, 2.6.3.22
translate, 3.1.3, 5, 5.12, 7.3.30     menu, 2.6.3
translation, 5.12.3, 11.4.17     mesh clip, 5.13.1
transparent, 5.3.9.3     perspective, 2.6.3.9
     background, 5.15.3     selection level, 2.6.3.3
tree, 7.25.7, 11.7.2, 11.7.3, 11.7.4          mode, 2.6.3.4
     distance, 7.25.3     shadow, 2.6.3.13
     edit, 7.25.4     sketch accents, 2.6.3.14
     reorder, 7.25.3     slide show, 6.3.1
triplet, 7.4.7     tools, 2.6.3
tsv, 11.1.21     tree, 11.7.4
tut analyze alternative orientations, 14.3.11     undisplay all, 2.6.3.1
          occupancy, 14.3.10virtual ligand screening, 9
          symmetry, 14.3.9virus, 4.3.3
tut3e, 14.3.12visualize, 7.27
tutorial 2D pharmacophore, 14.4.6     apf fields, 10.3.11
     3D pharmacophore, 14.4.5     chemical space, 7.27
     chemical clustering, 14.4.3     ligand strain, 10.3.10
          search, 14.4.2volume, 7.4.9
     molecular documents, 14.2wavefront, 2.7.6, 5.3.11
tutorials, 14web, 14.2
two, 7.3.24     browser, 2.6.1.12
unclip, 5.3.10, 5.13.1weight, 7.11
undisplay, 3.1.4, 5.1.7weighted, 11.7.1
     origin, 5.8.11width, 11.1.22
undo, 2.6.2.9, 3.7, 7.4.11, 10.5.5window, 3.1.13
     redo, 10.5.5windows, 3.1.13.1, 7.10.1
uniprot, 3.2.6wire, 2.7.1, 3.7.5, 5.1.1
unique, 7.3.28, 7.30wireBondSeparation, 3.7.1
unit, 4.3.3workspace, 3.1.4, 7.7.2
unsatisfied hydrogen bonds, 10.3.8     panel, 3.1.4
     hyrdrogen bonds, 10.3.8     selection, 3.6.9
unusual peptide, 3.3     navigation, 3.6.10
     activeicm, 6.12write, 3.1.14, 3.5, 11.4.21
user, 7.10.5     excel, 7.2.3
     defined groups, 10.5.3     image, 2.6.1.15
     modifiers, 10.5.3     images, 5.15
user-defined groups, 7.4.5     pdb, 3.5
uundisplay-all, 2.6.3.1     image, 2.6.1.15
van der waal, 5.8.14     object, 3.1.9
variable, 3.7.7     picture, 2.6.1.15
verbose, 7.20     project, 2.6.1.8, 3.1.10
     large sdf files, 7.1.2     table, 11.1.3
vicinity, 7.20     ray, 2.6.5
video, 1, 5.16, 5.16.1, 5.16.2xi, 5.8.5
view, 2.6.3.19, 6.3.1, 7.3.28xls, 7.2.3
     animate view, 2.6.3.15xlsx, 7.2.3
     center, 2.6.3.20xstick, 5.1.2
     color background, 2.6.3.18youtube, 1

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