Oct 25 2010 Feedback.
Contents
 
Introduction
How Tos & Videos
Getting Started
Protein Structure
Molecular Graphics
Slides and Documents
ActiveICM
Protein Superposition
Tutorials
 
Index

Index

2D, 5.4.9     light, 3.3.1.14.3
3D, 5.4.9, 9.3     lightPosition, 3.3.1.14.3
     object, 3.4.5.5     mapLineWidth, 3.3.1.14.3
ActiveICM, 3.3.1.10     occupancy Radius Ratio, 3.3.1.14.3
Atom Single Style, 3.3.1.14.3     occupancyDisplay, 3.3.1.14.3
BlastDB Directory, 3.3.1.14.2     quality, 3.3.1.14.3
     alphas, 5.4.3     rainbow Bar Style, 3.3.1.14.4
COLLADA, 3.3.1.5     resLabelDrag, 3.3.1.14.7
CPK, 3.4.1, 5.1.3     resize Keep Scale, 3.3.1.14.3
Clash Threshold, 3.3.1.14.10     ribbonRatio, 3.3.1.14.9
Dock Directory, 3.3.1.14.2     ribbonWidth, 3.3.1.14.9
Editor, 3.3.1.14.2     ribbonWorm, 3.3.1.14.9
FILTER.Z, 3.3.1.14.2     rocking, 3.3.1.14.4
     gz, 3.3.1.14.2          Range, 3.3.1.14.4
     uue, 3.3.1.14.2          Speed, 3.3.1.14.4
Filter.zip, 3.3.1.14.2     selectionStyle, 3.3.1.14.3
GIF, 3.3.1.13     site Label Drag, 3.3.1.14.7
GRAPHIC.store Display, 3.3.1.14.3               Shift, 3.3.1.14.7
     NtoC Rainbow, 3.3.1.14.4     siteArrow, 3.3.1.14.7
     alignment Rainbow, 3.3.1.14.4     stereoMode, 3.3.1.14.3
     atomLabelShift, 3.3.1.14.7     stickRadius, 3.3.1.14.1
     ballStickRatio, 3.3.1.14.1     surfaceDotDensity, 3.3.1.14.3
     center Follows Clipping, 3.3.1.14.3     surfaceDotSize, 3.3.1.14.3
     clash Style, 3.3.1.14.3     surfaceProbeRadius, 3.3.1.14.3
     clashWidth, 3.3.1.14.3     transparency, 3.3.1.14.3
     clip Grobs, 3.3.1.14.3     wire Width, 3.3.1.14.1
          Skin, 3.3.1.14.3     wormRadius, 3.3.1.14.9
          Static, 3.3.1.14.3     xstick Backbone Ratio, 3.3.1.14.1
     discrete Rainbow, 3.3.1.14.4          Hydrogen Ratio, 3.3.1.14.1
     displayLineLabels, 3.3.1.14.7          Style, 3.3.1.14.1
     displayMapBox, 3.3.1.14.3          Vw Ratio, 3.3.1.14.1
     distance Label Drag, 3.3.1.14.1GROB.arrowRadius, 3.3.1.14.3
     dnaBallRadius, 3.3.1.14.9     atomSphereRadius, 3.3.1.14.3
     dnaRibbonRatio, 3.3.1.14.9     contourSigmaIncrement, 3.3.1.14.3
     dnaRibbonWidth, 3.3.1.14.9     relArrow Size, 3.3.1.14.3
     dnaRibbonWorm, 3.3.1.14.9     relArrowHead, 3.3.1.14.3
     dnaStickRadius, 3.3.1.14.9GUI.auto Save, 3.3.1.14.4
     dnaWormRadius, 3.3.1.14.9               Interval, 3.3.1.14.4
     font Scale, 3.3.1.14.7     max Sequence Length, 3.3.1.14.4
     fontColor, 3.3.1.14.7     table Row Mark Colors, 3.3.1.14.4
     fontLineSpacing, 3.3.1.14.7     workspace Folder Style, 3.3.1.14.4
     grobLineWidth, 3.3.1.14.3     workspaceTabStyle, 3.3.1.14.4
     hbond Ball Period, 3.3.1.14.1How To Guide, 2
               Style, 3.3.1.14.1Html, 4.1.8
     hbondAngleSharpness, 3.3.1.14.1Hydrogen.bond, 3.3.1.14.5
     hbondMinStrength, 3.3.1.14.1ICM Browser How To, 2.1
     hbondStyle, 3.3.1.14.1IMAGE.bondLength2D, 3.3.1.14.6
     hbondWidth, 3.3.1.14.1     color, 3.3.1.14.6
     hetatmZoom, 3.3.1.14.1     compress, 3.3.1.14.6
     hydrogenDisplay, 3.3.1.14.1     gammaCorrection, 3.3.1.14.6
     lineWidth, 3.3.1.14.6     logo, 3.3.1.14.8
     lineWidth2D, 3.3.1.14.6     markSize, 3.3.1.14.8
     orientation, 3.3.1.14.6     orientation, 3.3.1.14.8
     paper Size, 3.3.1.14.6     paper Size, 3.3.1.14.8
     previewResolution, 3.3.1.14.6     previewer, 3.3.1.14.8
     previewer, 3.3.1.14.6     rainbowStyle, 3.3.1.14.8
     print, 3.3.1.14.6     seriesLabels, 3.3.1.14.8
     printerDPI, 3.3.1.14.6PNG, 3.1.19, 3.3.1.13
     scale, 3.3.1.14.6Projects Directory, 3.3.1.14.2
     stereoAngle, 3.3.1.14.6Prosite Dat, 3.3.1.14.2
     stereoBase, 3.3.1.14.6     Viewer, 3.3.1.14.2
     stereoText, 3.3.1.14.6RMSD, 8.2
Icm Prompt, 3.3.1.14.10Real Format, 3.3.1.14.10
Inx Directory, 3.3.1.14.2     Label Shift, 3.3.1.14.7
JPEG, 3.3.1.13          Style, 3.3.1.14.7
KMZ, 3.3.1.5SEQUENCE.site Colors, 3.3.1.14.4
Log Directory, 3.3.1.14.2SITE.label Style, 3.3.1.14.7
MOVIE.frame Grab Mode, 3.3.1.14.4     labelOffset, 3.3.1.14.7
Map Atom Margin, 3.3.1.14.10     wrap Comment, 3.3.1.14.7
     Sigma Level, 3.3.1.14.10SLIDE.ignore Background Color, 3.3.1.14.4
Mnconf, 3.3.1.14.10          Fog, 3.3.1.14.4
Movie.fade Nof Frames, 3.3.1.14.4Select Min Grad, 3.3.1.14.10
     quality, 3.3.1.14.4Show Res Code In Selection, 3.3.1.14.7
          Auto, 3.3.1.14.4Swissprot, 3.3.1.5
NMR, 4.1.1     Dat, 3.3.1.14.2
Output Directory, 3.3.1.14.2Temp Directory, 3.3.1.14.2
PDB, 4.1.7, 4.1.8, 4.2Var Label Style, 3.3.1.14.7
     Directory, 3.3.1.14.2Water Radius, 3.3.1.14.10
          Style, 3.3.1.14.2Wire Style, 3.3.1.14.1
     Search, 3.3.2.12, 3.3.2.13, 3.3.2.14, 3.3.2.15, 3.3.2.16X-ray, 4.1.1
          Field, 3.3.2.13XPDB Directory, 3.3.1.14.2
          Homology, 3.3.2.15Xstick, 3.4.1, 5.1.3
          Identity, 3.3.2.14a-bright, 3.4.2
          Sequence, 3.3.2.16active, 7
     convert, 4.2activeICM, 7.1
     pattern, 4.1.4activeicm, 7, 7.4, 7.6, 7.6.1
     query, 4.1.2, 4.1.4     advanced, 7.6
     search, 4.1.1, 4.1.2, 4.1.4, 4.1.5, 4.1.6     control, 7.5
     sensitive search, 4.1.5add image album, 5.11.4
     sequence, 4.1.4album, 5.11.4
     similarity, 4.1.5align, 3.1.15
PFAM, 3.3.1.5alpha, 3.4.2
PLOT.Yratio, 3.3.1.14.8     channel, 3.3.1.14.6
     color, 3.3.1.14.8ambient, 3.4.2
     date, 3.3.1.14.8angle, 5.4.5, 5.5, 5.8.6
     draw Tics, 3.3.1.14.8animate, 3.3.3.15, 5.6.6
     font, 3.3.1.14.8     view, 5.6.6
     fontSize, 3.3.1.14.8animation, 6.1, 6.1.1, 6.1.2, 6.1.3, 6.1.4
     labelFont, 3.3.1.14.8     store, 6.1.4
     lineWidth, 3.3.1.14.8animations, 6
     lines, 3.3.3.17     object, 5.8.7
     lines, 3.3.3.17construct, 3.3.1.1, 6.1.1
arrange, 3.1.18     molecule, 3.3.1.1
     window, 3.1.18     object, 3.3.1.1
arrow, 3.3.1.1.3convert, 4.2
assign, 5.1.6converting pdb, 4.2
atom, 3.3.1.14.5, 9.2.1, 9.2.2cpk, 5.1.8
atomLabelStyle, 3.3.1.14.7crash, 3.3.2.11
auto play slide, 7.5creat, 6.6.1
background, 5.2.2cross section, 5.9
     image, 5.2.2current.slide, 7.5
backup, 3.3.2.11custom, 5.8
ball, 3.3.1.14.5     label, 5.4.9
     and stick, 3.4.1, 5.1.3     rotation, 5.8.2
bank, 4.1.1data, 4.1.1
basicsel, 3.2.3default, 3.1.17
bond, 4.4delete, 3.3.2.1, 6.6.7
bonding, 5.1.10     label, 5.4.10
     preferences, 3.3.1.14.1     all, 3.3.2.2
box, 3.3.1.1.4, 3.3.1.14.7, 5.4.16     angle.label, 5.5.4
break, 3.1.10     distance.label, 5.5.4
build, 6.1.1     label, 5.4.10
buttons, 7.6     selection, 3.3.2.1
bye, 3.3.1.17deleteall, 3.3.2.2
cache, 7.6.1depth, 3.4.5.10
center, 3.1.2, 3.3.3.20, 5.8, 5.8.5dialog, 6.6.5
change selection, 3.2.4diffuse, 3.4.2
     speed range, 6.1.2dihedral, 5.4.5
charge, 3.3.3.21, 5.4.2directories preferences, 3.3.1.14.2
chi, 5.4.5directory, 3.3.1.14
clash, 3.3.1.14.5, 5.4.15display, 3.1.7, 3.1.18, 3.3.1.14, 4.4, 5.4.15, 5.10, 9.2
clear display and planes, 3.3.3.2     delete distances, 5.5.4
     planes, 3.3.3.2     dihedral, 5.5.3
click, 3.1.16, 5.7, 5.8     distance restraints, 5.4.14
clip, 3.4.5.8, 5.9.1     distance2, 5.5.1
clipboard, 5.11.2          angles, 5.5
clipping planes, 3.1.3, 5     formal charge, 5.1.2
     tool, 5.9     gradient, 5.4.17
     tools, 5.9     hydrogen, 5.1.1
collada, 3.4.5, 3.4.5.4     mesh, 3.4.5.2
color, 5.2, 5.2.1, 5.4.2, 5.4.3     planar angle, 5.5.2
     display mesh, 3.4.5.7     structure, 3.1.8
     background, 3.3.3.18     tab, 3.4.1
     distance, 5.4.11     tether, 5.4.13
     mesh, 3.4.5.7     toggle, 5.4.16
coloring, 5.2.1     CPK, 5.1.8
combo display style, 3.3.1.14.9     angle, 5.5.2
compatible, 3.3.1.8     dihedral.angle, 5.5.3
compress, 3.3.1.14.6     distace, 5.4.11
connect, 3.4.5.6, 5.8, 5.8.7     distance, 5.4.14, 5.5.1
     energy.gradient, 5.4.17     powerpoint, 7, 7.1, 7.2
     hydrogen, 5.1.1energy, 5.4.15
          polar, 5.1.1escaping, 3.1.3
     macroshape, 3.4.5.3exit, 3.3.1.17
     meshes, 3.4.5.2extract icb, 3.3.1.4
          and display.macroshape, 3.4.5     icb, 3.3.1.4
     origin, 5.4.12file, 3.3.1.2, 4.1.7
     potential, 3.3.3.21     close, 3.3.1.11
     representations, 3.4.1, 5.1.3     compatible, 3.3.1.8
     restraints, 5.4.14     export, 3.3.1.10
     ribbon, 5.1.6     load, 3.3.1.5
     skin, 5.1.7     menu, 3.3.1
     surface, 3.4.5.1, 5.1.9     password, 3.3.1.9
     surfaces, 3.4.5     quick image, 3.3.1.12
     tethers, 5.4.13     icb, 3.1.14
     wire, 5.1.4     recent, 3.3.1.15
     xstick, 5.1.5     bak, 3.3.2.11
distance, 5.4.11, 5.5filter selection, 3.2.5
     label, 3.3.1.14.7          tut, 9.2.4
distances, 3.4.3fog, 3.3.3.5, 5, 5.6.1
document, 3.3.1.1.1, 6.6.4, 6.6.5font, 3.3.1.14, 3.3.1.14.7, 5.4.2, 5.4.3
     navigation, 6.6.6     preferences, 3.3.1.14.7
documents, 5.11.4formal charge, 5.1.2
     envelope, 3.4.1, 5.1.3front, 3.4.5.8, 5.9.1
     surface, 3.3.1.14.5full scene antialias, 3.3.3.10
dots, 3.1.10     screen, 3.3.3.8
dotted lines, 3.1.10general preferences, 3.3.1.14.5
drag, 3.1.15, 3.3.1.14.7, 5.4.3, 6.6.4generalselecttools, 3.2.2
     residue label, 3.3.3.16getting started, 3
draganddrop, 3.1.15google, 3.3.1.5
drop, 3.1.15, 6.6.4     objects, 3.4.5.4
dsPocket, 3.1.12     3D, 3.4.5, 3.4.5.4
easy rotate, 3.3.3.12graphical display tutorial, 9.1
edit ligand tools, 3.3.2.17               2D3D labels, 9.1.4
     menu, 3.3.2               annotation, 9.1.2
     molecular document, 6.6.1               color representation, 9.1.1
     selection, 3.3.2.5               labels, 9.1.3
editpdbsearch, 3.3.2.12     controls, 5
electron density map, 3.3.1.5     effects, 5.6
electrostatic potential, 3.3.3.21     preferences, 3.3.1.14.3
elegant sketch, 5.6.4     tips, 3.1.3
embed browser, 7.3     shadow, 3.3.3.13, 5.6.2
     powerpoint03, 7.1grob, 3.3.1.14.5
     powerpoint07, 7.2gui, 3.3.1.14.4
     activeicm, 7.5     menus, 3.3
          script, 7.5     preferences, 3.3.1.14.4
     browser, 7, 7.3     tabs, 3.4
     firefox, 7, 7.3h-bond, 4.4
     internet.explorer, 7, 7.3hardware stereo, 3.3.3.7
     microsoft, 7header, 4.1.8
     quality, 3.3.3.11     annotation, 5.4.7
how to activeicm, 2.2     atom, 5.4.1
               create molecular documents, 2.2.3     atoms, 5.4.2
                    slides, 2.2.2     color, 5.4.8
               download, 2.2.1     custom, 5.4.9
               ppt, 2.2.4     delete, 5.4.1, 5.4.10
               web, 2.2.5     distance, 5.4.11
          display, 3.1     drag, 3.3.3.16
          icm browser convert display pocket, 2.1.5     move, 3.3.3.16, 5.4.4
                    distances angles, 2.1.8     residue, 5.4.1
                    get started, 2.1.1     residues, 5.4.3
                    graphical display, 2.1.2     site, 5.4.1
                         effects, 2.1.3     sites, 5.4.6
                    images, 2.1.6     variable, 5.4.1
                    labels annotation, 2.1.4     variables, 5.4.5
                    superimpose, 2.1.7labeling, 5.4.1
html, 3.3.1.1.1, 3.3.1.10, 6.6.1, 6.6.6labels, 5.4
hydrogen, 4.4, 5.1.10     distances, 5.4.11
     bond, 5.1.10     tab, 3.4.3
hyperlink, 6.6.1, 6.6.2landscape, 3.3.1.14.6
iSee, 3.1.14, 3.3.1.1.1, 3.3.1.4, 3.3.1.10, 5.11.4, 9.3lasso, 9.2.1, 9.2.2
image, 3.1.19, 3.3.1.14, 3.3.1.14.5, 5.11.1, 5.11.2, 5.11.3, 5.11.4, 6.6.3layer, 5.10
     advanced, 5.11.3layers, 5.10
     clipboard, 5.11.2ligand editor preferences, 3.3.2.18
     preferences, 3.3.1.14.6     pocket, 3.1.12
     multiple, 3.3.1.5light, 3.4.2
     quality, 3.3.3.11     tab, 3.4.2
     quick, 3.3.1.12lighting, 5.3
images, 5.11line, 3.3.1.14.5
insert, 6.6.4lineWidth, 3.3.1.14.3
     image, 6.6.3links, 3.2.14
     script, 6.6.4load, 3.3.1.2, 3.3.1.15, 4.1.7
interactive, 9.3     pdb, 4.1.7
interrupt, 6.1.3     pdb, 4.1.3
     animation, 6.1.3lock, 3.4.5.8, 5.9.1
introduction icm browser, 1logout, 3.3.1.17
isee, 6.6.5macros, 7.6
jpg, 5.11, 5.11.1macroshape, 3.3.3.22, 3.4.5.3
keyboard mouse, 5.7make, 3.3.1.1.2, 6.1.1
kmz, 3.4.5, 3.4.5.4     animation, 6.1.1
label, 3.3.1.14.7     images, 5.11
     annotation, 5.4.7     molecular document, 6.6
     atoms, 5.4.2     selection, 3.2
     color, 5.4.8     molecule, 3.3.1.1
     move, 5.4.4     object, 3.3.1.1
     residues, 5.4.3making molecular slides, 6.2
     sites, 5.4.6     html, 6.6
     variables, 5.4.5map, 3.3.1.14.7
     2D, 3.4.3materials, 3.4.5
     3D, 3.4.3, 5.4.1maxColorPotential, 3.3.1.14.10
     windows, 3.3.4pdbsearchresults, 4.1.3
mesh, 3.4.5.6, 3.4.5.8, 3.4.5.9, 3.4.5.10, 4.3, 5.9.1pdbsearcsequence, 3.3.2.16
     clip, 3.4.5.8perspective, 3.3.3.9, 5.6.5
     options, 3.4.5.5phi, 5.4.5
     save, 3.4.5.9pick, 9.2.1, 9.2.2
     options, 3.4.5.5picking, 5
meshes, 3.4.5     atoms, 3.1.3
mmff type, 5.4.2     residues, 3.1.3
mnSolutions, 3.3.1.14.10picture, 3.1.19, 3.3.1.12, 6.6.3
molecular animations slides, 6     tips, 3.1.19
          transitions, 6.1planar, 5.4.5
     document, 3.3.1.1.1     angle, 5.5.2
     documents, 9.3plane, 3.4.5.8, 5.9, 5.9.1, 5.10
     graphics molecule representation, 5.1plot, 3.3.1.14, 3.3.1.14.8
mouse, 3.1.2, 5.7, 5.8     preferences, 3.3.1.14.8
move, 3.1.15, 3.1.17, 3.3.3.19, 3.4.5.6, 5.8, 5.8.7png, 3.3.1.12, 5.11, 5.11.1, 6.6.3
     resize mesh, 3.4.5.6pocket, 3.1.12, 4.3
     slide, 6.4.1     peptide, 3.1.12
     structure, 5.8     properties, 3.1.12
     tools, 5portait, 3.3.1.14.6
     rotate, 5.7postscript, 3.3.1.14.6
     slab, 5.7powerpoint, 9.3
     translate, 5.7ppt, 7.4, 7.6
     z-rotation, 5.7preferences, 3.3.1.14
     zoom, 5.7presentatio, 6.6.5
navigate workspace, 3.2.7presentation, 7, 7.4
neighbors, 9.2.3presentations, 6
     table, 3.3.1.1.2printer.resolution, 3.3.1.14.6
object, 3.1.15, 3.3.1.7.1, 3.3.1.7.2project, 3.3.1.4
objects, 4.2     close, 3.3.1.11
occlusion, 3.4.5.10     rename, 3.3.1.7
     shading, 3.4.5.10properties, 5.4.2
older version, 3.3.1.8propogate, 9.2.5
omega, 5.4.5protect, 6.6.7
open, 3.3.1.2protein structure, 4
     with password, 3.3.1.3     superposition, 8
     password, 3.3.1.3          select superposition, 8.1
origin, 5.4.12psi, 5.4.5
other selection, 3.2.13purple box, 3.3.3.23
package.activeicm, 7.5qs hydrogen bond, 4.4
pdb, 3.3.1.5, 4.1.1     quick pocket, 4.3
     html, 4.1.8     selection, 9.2.1
     search, 4.1          ws, 9.2.2
     sensitive query, 4.1.5quality, 3.3.1.13, 3.3.1.14.5
     recent, 3.3.1.16query pdb, 4.1.2
     search, 3.1.1, 3.4.4, 4.1.3          sequence, 4.1.4
     table, 4.1.3quick, 3.1.19
pdbsearchfield, 3.3.2.13     start chain breaks, 3.1.10
pdbsearchhomology, 3.3.2.15          move structure, 3.1.2
pdbsearchidentity, 3.3.2.14          read pdb, 3.1.1
          selection, 3.1.4     object, 3.1.13
               level, 3.1.5     project icb, 3.1.14
          what is selected, 3.1.6     slide, 6.4
     dispalay.distance, 5.5.1     image, 3.1.19, 3.3.1.13
     start color, 3.1.11     object, 3.1.13
quit, 3.3.1.17     password, 3.3.1.9
radius, 9.2.3     picture, 3.3.1.13
rainbow, 3.3.1.14.5, 5.4.16     project, 3.1.14, 3.3.1.6, 3.3.1.7, 3.3.1.8
range, 6.1.2saving, 3.3.1.6
ratio.selection, 3.3.1.14.5     project, 3.3.1.6
read, 3.3.1.2, 3.3.1.7.1, 3.3.1.15, 4.1.1, 4.1.7scale, 3.3.1.14.5
     pdb, 3.1.1, 4.1.3script, 6.6.4, 6.6.5
rear, 3.4.5.8, 5.9.1search in workspace, 3.3.2.4
recent files, 3.3.1.15     in.workspace, 3.3.2.4
     pdb codes, 3.3.1.16secondary.structure, 5.1.6
recover, 3.3.2.11select amino acid, 3.2.9
rectangle, 9.2.1, 9.2.2     neighbors, 3.2.10
redo, 3.3.2.10          graphic, 3.2.11
reload, 3.3.1.7.1, 3.3.1.7.2     object, 3.2.8
reloading object not running, 3.3.1.7.2     atom, 3.1.4, 3.1.5, 3.1.6
reloadingobjectrunning, 3.3.1.7.1     graphical, 3.1.4, 3.1.5, 3.1.6
remove, 3.1.10     object, 3.1.4, 3.1.5, 3.1.6
rename project, 3.3.1.7     purple.box, 3.3.3.23
representation, 3.3.3.19     residue, 3.1.4, 3.1.5, 3.1.6
residue, 3.3.1.14.7     workspace, 3.1.4, 3.1.5, 3.1.6
     propogate, 9.2.5selectall, 3.3.2.3
residues, 4.3selecting.neighbors, 3.2.11
resize, 3.4.5.6, 5.11.3selection, 9.2, 9.2.1, 9.2.2
restore, 3.3.2.11, 3.4.5.8, 5.9.1     clear, 3.3.2.7
     recent backup, 3.3.2.11     neighbors, 3.3.2.8
results, 4.1.6     toolbar, 3.2.1
ribbon, 3.1.10, 3.3.1.14.9, 3.4.1, 5.1.3, 5.1.6     alignment, 3.2.13
     preferences, 3.3.1.14.9     all, 3.3.2.3
     style, 3.3.1.14.9     alter, 3.2.4
     breaks, 5.1.6     amino, 3.2.9
     cylinders, 5.1.6     atom, 3.2.1, 3.3.2.5
     smooth, 5.1.6     basic, 3.2.3
     worm, 5.1.6     change, 3.2.4
ribbonColorStyle, 3.3.1.14.9     clear, 3.3.2.7
right, 3.1.16     filter, 3.2.5, 3.3.2.5, 9.2.4
     click, 3.1.16     graphical, 3.2.1, 3.2.11
rock, 3.3.3.15, 5.6.6, 6, 6.1, 6.1.1     invert, 3.3.2.6
     speed, 6.1.2     lasso, 3.2.1
rotate, 3.1.2, 3.3.3.15, 5, 5.6.6, 5.8, 5.8.1, 5.8.2, 6, 6.1, 6.1.1     level, 3.3.3.3
     easy, 3.3.3.12     mode, 3.3.3.4
     speed, 6.1.2     near atoms, 3.3.2.8
rotation, 3.1.3, 5.8.1     neighbors, 3.2.10, 3.2.12, 3.3.2.5, 3.3.2.8
ruler, 5.4.16     object, 3.2.8
save, 3.4.5.9, 5.11.1, 6.1.4     other, 3.2.13
     image, 5.11.1     pick, 3.2.1
     residue, 3.3.2.5, 9.2.5superimpose, 8.2
     sphere, 3.2.10surface, 3.3.1.14.5, 3.4.1, 5.1.3, 5.1.9
     spherical, 3.3.2.8, 9.2.3surfaces, 3.4.5.1
     superposition, 8.1surrounding, 4.3
     table, 3.2.13tab pdb, 3.4.4
     toolbar, 3.2.1table new, 3.3.1.1.2
     tools, 3.2.2, 3.2.3, 3.2.4, 3.2.5text, 3.3.1.14.7, 6.6, 6.6.1, 6.6.6
     whole, 3.2.8texture, 3.4.5
     workspace, 3.2.6, 3.2.12threshold, 3.3.1.14.5
selectioninvert, 3.3.2.6tier, 3.1.17
selections, 3.2torsion, 5.8.6
selectneighbors workspace, 3.2.12     angles, 5.8, 5.8.6
sequences, 4.1.1transitions, 6
shading, 3.4.5.10translate, 3.1.2, 5, 5.8
shadow, 5.6.2translation, 3.1.3, 5.8.3
shell preferences, 3.3.1.14.10transparent, 3.4.5.7
shift, 5.4.3     background, 5.11.3
shine, 3.3.1.14.5, 3.4.2tutorial graphical selections, 9.2
shineStyle, 3.3.1.14.3     molecular documents, 9.3
side by side stereo, 3.3.3.6tutorials, 9
sketch accents, 5.6.3unclip, 3.4.5.8, 5.9.1
     accents, 3.3.3.14, 5.6.3undisplay, 3.1.7, 5.1.1
skin, 3.4.1, 5.1.3, 5.1.7     origin, 5.4.12
slab, 3.4.5.8, 5.9.1undo, 3.3.1.14, 3.3.2.9
slice, 5.9use activeicm, 7.4
slide, 6.1.4, 6.6.1uundisplay-all, 3.3.3.1
     effects, 6.5van der waal, 5.4.15
     navigation, 6.3.1variable, 3.3.1.14.7
     show, 6.3view, 3.3.3.19
     blend, 6.5     animate view, 3.3.3.15
     effect, 6.5     center, 3.3.3.20
     smooth, 6.5     color background, 3.3.3.18
     transition, 6.5     fog, 3.3.3.5
slides, 6, 6.2, 6.3     macroshape, 3.3.3.22
spec, 3.4.2     menu, 3.3.3
speed, 6.1.2     mesh clip, 5.9.1
sphere, 3.3.1.1.5     perspective, 3.3.3.9
spherical selection, 9.2.3     selection level, 3.3.3.3
stereo, 3.3.1.14.6          mode, 3.3.3.4
     hardware, 3.3.3.7     shadow, 3.3.3.13
     side-by-side, 3.3.3.6     sketch accents, 3.3.3.14
stick, 3.3.1.14.5     tools, 3.3.3
stop, 6.1.3     undisplay all, 3.3.3.1
store, 3.3.3.19, 6.1.4wavefront, 3.4.5, 3.4.5.9
     current view, 3.3.3.19web, 9.3
structure representation, 5.1.3     browser, 3.3.1.10
     display, 3.1.8window, 3.1.17
     undisplay, 3.1.8windows, 3.1.18
structures, 4.1.1wire, 3.3.1.14.5, 3.4.1, 5.1.3, 5.1.4
style, 3.3.1.14.5wireBondSeparation, 3.3.1.14.1
workspace, 3.1.7, 9.2.2 
     panel, 3.1.7 
     selection, 3.2.6 
     navigation, 3.2.7 
write, 3.1.19, 5.11.1 
     image, 3.3.1.13 
     image, 3.3.1.13 
     object, 3.1.13 
     picture, 3.3.1.13 
     project, 3.1.14, 3.3.1.6 
xi, 5.4.5 
xstick, 5.1.5 
zoom, 3.1.2, 3.1.3, 5, 5.8, 5.8.4 

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