|
Mar 8 2010
|
Index
| 2D, 5.3.1, 11.2.2, 11.2.7, 11.11, 12.7, 12.8, 12.14, 19.4.4 | uue, 3.1.15.2 |
| to 3D, 12.6 | FTP.createFile, 3.1.15.11 |
| 3d labels, 19.4.4 | keep File, 3.1.15.11 |
| depiction, 12.8 | proxy, 3.1.15.11 |
| 3D, 5.3.1, 11.2.2, 11.2.7, 11.2.10, 11.11, 12.8, 19.4.4 | Filter.zip, 3.1.15.2 |
| ligand editor.add substituent, 2.12.13 | Force Auto Bond Typing, 3.1.15.11 |
| atomic energy circles, 2.12.7 | Formula, 18.6.12, 18.6.15 |
| begin edit, 2.12.11 | Frequently Asked Questions, 18 |
| center ligand, 2.12.10 | GIF, 3.1.14, 17, 17.1 |
| display, 2.12.4 | GRAPHIC.store Display, 3.1.15.3 |
| dock, 2.12.20 | NtoC Rainbow, 3.1.15.4 |
| dock-tether, 2.12.21 | alignment Rainbow, 3.1.15.4 |
| edit 2D, 2.12.15 | atomLabelShift, 3.1.15.7 |
| fragment linkers, 2.12.23 | ballStickRatio, 3.1.15.1 |
| hydrogen atoms, 2.12.8 | center Follows Clipping, 3.1.15.3 |
| bond, 2.12.6 | clash Style, 3.1.15.3 |
| ligand setup, 2.12.1 | clashWidth, 3.1.15.3 |
| minimization, 2.12.19 | clip Grobs, 3.1.15.3 |
| multiple substituent, 2.12.14 | Skin, 3.1.15.3 |
| preferences, 2.12.3 | Static, 3.1.15.3 |
| purple box, 2.12.18 | discrete Rainbow, 3.1.15.4 |
| receptor setup, 2.12.2 | displayLineLabels, 3.1.15.7 |
| save spreadsheet, 2.12.17 | displayMapBox, 3.1.15.3 |
| screen substituents, 2.12.22 | distance Label Drag, 3.1.15.1 |
| surface, 2.12.5 | dnaBallRadius, 3.1.15.9 |
| undo redo, 2.12.12 | dnaRibbonRatio, 3.1.15.9 |
| unsatisfied hydrogen bonds, 2.12.9 | dnaRibbonWidth, 3.1.15.9 |
| object, 5.5.5 | dnaRibbonWorm, 3.1.15.9 |
| 4D, 19.15 | dnaStickRadius, 3.1.15.9 |
| 64, 18.1.2 | dnaWormRadius, 3.1.15.9 |
| APF, 12.24.5 | font Scale, 3.1.15.7 |
| template, 12.24.4 | fontColor, 3.1.15.7 |
| ActiveICM, 3.1.11 | fontLineSpacing, 3.1.15.7 |
| Area, 18.3.27 | grobLineWidth, 3.1.15.3 |
| Atom Single Style, 3.1.15.3 | hbond Ball Period, 3.1.15.1 |
| Bad Groups, 18.6.12, 18.6.15 | Style, 3.1.15.1 |
| Beep, 3.1.15.11 | hbondAngleSharpness, 3.1.15.1 |
| Blast, 18.3.26 | hbondMinStrength, 3.1.15.1 |
| BlastDB Directory, 3.1.15.2 | hbondStyle, 3.1.15.1 |
| alphas, 5.1.15 | hbondWidth, 3.1.15.1 |
| COLLADA, 3.1.6 | hetatmZoom, 3.1.15.1 |
| CPK, 5.1, 5.1.2 | hydrogenDisplay, 3.1.15.1 |
| Clash Threshold, 3.1.15.10 | light, 3.1.15.3 |
| DNA, 3.1.1.4, 3.4.3, 9 | lightPosition, 3.1.15.3 |
| Display, 18.3.27 | mapLineWidth, 3.1.15.3 |
| Dock Directory, 3.1.15.2 | occupancy Radius Ratio, 3.1.15.3 |
| Docking, 18.3.27 | occupancyDisplay, 3.1.15.3 |
| Editor, 3.1.15.2 | quality, 3.1.15.3 |
| FILTER.Z, 3.1.15.2 | rainbow Bar Style, 3.1.15.4 |
| gz, 3.1.15.2 | resLabelDrag, 3.1.15.7 |
| ribbonRatio, 3.1.15.9 | graphics crash, 18.9.1 |
| ribbonWidth, 3.1.15.9 | IMAGE.bondLength2D, 3.1.15.6 |
| ribbonWorm, 3.1.15.9 | color, 3.1.15.6 |
| rocking, 3.1.15.4 | compress, 3.1.15.6 |
| Range, 3.1.15.4 | gammaCorrection, 3.1.15.6 |
| Speed, 3.1.15.4 | generateAlpha, 3.1.15.6 |
| selectionStyle, 3.1.15.3 | lineWidth, 3.1.15.6 |
| site Label Drag, 3.1.15.7 | lineWidth2D, 3.1.15.6 |
| Shift, 3.1.15.7 | orientation, 3.1.15.6 |
| siteArrow, 3.1.15.7 | paper Size, 3.1.15.6 |
| stereoMode, 3.1.15.3 | previewResolution, 3.1.15.6 |
| stickRadius, 3.1.15.1 | previewer, 3.1.15.6 |
| surfaceDotDensity, 3.1.15.3 | print, 3.1.15.6 |
| surfaceDotSize, 3.1.15.3 | printerDPI, 3.1.15.6 |
| surfaceProbeRadius, 3.1.15.3 | scale, 3.1.15.6 |
| transparency, 3.1.15.3 | stereoAngle, 3.1.15.6 |
| wire Width, 3.1.15.1 | stereoBase, 3.1.15.6 |
| wormRadius, 3.1.15.9 | stereoText, 3.1.15.6 |
| xstick Backbone Ratio, 3.1.15.1 | ISIS, 18.6.8 |
| Hydrogen Ratio, 3.1.15.1 | IUPAC, 11.6 |
| Style, 3.1.15.1 | Icm Prompt, 3.1.15.10 |
| Vw Ratio, 3.1.15.1 | Inx Directory, 3.1.15.2 |
| GROB.arrowRadius, 3.1.15.3 | JPEG, 3.1.14 |
| atomSphereRadius, 3.1.15.3 | KMZ, 3.1.6 |
| contourSigmaIncrement, 3.1.15.3 | Log Directory, 3.1.15.2 |
| relArrow Size, 3.1.15.3 | LogP, 7.5 |
| relArrowHead, 3.1.15.3 | LogS, 7.5 |
| GUI, 1 | MOL, 7.2, 11, 11.1.1, 11.2.1, 11.2.2, 11.2.3, 11.2.4, 11.2.5, 13.4.3 |
| Overview, 2 | MOL2, 11.1.1, 13.4.3 |
| auto Save, 3.1.15.4 | MOLT, 8.1 |
| Interval, 3.1.15.4 | MOVIE.frame Grab Mode, 3.1.15.4 |
| autoSave, 18.3.34 | Map Atom Margin, 3.1.15.10 |
| autoSaveInterval, 18.3.34 | Sigma Level, 3.1.15.10 |
| enumberation Memory Limit, 3.1.15.11 | Markush, 2.10.2 |
| max Nof Recent Files, 3.1.15.11 | create, 2.10.3 |
| Sequence Length, 3.1.15.4 | File Size Mb, 3.1.15.11 |
| splash Screen Delay, 3.1.15.11 | Max_Fused_Rings, 12.1 |
| Image, 3.1.15.11 | Mnconf, 3.1.15.10 |
| table Row Mark Colors, 3.1.15.4 | MolIPSA, 18.6.12, 18.6.15 |
| workspace Folder Style, 3.1.15.4 | MolLogP, 18.6.12, 18.6.15 |
| workspaceTabStyle, 3.1.15.4 | MolLogS, 18.6.12, 18.6.15 |
| HBA, 18.6.12, 18.6.15 | MolPSA, 12.1 |
| HBD, 18.6.12, 18.6.15 | MolVol, 12.1 |
| HTTP.proxy, 3.1.15.11 | Molcart, 11.7.3 |
| support Cookies, 3.1.15.11 | MoldHf, 12.1, 18.6.12, 18.6.15 |
| user Agent, 3.1.15.11 | Molecular Document, 2.16 |
| Html, 5.4.8 | Movie.fade Nof Frames, 3.1.15.4 |
| Http Read Style, 3.1.15.11 | quality, 3.1.15.4 |
| Hydrogen.bond, 3.1.15.5 | Auto, 3.1.15.4 |
| ICM, 1 | NCBI, 18.3.26 |
| Nof_Atoms, 12.1 | build model, 2.15.1 |
| Nof_Chirals, 12.1 | predict, 2.15.2 |
| Nof_HBA, 12.1 | R, 11.10, 12.22 |
| Nof_HBD, 12.1 | and S, 18.5.22 |
| Nof_Rings, 12.1 | R-group, 11.9 |
| Nof_RotBonds, 12.1 | RMSD, 5.1.28 |
| Nvidia GL failutre, 18.9.1 | Ramachandran Plot, 3.7.9 |
| ODA, 18.3.27 | Real Format, 3.1.15.10 |
| Optimal, 18.3.27 | Receptor Setup, 13.1.5 |
| Output Directory, 3.1.15.2 | Label Shift, 3.1.15.7 |
| PBS, 13.4.6 | Style, 3.1.15.7 |
| PCA, 7.5.1, 7.5.3 | RotB, 18.6.12, 18.6.15 |
| PDB, 2.4.7, 3.5.3, 5.4.7, 5.4.8, 5.4.9, 9.1 | SAR, 7.5 |
| Directory, 3.1.15.2 | table, 2.10.2 |
| Style, 3.1.15.2 | SCORE, 18.5.7, 18.5.18 |
| Search, 3.2.12, 3.2.13, 3.2.14, 3.2.15, 3.2.16 | SDF, 7.2, 11, 11.1.1, 11.2.2, 11.2.3, 11.2.4, 11.2.5, 13.4.3 |
| Field, 3.2.13 | SEQUENCE.site Colors, 3.1.15.4 |
| Homology, 3.2.15 | SITE.label Style, 3.1.15.7 |
| Identity, 3.2.14 | labelOffset, 3.1.15.7 |
| Sequence, 3.2.16 | wrap Comment, 3.1.15.7 |
| convert, 5.4.9, 19.5.2 | SLIDE.ignore Background Color, 3.1.15.4 |
| pattern, 5.4.4 | Fog, 3.1.15.4 |
| query, 5.4.2, 5.4.4 | SMILES, 2.4, 2.4.5, 11.4.2 |
| search, 5.4.1, 5.4.2, 5.4.4, 5.4.5, 5.4.6, 19.5.1 | Select Min Grad, 3.1.15.10 |
| sensitive search, 5.4.5 | Show Res Code In Selection, 3.1.15.7 |
| sequence, 5.4.4 | Smiles, 18.6.12, 18.6.15, 18.6.17 |
| similarity, 5.4.5 | Swissprot, 3.1.6 |
| PFAM, 3.1.6 | Dat, 3.1.15.2 |
| PLOT.Yratio, 3.1.15.8 | Temp Directory, 3.1.15.2 |
| color, 3.1.15.8 | UNIX, 13.4.6 |
| date, 3.1.15.8 | USER.email, 3.1.15.11 |
| draw Tics, 3.1.15.8 | friends, 3.1.15.11 |
| font, 3.1.15.8 | full Name, 3.1.15.11 |
| fontSize, 3.1.15.8 | organization, 3.1.15.11 |
| labelFont, 3.1.15.8 | phone, 3.1.15.11 |
| lineWidth, 3.1.15.8 | VLS, 13.4, 13.4.1, 13.4.2, 13.4.6, 13.4.10 |
| logo, 3.1.15.8 | preferences, 13.4.4 |
| markSize, 3.1.15.8 | Var Label Style, 3.1.15.7 |
| orientation, 3.1.15.8 | Volume, 18.6.12, 18.6.15 |
| paper Size, 3.1.15.8 | Water Radius, 3.1.15.10 |
| previewer, 3.1.15.8 | Wire Style, 3.1.15.1 |
| rainbowStyle, 3.1.15.8 | X-ray, 5.4.1, 13.1.1 |
| seriesLabels, 3.1.15.8 | XPDB Directory, 3.1.15.2 |
| PLS, 7.5.1 | Xstick, 5.1, 5.1.2 |
| PNG, 2.1.20, 3.1.14, 17, 17.1 | a-bright, 5.2 |
| Projects Directory, 3.1.15.2 | acceptor, 11.3.5 |
| Prosite Dat, 3.1.15.2 | acid, 3.1.1.4 |
| Protein, 18.3.27 | active, 16, 18.3.36 |
| Viewer, 3.1.15.2 | activeICM, 16.1 |
| QSAR, 7.5, 7.5.1 | activeicm, 16, 16.4, 16.6, 16.6.1 |
| control, 16.5 | save, 9.2.8 |
| activityy, 7.5 | search, 9.2.15 |
| adding fragment, 11.3.4 | selection, 9.2.16, 9.2.17, 9.2.18 |
| in editor, 11.3.4 | sequence offset, 9.2.13 |
| administration, 11.12.4 | shade, 9.2.12 |
| advanced alignment selectioection, 9.2.18 | table, 9.2.13 |
| alias, 11.3.3 | view, 9.2.13 |
| align, 2.1.15, 2.2.5, 9.2.1, 12.14, 19.6.1 | alignments, 2.2, 9.2, 19.6 |
| color 2D scaffold, 12.14 | alpha, 5.2 |
| dna protein, 9.2.3 | channel, 3.1.15.6 |
| multiple sequences, 9.2.4 | ambient, 5.2 |
| two sequences, 9.2.2 | amino, 3.1.1.4 |
| DNA to protein, 3.4.7, 9.2.3 | analysis, 3.4 |
| annotate, 19.6.4 | angle, 3.7.7, 3.7.8, 4.4.6, 5.1.17, 18.3.17, 18.4.16 |
| box, 19.6.4 | angstrom, 2.3.9, 18.4.7 |
| multiple, 9.2.4, 19.6.3 | animate, 3.3.15 |
| sequence, 9.2, 9.2.5 | view, 3.3.15 |
| shade, 19.6.4 | animation, 15.1, 15.1.1, 15.1.2, 15.1.3, 15.1.4 |
| two sequences, 3.4.5, 9.2.2 | store, 15.1.4 |
| alignment, 2.2.6, 18.4.12, 19.7, 19.7.2 | animations, 15 |
| comment, 9.2.9 | annotate, 12.3, 19.4.3 |
| editing, 9.2.7 | by substructure, 12.3 |
| editor, 9.2.6 | annotation, 19.4, 19.4.3 |
| example, 3.4.14 | antialias, 3.1.14, 3.3.10 |
| font size, 18.3.1 | lines, 3.3.17 |
| format, 9.2.14 | lines, 3.3.17 |
| gaps, 9.2.14 | apf, 18.6.18 |
| introduction, 9.2.1 | super, 12.24.4 |
| reorder, 3.4.12 | alignment, 12.24.5 |
| search, 9.2.15 | apf3Dqsa, 18.6.18 |
| selection, 9.2.16 | append.rows, 3.10.6 |
| view options, 9.2.13 | applying prediction models, 7.5.2 |
| box, 9.2.12 | area, 3.6.4, 3.7.3, 13.6, 13.6.1, 13.6.2 |
| color, 9.2.11, 9.2.12 | aromatic, 11.2.7 |
| comment, 9.2.9 | arrange, 2.1.18 |
| consensus, 9.2.11, 9.2.18 | window, 2.1.18 |
| cut, 3.4.11 | arrow, 19.4.3 |
| delete, 9.2.8 | graph, 18.3.8 |
| display title, 9.2.13 | as_graph, 18.3.8 |
| editor, 9.2.6, 19.6.2 | asn, 5.4.10 |
| extract, 3.4.10 | asparagine, 3.16.2 |
| gaps, 9.2.14 | assign, 5.1.5 |
| horizontal scroll, 9.2.13 | 2D coordinates, 12.8 |
| linked, 19.8.2 | helices, 3.6.1 |
| multiple, 3.4.8 | strands, 3.6.1 |
| options, 9.2.13 | atom, 3.1.15.5, 11.2.7, 18.3.4, 18.3.5, 18.3.8, 18.3.15, 18.3.16, 18.4.10, 19.2.1, 19.2.2, 19.4, 19.4.2 |
| print, 9.2.8 | label, 19.4.2 |
| rename, 9.2.13 | charge, 18.4.21 |
| reorder, 3.4.12 | atomLabelStyle, 3.1.15.7 |
| ruler, 9.2.13 | attachment, 11.3.2, 11.7.1 |
| auto play slide, 16.5 | mode, 11.2.10 |
| autofit, 13.5 | molt, 8.2 |
| autosave, 18.3.34 | stack, 3.16.8 |
| ave, 7.6 | bugs, 18.9 |
| avi, 17, 17.1, 17.2 | build, 2.4.1, 15.1.1 |
| axes, 7.3.11 | homology model, 10.3 |
| axis, 7.3.7 | hydrogens, 3.16.4 |
| options, 7.3.6 | buttons, 16.6 |
| grid, 7.3.6 | bye, 3.1.18 |
| range, 7.3.6 | cache, 16.6.1 |
| title, 7.3.6 | calculate, 2.3.9, 18.5.2 |
| b-factor, 3.6.3, 13.1.1, 19.9.2 | properties, 12.1 |
| backbone, 18.3.12 | startup, 18.8.2 |
| background, 5.1.11, 5.1.12, 19.3.1 | carbon, 18.3.4, 18.3.5 |
| color shortcut, 18.3.2 | cartesian, 12.10 |
| image, 5.1.12 | cavities.closed, 3.7.4 |
| backup, 3.2.11 | ccp4, 18.3.28, 18.3.29 |
| bad, 12.1 | cell, 3.5.2 |
| groups, 11.3.5 | center, 2.1.2, 3.3.20, 4.4, 4.4.5, 7.1.31, 18.4.22 |
| ball, 3.1.15.5 | and representative members, 7.6.1 |
| and stick, 5.1, 5.1.2 | chain.breaks, 18.3.35 |
| bank, 5.4.1 | chains, 3.7.1 |
| basic alignment selection, 9.2.17 | chair, 18.5.21 |
| basicsel, 6.1.2 | chair-boat, 18.5.3 |
| batch, 13.1.10, 13.4.6, 13.6.8 | change selection, 6.1.3 |
| beep, 18.3.37 | speed range, 15.1.2 |
| begin docking simulation, 13.1.8 | changing font in alignment editor, 9.2.6 |
| best, 11.2.13 | charge, 2.3.3, 2.3.4, 2.3.5, 3.3.21, 5.1.14, 11.3.2, 11.7.1, 12.9.1, 12.9.2, 12.9.3, 18.4.1 |
| binding, 2.3.7, 18.3.13, 18.5.2, 18.5.11 | chem convert, 18.6.10 |
| pocket, 19.7 | save, 11.4 |
| bioinfo align dna protein, 3.4.7 | editor, 11.4.2 |
| multiple, 3.4.8 | image, 11.4.4 |
| two sequences, 3.4.5 | table, 11.4.1 |
| links, 3.4.9 | workspace, 11.4.3 |
| secondary structure, 3.4.2 | super, 12.24 |
| translation, 3.4.3 | view, 11.2.7 |
| biological, 3.5.3 | chemical, 2.4.1, 7.6, 11, 11.2.6, 11.2.7, 11.2.9, 11.2.10, 11.2.13, 11.2.14, 11.3.6, 11.10, 11.12.3, 12.8, 12.11, 12.21, 12.23, 12.24, 18.6.9, 18.6.10, 18.6.12, 18.6.13, 18.6.14, 18.6.15 |
| biomolecule, 3.5, 3.5.3, 19.9, 19.9.3 | clustering, 12.15 |
| bit, 18.1.2 | dictionary, 11.3.3 |
| blast, 3.4.15 | draw load, 11.1 |
| boat, 18.5.21 | editor, 11.3, 11.3.4 |
| bond, 2.3.3, 2.3.8, 10.9, 11.3.6, 18.4.1, 18.6.12, 18.6.15, 19.7.3 | not starting, 18.9.3 |
| covalent, 18.4.2 | find replace, 11.9 |
| type, 2.3.4, 2.3.5, 12.9.1, 12.9.2, 12.9.3 | fragments, 11.2.12 |
| bonding, 5.1.9 | group, 11.3.3 |
| preferences, 3.1.15.1 | groups, 11.3.3, 11.3.4 |
| box, 3.1.1.8, 3.1.15.7, 5.1.30, 18.5.10 | right click, 11.3.2 |
| bpmc, 19.8.3 | search, 11.7 |
| break, 2.1.10 | filter, 11.7.2 |
| browse, 11.2.10, 13.1.12 | text, 11.7.4 |
| spreadsheet, 2.4, 18.6.19 | chiral, 12.13 |
| compare, 2.5.18 | chirality, 12.13 |
| spreadsheets, 11.2 | clash, 3.1.15.5, 5.1.29 |
| structure, 11 | classes, 11.2.7 |
| superimpose.apf, 2.13.2 | clear display and planes, 3.3.2 |
| rigid flexible, 2.13.1 | planes, 3.3.2 |
| table, 18.6.17 | click, 2.1.16, 4.3, 4.4 |
| display, 11.2.1 | clip, 4.5.1, 5.5.8, 18.3.10 |
| tables, 7.2 | clipboard, 7.6.2 |
| chemical-spreadsheet, 2.4.3 | clipping, 18.3.20 |
| 2D, 12.9 | planes, 2.1.3, 4 |
| 3D, 12.9 | tool, 4.5 |
| append, 11.3.7 | tools, 4.5 |
| clustering, 2.8.1, 12.15 | closed cavities, 3.6.5, 3.7.4 |
| convert, 2.3.3, 2.3.4, 2.3.5, 3.16.1, 12.9, 12.9.1, 12.9.2, 12.9.3, 18.4.1 | cluster, 7.6, 13.4.6 |
| display.fit, 18.6.19 | representative.center, 2.8.2 |
| draw, 11.3.1, 19.10.1 | clustering, 7.5.4 |
| duplicates, 2.5.17 | collada, 5.5, 5.5.4 |
| edit, 2.4, 11.3.8, 19.10.2 | color, 3.6.2, 5.1.10, 5.1.14, 5.1.15, 7.1.34, 7.6.3, 11.2.14, 12.14, 18.3.4, 18.3.5, 18.3.15, 18.3.21, 19.3, 19.3.1, 19.7 |
| editor, 11.4, 11.4.1, 11.4.2, 11.4.3, 11.4.4 | alignment, 9.2.11 |
| load, 11.1, 11.1.1 | background, 5.1.11 |
| merge, 12.17 | chemical, 11.2.14 |
| name, 11.6 | display mesh, 5.5.7 |
| new, 11.3.1 | faq, 18.3.21 |
| properties, 2.5.16 | table, 11.2.5 |
| query, 11.3.2, 11.7.1, 11.7.3 | 2D sketch, 2.7.5 |
| read, 11.1, 11.1.1 | background, 3.3.18, 5.1.11 |
| redo, 11.3.11 | distance, 5.3.3 |
| save, 11.3.7, 11.4, 11.4.1, 11.4.2, 11.4.3, 11.4.4 | mesh, 5.5.7 |
| search, 2.6.1, 2.6.4, 2.6.5, 11.3.2, 11.7, 11.7.1, 11.7.3, 19.11.1, 19.11.2 | table, 11.2.5 |
| conditions, 2.6.3 | coloring, 5.1.10 |
| query, 2.6.2 | column, 7, 7.1.20, 7.1.30, 7.1.31, 7.3, 7.3.1, 18.6.12 |
| similarity, 11.3.2, 11.7, 11.7.1, 11.7.3, 19.11.1, 19.11.2 | row width, 7.1.20 |
| sketch, 2.4, 2.4.2 | statistics, 7.1.24 |
| smiles, 11.1.2 | color, 7.1.8 |
| spreadsheet, 11.2, 11.4, 11.4.1, 11.4.2, 11.4.3, 11.4.4 | hide, 2.5.5 |
| structure, 11.1.1, 11.3.7, 11.3.8 | show, 2.5.5 |
| substructure, 19.11.2 | combinatorial.library, 2.10.1 |
| superimpose, 12.24.1, 12.24.2, 12.24.3 | combine, 3.10.4 |
| superposition, 12.24.4, 12.24.5 | display style, 3.1.15.9 |
| table, 7.2, 11.2, 19.10.1, 19.10.2 | command, 18.5.17 |
| undo, 11.3.11 | line, 18.3.33 |
| cheminformatics, 11.2, 18.6 | commands, 3.1.1.5, 18.8.1 |
| chemistry, 12.11, 18.6 | compare, 11.2.8, 12.16, 12.17 |
| menu, 12 | table, 2.5.18 |
| smiles, 12.6 | tables, 12.16 |
| duplicates, 12.19 | compatible, 3.1.9 |
| remove.redundant, 12.19 | compound, 7.2, 12.11 |
| chemlib.so, 18.1.2 | compounds, 18.6.3 |
| chi, 5.1.17, 18.3.17 | compress, 3.1.15.6 |
| gen, 12.10 | cross, 18.3.9 |
| conformation, 12.10, 13.2.2 | section, 4.5 |
| conformations, 18.7.2 | crystal, 3.5.2 |
| conformers, 12.10 | crystallographic analysis tools, 19.9 |
| connect, 4.4, 4.4.7, 5.5.6 | cell, 3.5.2 |
| object, 4.4.7 | cell, 3.5 |
| connectivity, 11.3.2, 11.7.1 | neigbor, 3.5.1 |
| consensus, 3.7.1 | neighbors, 3.5 |
| conservation, 19.7 | crystallography, 3.5.4, 3.5.6, 3.5.7, 18.3.28, 18.3.29 |
| construct, 3.1.1, 3.1.1.1, 15.1.1 | csv, 7.1.2, 7.1.3, 7.1.19 |
| DNA, 3.1.1.3 | current, 18.3.23 |
| RNA, 3.1.1.3 | slide, 16.5 |
| chemical, 3.1.1.2 | custom, 4.4, 11.2.1, 12.24 |
| compound, 3.1.1.2 | fragments, 12.3 |
| molecule, 3.1.1 | label, 5.3.1 |
| nucleic, 3.1.1.4 | rotation, 4.4.2 |
| object, 3.1.1 | cut, 7.1.26 |
| protein, 3.1.1.4 | vertical alignment block, 3.4.11 |
| sequence, 3.1.1.4 | damaged skin, 18.9.2 |
| contact, 3.7.3 | dash, 18.3.11 |
| areads, 3.7.3 | data, 5.4.1 |
| contour, 3.5.6, 3.5.7 | databank, 2.3.1 |
| map, 3.5.6 | database, 3.4.15, 8.1, 11.12, 12.21, 13.1.2, 13.4.3, 13.4.5 |
| convert, 2.3.2, 5.4.9, 12.12, 18.6.10 | file format, 13.4.3 |
| 2D to 3D.conformer generator, 2.11.3 | seach and alignment, 3.4.15 |
| from table, 2.11.2 | databases, 18.6.3 |
| molecule editor, 2.11.1 | decompose.library, 2.10.2 |
| chemical, 11.2.2 | decomposition, 12.21, 12.22 |
| 2D 3D, 12.9 | default, 2.1.17 |
| local database, 3.1.5 | delete, 3.2.1, 15.3.7, 18.4.9 |
| pdb chem, 12.9.1 | column row, 7.1.29 |
| smiles to 2D, 18.6.17 | label, 5.3.2 |
| local.database, 3.1.5 | all, 3.2.2 |
| smiles, 12.6, 12.7 | angle.label, 5.1.24 |
| convert2grid, 3.5.7 | column, 7.1.29 |
| converting pdb, 5.4.9 | distance.label, 5.1.24 |
| copy, 7.1.26, 11.2.3, 11.3.12, 11.8.2 | label, 5.3.2 |
| cell, 7.1.27 | row, 7.1.29 |
| chemical, 11.2.3 | selection, 3.2.1 |
| paste row, 7.1.26 | tether, 3.16.4 |
| structure, 11.3.10 | deleteall, 3.2.2 |
| row, 7.1.27 | density, 3.5.4, 3.5.6, 3.5.7, 18.3.28, 18.3.29 |
| selection to table, 7.1.28 | depth, 5.5.9 |
| chemical, 2.5.13 | deselect, 18.3.7 |
| cpk, 5.1.7, 18.3.22, 19.3.2 | deviation, 18.4.7 |
| crash, 3.2.11 | dialog, 15.3.5 |
| creat, 15.3.1, 15.3.2 | diffuse, 5.2 |
| create, 7.1.1 | dihedral, 3.7.8, 5.1.17, 18.3.17 |
| modify markush, 12.20 | dimensional, 18.6.11 |
| molecular document, 15.3.1 | directories preferences, 3.1.15.2 |
| disappearing labels, 18.9.2 | docking, 2.3.2, 3.6.4, 13, 13.1.3, 13.1.15, 13.2, 13.2.1, 13.2.2, 13.4, 13.4.1, 13.4.2, 13.4.5, 13.6, 13.6.1, 13.6.2, 13.6.3, 13.6.4, 13.6.5, 13.6.7, 13.6.8, 13.6.9, 18.5, 18.5.1, 18.5.10, 18.5.18, 18.5.19, 19.12, 19.12.1, 19.12.2, 19.14 |
| display, 2.1.7, 2.1.18, 2.3.8, 3.1.15, 4.6, 5.1.29, 11.2.6, 12.13, 18.3.4, 18.3.5, 18.3.8, 18.3.9, 18.3.10, 18.3.16, 18.3.22, 18.3.31, 18.3.33, 18.4.10, 18.4.11, 18.4.20, 18.6.9, 19.2, 19.7.1, 19.7.3 | start, 13.1.3 |
| chemical, 11.2.6 | template, 13.3 |
| delete distances, 5.1.24 | adjust, 13.1.6 |
| dihedral, 5.1.23 | background, 18.5.20 |
| distance restraints, 5.1.27 | batch, 13.1.10 |
| distance2, 5.1.21 | binding, 13.1.6 |
| gradient, 5.1.25 | conformations, 18.5.21 |
| hydrogen, 5.1.1 | flexible.rings, 18.5.21 |
| mesh, 5.5.2 | hitlist, 13.1.14 |
| planar angle, 5.1.22 | interactive, 13.1.9 |
| structure, 2.1.8 | maps, 13.1.7 |
| tab, 5.1, 18.3.15 | preparation, 13.1.3 |
| tether, 5.1.26 | procedure, 13.1.8 |
| toggle, 5.1.30 | project name, 13.1.4 |
| CPK, 5.1.7 | rank, 13.1.14 |
| angle, 5.1.22 | receptor setup, 13.1.5 |
| chemical, 11.2.1 | results, 13.1.11, 13.1.12, 13.1.13, 13.1.14 |
| dihedral.angle, 5.1.23 | sampling, 18.5.21 |
| distace, 5.3.3 | score, 13.1.14 |
| distance, 5.1.21, 5.1.27 | stack, 13.1.13 |
| electrostatic, 3.3.21 | template, 13.3 |
| energy.gradient, 5.1.25 | document, 3.1.1.6, 15.3.4, 15.3.5 |
| hydrogen, 5.1.1 | navigation, 15.3.6 |
| polar, 5.1.1 | documents, 18.3.19 |
| macroshape, 5.5.3 | dollar, 18.8.3 |
| meshes, 5.5.2 | donator, 11.3.5 |
| and display.macroshape, 5.5 | envelope, 5.1, 5.1.2 |
| molecule, 11.2.2 | surface, 3.1.15.5 |
| origin, 5.3.4 | dots, 2.1.10 |
| potential, 3.3.21 | dotted lines, 2.1.10, 18.3.35 |
| representations, 5.1, 5.1.2 | double, 11.3.6 |
| restraints, 5.1.27 | download, 18.6.3 |
| ribbon, 5.1.5 | drag, 2.1.15, 2.2.6, 3.1.15.7, 5.1.15, 9.2.5, 15.3.4, 18.4.5, 19.6.2 |
| skin, 5.1.6 | and drop sequences, 9.2.5 |
| status, 18.3.33 | residue label, 3.3.16 |
| surface, 5.1.8, 5.5.1 | draganddrop, 2.1.15 |
| surfaces, 5.5 | draw, 2.4.1, 11.3.12, 12.23, 18.6.7 |
| table, 11.2.1 | chemical, 11.3.1 |
| tethers, 5.1.26 | drop, 2.1.15, 2.2.6, 9.2.5, 15.3.4, 18.4.5, 19.6.2 |
| wire, 5.1.3 | drug, 12.1, 18.6.12, 18.6.14 |
| xstick, 5.1.4 | druglikeness, 11.3.5 |
| distance, 2.3.9, 3.7.6, 5.3.3, 12.16, 18.3.11, 18.4.8, 18.4.10 | dsPocket, 2.1.12 |
| faq, 18.4.10 | easy rotate, 3.3.12 |
| label, 3.1.15.7 | edit, 18.6.8 |
| distances, 5.3 | alignment, 9.2.7 |
| disulfide, 10.9 | chemical, 11.3.8 |
| diverse set, 7.5.4 | moledit, 11.2.4 |
| dock, 13, 13.1, 13.1.2, 13.5, 18.5.3, 18.5.4, 18.5.5, 18.5.6, 18.5.8, 18.5.9, 18.5.11, 18.5.12, 18.5.13, 18.5.14, 18.5.15, 18.5.16, 18.5.17, 18.5.22, 19.13.1, 19.13.2, 19.15 | ligand, 14.5 |
| command, 18.5.17 | editor preferences, 14.2 |
| menu, 3.2 | flex, 13.2.1 |
| molecular document, 15.3.2 | export, 3.7.10 |
| molecule, 11.3 | excel, 11.5 |
| molt, 8.3 | extract, 2.2.4, 9.1, 18.4.12, 18.6.13, 19.7.2 |
| movie, 17.3.7 | icb, 3.1.4 |
| selection, 3.2.5 | sub alignment, 3.4.10 |
| slide description, 15.2.3 | 2D chemical sketch, 2.4.7 |
| table row, 7.1.22 | icb, 3.1.4 |
| 3D.pharmacophore, 2.7.3 | phrarmacophore, 2.7.2 |
| molecule, 11.2.4 | faq, 18, 18.2, 18.3, 18.3.12, 18.4, 18.5, 18.7, 18.8, 18.8.2 |
| movie, 17.3.7 | ISISdraw, 18.6.8 |
| structure, 11.2.4 | activeicm, 18.3.36 |
| editor, 2.4.1, 11.11, 18.4.12, 19.7.2 | apf model, 18.6.18 |
| editpdbsearch, 3.2.12 | atom charge, 18.4.21 |
| eds, 3.5.4, 3.5.6, 3.5.7 | display, 18.3.16 |
| electron, 3.5.4, 3.5.6, 3.5.7, 18.3.28, 18.3.29 | autosave, 18.3.34 |
| denisty map, 3.5.5 | backbone, 18.3.12 |
| densitry map.contour, 3.5 | background color, 18.3.2 |
| map, 3.1.6, 3.5, 13.5 | job, 18.5.20 |
| electrostatic, 2.3.7 | beep, 18.3.37 |
| potential, 3.3.21 | binding energy, 18.5.2 |
| electrostatics, 13.6.7 | blend transition, 18.3.32 |
| element, 11.3.6 | breaks, 18.3.35 |
| embed browser, 16.3 | change torsion, 18.4.16 |
| powerpoint03, 16.1 | chem table display, 18.6.9 |
| powerpoint07, 16.2 | chemical monitor, 18.6.15 |
| activeicm, 16.5 | query2, 18.6.5 |
| script, 16.5 | cheminformatics, 18.6 |
| browser, 16, 16.3 | clipping plane, 18.3.10 |
| firefox, 16, 16.3 | closest, 18.4.22 |
| internet.explorer, 16, 16.3 | color carbon, 18.3.4 |
| microsoft, 16 | skin, 18.3.15 |
| powerpoint, 16, 16.1, 16.2 | command line display, 18.3.33 |
| enantiomer, 18.5.22 | convert chemical from pdb, 18.4.1 |
| energy, 2.3.2, 3.6.2, 5.1.29, 13.1.13, 18.3.19, 18.5.1, 18.5.2, 18.7.2 | covalent bond, 18.4.2 |
| mesh, 18.3.19 | delete, 18.4.9 |
| terms, 3.16.9 | deselect, 18.3.7 |
| enumerate.combinatorial.libraries, 2.10 | dihedral, 18.3.17 |
| reaction, 2.10.4 | dock probe, 18.5.14 |
| enumeration, 12.21 | racemic, 18.5.22 |
| eps, 11.4.4 | repeat, 18.5.6 |
| epsilon, 18.4.15 | docking, 18.5 |
| errno, 18.1.2 | docktime, 18.5.12 |
| error, 18.1.2, 18.3.37 | dollar, 18.8.3 |
| escaping, 2.1.3 | druglikeness, 18.6.14 |
| exact, 12.16 | energy, 18.5.1 |
| excel, 11.5 | extract ligand, 18.6.13 |
| exclude fragment, 11.7.2 | flexible dock, 18.5.16 |
| exit, 3.1.18 | ring docking, 18.5.21 |
| explicit, 11.2.7, 13.2.1 | font size, 18.3.1 |
| gl failure, 18.9.1 | weak hydrogen bonds, 18.4.20 |
| gui, 18.3 | write pdb, 18.4.3 |
| guided dock, 18.5.4 | faqcontour, 18.3.29 |
| hardware, 18.2 | faqhbondstrength, 18.3.30 |
| hitlist, 18.5.8 | faqmaps, 18.3.28 |
| iSee, 18.3.31 | faqoda, 18.3.27 |
| icmPocketFinder, 18.5.11 | faqstereo, 18.9.4 |
| insert column, 18.6.12 | fasta, 2.2, 2.2.2 |
| installation, 18.1 | file, 3.1.2, 5.4.7 |
| interactions, 18.3.11 | close, 3.1.12 |
| ligandbox, 18.5.10 | compatible, 3.1.9 |
| merge, 18.4.5 | export, 3.1.11 |
| molcart 64bit, 18.1.2 | load, 3.1.6 |
| query, 18.6.6 | menu, 3.1 |
| sdf, 18.6.4 | password, 3.1.10 |
| text search, 18.6.16 | quick image, 3.1.13 |
| molecule c, 18.3.5 | icb, 2.1.14 |
| moledit, 18.6.7 | recent, 3.1.16 |
| movie planes, 18.3.20 | bak, 3.2.11 |
| newscript, 18.8.1 | filter, 8.2, 18.3.4 |
| nmr, 18.4.18 | selection, 6.1.4 |
| nvidia error, 18.1.1 | tut, 19.2.4 |
| origin, 18.3.9 | find, 3.7.1 |
| pmf score, 18.5.7 | chemical, 11.2.11 |
| pockets, 18.3.13 | related chains, 3.7.1 |
| preserve coordinates, 18.6.11 | finding dihedral angle, 3.7.8 |
| quad buffer, 18.2.3 | planar angle, 3.7.7 |
| receptor selection, 18.5.15 | fingerprint, 18.6.5, 18.6.6 |
| reload dock, 18.5.5 | fit, 11.2.13, 13.5, 18.5.16 |
| remove select, 18.3.6 | fitting, 7.3.12, 13.5 |
| renumber, 18.4.4 | flex super, 12.24.3 |
| ringflex dock, 18.5.3 | flexibility, 3.6.3 |
| rmsd, 18.4.7 | flexible, 12.24, 13.2, 13.2.1, 13.2.2, 18.5.16, 19.15 |
| rmsdtips, 18.4.8 | rings, 18.5.3 |
| rotate chemical, 18.6.19 | fog, 3.3.5, 4 |
| scanScoreExternal, 18.5.18 | font, 3.1.15, 3.1.15.7, 5.1.14, 5.1.15, 7.1.31, 7.6.3, 11.2.7 |
| scanScoreExternal2, 18.5.19 | preferences, 3.1.15.7 |
| score, 18.5.9 | size, 9.2.6, 18.3.1 |
| script, 18.8 | foreground, 19.3.1 |
| sgi, 18.1.3 | form, 2.5.3 |
| simulations, 18.7 | view, 7.1.5 |
| smiles, 18.6.17 | formal, 2.3.3, 18.4.21 |
| solvent accessible surface table, 18.4.19 | format, 7.1.2, 7.1.31 |
| ss, 18.4.17 | formula, 11.3.5, 12.1 |
| structure, 18.4 | fragment, 11.2.14, 12.22 |
| superimpose, 18.4.6 | fragments, 11.10 |
| thoroughness, 18.5.13 | frame, 3.4.3 |
| transparent ribbon, 18.3.3 | frequency, 11.2.14 |
| truncate mesh, 18.3.14 | front, 4.5.1, 5.5.8 |
| view stack, 18.7.2 | full scene antialias, 3.3.10 |
| function, 7.1.23, 7.1.24 | bins, 7.3.3 |
| functional.groups, 12.3 | options, 7.3.2 |
| general preferences, 3.1.15.5 | bin.size, 7.3.2 |
| generalselecttools, 6.1.1 | bins, 7.3.3 |
| generator, 3.5.3, 12.10 | color, 7.3.2 |
| glasses, 18.2.2, 18.3.18, 18.9.4 | source, 7.3.2 |
| gln, 5.4.10 | style, 7.3.2 |
| glutamine proline, 3.16.2 | title, 7.3.2 |
| google, 3.1.6 | hitlist, 13.1.11, 13.1.14, 13.4.8, 13.4.9, 13.4.11, 18.5.8 |
| objects, 5.5.4 | homology, 3.7.1, 10, 10.1, 10.2, 10.4.1, 10.6, 10.7, 19.8, 19.8.1 |
| 3D, 5.5, 5.5.4 | loops, 10.5 |
| graphical, 1, 18.3.4 | model introduction, 10.1 |
| display, 2.3.4, 2.3.5, 12.9.2, 12.9.3 | start, 10.2 |
| user interface, 18.3 | 2D ph4, 2.7.1 |
| graphics, 19.3 | 3D editor, 2.12 |
| card, 18.1.1 | add substituent, 2.12.13 |
| controls, 4 | begin edit, 2.12.11 |
| defects, 18.9.2 | center ligand, 2.12.10 |
| preferences, 3.1.15.3 | default, 2.12.4 |
| tips, 2.1.3 | dock, 2.12.20 |
| shadow, 3.3.13 | tether, 2.12.21 |
| grid, 2.5.3, 11.2.1, 12.24, 18.6.9, 19.15 | edit 2d, 2.12.15 |
| grob, 3.1.15.5, 3.5.4, 3.5.6, 3.5.7 | energy circles, 2.12.7 |
| group, 12.22, 14.7 | hydrogen, 2.12.8 |
| groups, 11.10, 12.1, 12.2 | fragment linkers, 2.12.23 |
| gui, 3.1.15.4 | hydrogen bond, 2.12.6 |
| menus, 3 | minimization, 2.12.19 |
| preferences, 3.1.15.4 | multiple substituent, 2.12.14 |
| tabs, 5 | preferences, 2.12.3 |
| guided docking, 18.5.4 | purple box, 2.12.18 |
| h, 18.3.19 | save spreadsheet, 2.12.17 |
| h-bond, 2.3.8, 18.3.11, 18.3.19, 19.7.3 | screen substituents, 2.12.22 |
| hardware, 18.2 | setup ligand, 2.12.1 |
| stereo, 3.3.7 | receptor, 2.12.2 |
| hbond, 18.3.30 | surface, 2.12.5 |
| strength, 18.3.30 | undo redo, 2.12.12 |
| header, 5.4.8, 7.3.5 | unsatisfied hydrogen bonds, 2.12.9 |
| health, 3.6.2, 19.8.4 | add columns, 2.5.1 |
| helices strands, 3.6.1 | change view, 2.5.3 |
| helix, 18.3.21 | chemical 2D 3D, 2.11 |
| hetero, 11.2.7 | conformer generator, 2.11.3 |
| hidden block format, 9.2.14 | from table, 2.11.2 |
| width, 9.2.14 | molecule editor, 2.11.1 |
| hide, 7.1.30 | clustering, 2.8 |
| high, 3.1.14 | search, 2.6.1 |
| quality, 3.3.11 | superimpose, 2.13 |
| his, 5.4.10, 18.4.15 | apf, 2.13.2 |
| histidine, 3.16.2, 18.4.15 | rigid flexible, 2.13.1 |
| tautomer, 18.4.15 | cluster center, 2.8.2 |
| histogram, 2.14, 2.14.1, 7.3, 7.3.1, 7.3.5, 7.3.7, 7.3.9, 7.3.10, 7.3.11, 7.3.12, 7.3.13, 7.3.14, 7.3.15, 7.3.17, 13.4.10, 13.4.11 | color 2D by ph4, 2.7.5 |
| paste, 2.5.4 | tautomers, 2.9.2 |
| decompose, 2.10.2 | hrydrogen.bond, 18.3.30 |
| duplicate chemicals, 2.5.17 | html, 3.1.1.6, 3.1.11, 15.3.1, 15.3.2, 15.3.6 |
| edit 3D ph4, 2.7.3 | html-doc font size, 18.3.1 |
| table, 2.5.14 | hybridization, 11.3.2, 11.7.1 |
| tree, 2.8.4 | hydrogen, 2.3.2, 2.3.8, 5.1.9, 5.4.10, 11.3.2, 11.7.1, 18.3.11, 18.3.19, 18.6.12, 18.6.15, 19.7.3 |
| enumerate libraries, 2.10 | bond, 5.1.9 |
| excel, 2.5.7 | bond, 11.3.5, 18.4.20 |
| extract 2D, 2.4.7 | hydrogens, 11.2.7 |
| 3D ph4, 2.7.2 | remove, 2.5.15 |
| filter, 2.5.9 | hyperlink, 15.3.1, 15.3.2 |
| find replace, 2.5.10 | iSee, 2.1.14, 2.16.1, 3.1.1.6, 3.1.4, 3.1.11, 18.3.19, 18.3.31, 18.3.32, 18.3.36 |
| histogram, 2.14.1 | icb, 2.16.1, 18.3.31, 18.3.36 |
| icm molecule editor, 2.4.1 | icm, 18.3.36 |
| import sketch edit chemicals, 2.4 | hanging, 18.9.3 |
| load chemical, 2.4.6 | projects, 2.1.19 |
| mark row, 2.5.11 | icm-crash, 18.9.3 |
| markush, 2.10.1 | icmFastAlignment, 3.4.15 |
| structure, 2.10.3 | icmPocketFinder, 3.6.5, 18.3.13, 18.5.11 |
| merge tables, 2.5.19 | image, 2.1.20, 3.1.15, 3.1.15.5, 7.3.16, 11.4, 11.4.4, 15.3.3 |
| pharmacophore, 2.7 | preferences, 3.1.15.6 |
| plot, 2.14.2 | multiple, 3.1.6 |
| plots, 2.14 | quality, 3.3.11 |
| properties, 2.5.16 | quick, 3.1.13 |
| qsar, 2.15 | in-a-window, 18.2.3 |
| build model, 2.15.1 | index, 18.6.16 |
| predict, 2.15.2 | induced, 18.5.16 |
| reactions, 2.10.4 | fit, 13.2, 13.2.1, 19.15 |
| reorder, 2.8.3 | insert, 15.3.4 |
| save 2D mol, 2.4.4 | column, 7.1.23 |
| sdf, 2.5.6 | image, 15.3.3 |
| search, 2.6.4 | row, 7.1.25 |
| 3D ph4, 2.7.4 | script, 15.3.4 |
| conditions, 2.6.3 | install, 1, 11.12.1, 18.1.2, 18.1.4 |
| query, 2.6.2 | installation, 18.1, 18.1.3 |
| send search, 2.6.5 | interactio, 18.5.2 |
| show hide, 2.5.5 | interaction, 3.7.3, 18.3.11 |
| sketch chemical, 2.4.2 | interactive, 13.1.9 |
| spreadsheet, 2.4.3 | loop, 10.4.3 |
| smiles, 2.4.5 | make, 10.4.1 |
| sort column, 2.5.2 | modeling, 10.4, 10.4.1 |
| standardize, 2.5.15 | modeling, 10.4 |
| stereoisomers tautomers, 2.9 | interface, 1 |
| table hyperlinks, 2.5.12 | interrupt, 15.1.3 |
| print, 2.5.8 | animation, 15.1.3 |
| chemial search, 2.6 | introduction, 1 |
| chemical clusering, 2.8.1 | invert selection, 7.1.21 |
| spreadsheets, 2.5 | invisible residue label, 18.9.2 |
| display, 2.1 | isee, 15.3.5 |
| stereoisomers, 2.9.1 | isis, 11.3.12 |
| iupac, 11.6 | best replace, 14.7 |
| job, 18.5.20 | editor, 14 |
| jobs, 13.4.6 | preferences, 3.2.18 |
| join, 12.17 | linker, 14.6 |
| means, 7.6 | pocket, 18.4.11 |
| key chemical, 11.3.6 | tether, 14.8 |
| keyboard mouse, 4.3 | convert, 3.16.1 |
| keystokes in chem-edit, 11.3.6 | editor, 14, 14.1, 14.6 |
| kmz, 5.5, 5.5.4 | binding.re-dock ligand, 14.4 |
| label, 2.3.9, 3.1.15.7, 7.6.3, 18.3.16, 19.4, 19.4.1, 19.4.2, 19.4.4 | display, 14.3 |
| annotation, 5.1.19 | edit, 14.5 |
| atoms, 5.1.14 | energy, 14.3 |
| color, 5.1.20 | hydrogen.bond, 14.3 |
| move, 5.1.16 | pocket, 14.3 |
| residues, 5.1.15 | preferences, 14.2 |
| sites, 5.1.18 | restraint, 14.8 |
| variables, 5.1.17 | surface, 14.3 |
| 2D, 5.3 | tether, 14.8 |
| 3D, 5.1.13, 5.3 | optimization, 19.14 |
| annotation, 5.1.19 | pocket, 2.1.12 |
| atom, 5.1.13 | receptor.contact, 3.7.3 |
| atoms, 5.1.14 | surface, 2.12.5 |
| color, 5.1.20 | light, 5.2 |
| custom, 5.3.1 | tab, 5.2 |
| delete, 5.1.13, 5.3.2 | likeness, 12.1, 18.6.14 |
| distance, 5.3.3 | line, 3.1.15.5, 7.6.3, 18.3.11 |
| drag, 3.3.16 | lineWidth, 3.1.15.3 |
| move, 3.3.16, 5.1.16 | link, 3.4.9, 19.7 |
| residue, 5.1.13 | linker, 14.6 |
| residues, 5.1.15 | links, 6.5 |
| site, 5.1.13 | linux, 11.12.1 |
| sites, 5.1.18 | load, 2.2, 2.2.2, 3.1.2, 3.1.16, 3.5.4, 3.5.6, 3.5.7, 5.4.7, 9.1 |
| variable, 5.1.13 | eds, 3.5.4 |
| variables, 5.1.17, 18.3.17 | example alignment, 3.4.14 |
| labeling, 5.1.13 | pdb, 5.4.7 |
| labels, 11.2.7 | sequence, 9.1 |
| distances, 5.3.3 | libraries, 3.16.5 |
| tab, 5.3 | pdb, 5.4.3 |
| landscape, 3.1.15.6 | sequence, 2.2.1 |
| lasso, 19.2.1, 19.2.2 | local, 18.3.25, 18.3.26 |
| layer, 4.6 | databases, 8 |
| layers, 4.6 | flexibility, 3.6.3 |
| learn, 7.5, 7.5.1, 12.4, 12.5, 18.6.18 | database.browse, 8.2 |
| learning, 7.5 | edit, 8.3 |
| theory, 7.5.3 | query, 8.4 |
| least.squares, 7.3.12 | row, 8.3 |
| library, 12.21 | localpdb, 18.3.25 |
| reaction, 2.10.4 | localseq, 18.3.26 |
| license, 18.1.4 | lock, 4.5.1, 5.5.8, 11.2.10 |
| ligand, 13.1.2, 13.2, 13.6.5, 13.6.6, 18.4.5, 18.4.11, 18.5.2, 18.5.10, 18.6.13, 19.7.1 | log, 7.3.7 |
| logS, 11.3.5, 12.1 | homology, 3.13 |
| logarithmic, 7.3.7 | molmechanics, 3.16 |
| logout, 3.1.18 | tools chemical search, 3.11 |
| loop, 10.6, 18.3.21 | molecular editor, 3.12 |
| model, 10.6 | windows, 3.17 |
| modeling, 10.4.3 | merge, 12.17, 18.4.5 |
| model, 3.16.7 | two sets, 12.17 |
| sample, 3.16.7 | mesh, 2.3.6, 2.3.7, 3.5.4, 3.5.6, 3.5.7, 4.5.1, 5.5.6, 5.5.8, 5.5.9, 18.3.19 |
| mac, 11.12.1 | clip, 5.5.8 |
| macros, 16.6 | options, 5.5.5 |
| macroshape, 3.3.22, 5.5.3 | options, 5.5.5 |
| make, 3.1.1.1, 3.1.1.7, 7.1.1, 15.1.1 | meshes, 5.5 |
| animation, 15.1.1 | min, 7.6 |
| flat, 18.6.19 | minimize.cartesian, 3.16.6 |
| molecular document, 15.3 | global, 3.16.6 |
| molt, 8.1 | local, 3.16.6 |
| movie, 17.3 | mmff, 3.16.5, 18.3.16, 18.6.10 |
| receptor maps, 13.1.7 | type, 5.1.14 |
| selection, 6 | mnSolutions, 3.1.15.10 |
| DNA, 3.1.1.3 | model, 10, 10.1, 10.2, 10.3, 10.6, 10.7, 19.8, 19.8.1 |
| RNA, 3.1.1.3 | loop, 10.5 |
| bond, 18.4.2 | modelers view, 10.4.2 |
| chemical, 3.1.1.2 | view, 10.4.2 |
| compound, 3.1.1.2 | modeling, 3.16.3 |
| disulfide, 10.9, 18.4.17 | modeller view, 10.4 |
| molecule, 3.1.1 | mol, 2.4, 11.4, 11.4.1, 11.4.2, 11.4.3, 11.4.4, 19.13.2 |
| object, 3.1.1 | mol2, 2.4, 11.4, 11.4.1, 11.4.2, 11.4.3, 11.4.4 |
| sequence, 3.1.1.4 | molcart, 8, 11.12, 11.12.1, 11.12.2, 11.12.3, 11.12.4, 18.1.2, 18.6, 18.6.3, 18.6.4, 18.6.5, 18.6.6, 18.6.16 |
| making molecular slides, 15.2 | administration, 11.12.4 |
| html, 15.3 | connect, 18.6.2 |
| color, 7.3.10 | download dbs, 18.6.3 |
| map, 3.1.15.7, 3.5.4, 3.5.6, 3.5.7 | hostid, 18.6.1 |
| cel, 3.5.5 | installation, 11.12.1 |
| maps, 13.6.7, 18.3.28, 18.3.29, 18.5.10, 19.15 | license, 18.1.4 |
| cell, 3.5.5 | search, 11.12.3 |
| mark, 7.1.34 | start, 11.12.2 |
| row, 7.1.34 | connect, 18.6.2 |
| shape, 7.3.9 | hostid, 18.6.1 |
| size, 7.3.9 | license, 18.6.1 |
| markush, 12.20, 12.22, 19.14 | molclart, 18.1.4 |
| docking, 19.14 | molecular, 2.4.1, 11.2.9, 11.2.10, 11.2.13, 11.2.14, 12.10, 18.6.12, 18.6.15 |
| library, 2.10.1 | animations slides, 15 |
| mass, 18.4.22 | transitions, 15.1 |
| materials, 5.5 | document, 3.1.1.6 |
| max, 7.6 | editor, 18.6.7 |
| maxColorPotential, 3.1.15.10 | copy, 11.3.10 |
| mean, 18.4.7 | cut, 11.3.10 |
| menu, 15.3.5 | paste, 11.3.10 |
| chemistry, 3.14 | redo, 11.3.11 |
| docking, 3.15 | selections, 11.3.9 |
| modeling, 10 | rock, 17.3.6 |
| document, 2.16.1, 2.16.2 | rotate, 17.3.5 |
| table, 12.8 | scene, 17.3.2 |
| weight, 11.3.5 | still, 17.3.3 |
| molecule, 2.4.1, 18.3.8, 18.6.8 | tween, 17.3.4 |
| editor, 2.4, 11.3 | mpeg, 17, 17.1, 17.2 |
| molecules, 3.7.1 | mpg, 17, 17.1 |
| moledit, 11.3.4 | multi apf super, 12.24.5 |
| molmech icmconv, 3.16.1 | multiple, 13.2.2, 19.15 |
| molmechanics, 5.4.10, 18.7.2 | rec, 13.2.2 |
| edit structure, 3.16.4 | protein, 18.3.5 |
| his asn, 3.16.2 | mutant, 18.4.13, 18.4.14 |
| minimize, 3.16.6 | mutate, 18.4.15 |
| mmff, 3.16.5 | residue, 18.4.13 |
| regularization, 3.16.3 | N C, 18.4.14 |
| sample loop, 3.16.7 | residue, 19.8.3 |
| terms, 3.16.9 | mutation, 18.4.13, 18.4.14 |
| view stack, 3.16.8 | name, 15.2.3 |
| minimize, 3.16.6 | navigate workspace, 6.2.1 |
| mmff, 3.16.5 | nearest, 18.4.22 |
| molt, 8, 8.4 | neighbors, 19.2.3 |
| monitor, 18.6.15 | new, 2.2, 2.2.3, 2.4.1, 3.1.1.1, 9.1 |
| monochrome, 11.2.7 | compound, 3.1.1.2 |
| monte carlo, 19.8.3 | dna, 3.1.1.3 |
| montecarlo, 18.7.1 | peptide, 3.1.1.1 |
| mouse, 2.1.2, 4.3, 4.4 | protein, 3.1.1.4 |
| mov, 17, 17.1, 17.2 | table, 7.1.1 |
| move, 2.1.15, 2.1.17, 3.3.19, 4.4, 4.4.7, 5.5.6, 18.4.5 | chemical, 3.1.1.2 |
| resize mesh, 5.5.6 | compound, 3.1.1.2 |
| slide, 15.2.4 | dna, 3.1.1.3 |
| structure, 4.4 | protein, 3.1.1.4 |
| tools, 4 | rna, 3.1.1.3 |
| rotate, 4.3 | script, 3.1.1.5 |
| slab, 4.3 | table, 3.1.1.7, 7.1.1 |
| translate, 4.3 | nmr, 18.4.18 |
| z-rotation, 4.3 | notations, 1 |
| zoom, 4.3 | numbers, 11.2.7 |
| movie, 5.6, 17.2, 17.3, 18.3.20, 18.7.1 | nvidia, 18.1.1 |
| directory, 17.3.1 | object, 2.1.15, 2.3.2, 3.1.8.1, 3.1.8.2, 18.3.8, 19.5 |
| montecarlo, 18.7.1 | objects, 5.4.9 |
| scene, 17.3.2 | occlusion, 5.5.9 |
| tab, 5.6 | shading, 5.5.9 |
| directory, 17.3.1 | occupancy, 19.9.2 |
| edit, 17.3.7 | oda, 3.6.4, 13.6, 13.6.1, 13.6.2 |
| export, 17.3.8 | older version, 3.1.9 |
| making, 17, 17.1 | omega, 5.1.17, 18.3.17 |
| open, 17, 17.1 | open, 3.1.2, 7.1.2 |
| powerpoint, 17.2 | with password, 3.1.3 |
| preview, 17.3.8 | chemical, 2.4.6 |
| resolution, 17.3.1 | mol, 2.4.6 |
| movie, 17, 17.1 | phi, 5.1.17, 18.3.17 |
| password, 3.1.3 | phylogenetic, 9.2.10 |
| sdf, 2.4.6 | phylogeny, 9.2.10 |
| opthhagp, 5.4.10 | pick, 19.2.1, 19.2.2 |
| optimal, 3.6.4, 13.6, 13.6.1, 13.6.2 | picking, 4 |
| optimize, 3.16.2, 5.4.10, 19.8.3 | atoms, 2.1.3 |
| origin, 5.3.4, 18.3.9 | residues, 2.1.3 |
| other selection, 6.4 | picture, 2.1.20, 3.1.13, 15.3.3 |
| outside, 18.5.10 | tips, 2.1.20 |
| overlay, 18.3.5, 18.4.6 | planar, 3.7.7, 5.1.17, 18.3.17 |
| package.activeicm, 16.5 | angle, 5.1.22 |
| packing, 3.5.1 | plane, 4.5, 4.5.1, 4.6, 5.5.8, 18.3.10, 18.3.20, 18.3.22 |
| pairwise, 19.6.1 | faq, 18.3.22 |
| parallelization, 13.4.7 | plot, 2.14, 2.14.2, 3.1.15, 3.1.15.8, 7.3, 7.3.1, 7.3.4, 7.3.5, 7.3.7, 7.3.9, 7.3.10, 7.3.11, 7.3.12, 7.3.13, 7.3.14, 7.3.15, 7.3.16, 7.3.17, 13.4.10 |
| password, 11.12.4 | axis, 7.3.7 |
| paste, 7.1.26, 11.3.12 | color, 7.3.10 |
| pbs, 13.4.6 | function, 3.9, 3.9.1 |
| pca, 7.4 | grid, 7.3.11 |
| pdb, 2.2.4, 2.3, 2.3.1, 2.3.2, 2.3.3, 3.1.6, 5.4.1, 12.9.1, 18.3.25, 18.3.26, 18.4.4, 19.5 | header, 7.3.5 |
| chem gl, 12.9.3 | inline, 7.3.17 |
| iw, 12.9.2 | logarithmic, 7.3.8 |
| file, 18.4.3 | mark, 7.3.9 |
| html, 5.4.8 | preferences, 3.1.15.8 |
| sensitive query, 5.4.5 | regression, 7.3.12 |
| convert, 3.16.1 | selection, 7.3.14 |
| recent, 3.1.17 | zoom translate, 7.3.13 |
| search, 2.1.1, 5.4, 5.4.3 | axis, 7.3.11 |
| table, 5.4.3 | display, 7.3.11 |
| pdbsearchfield, 3.2.13 | grid, 7.3.11 |
| pdbsearchhomology, 3.2.15 | inline, 7.3.17 |
| pdbsearchidentity, 3.2.14 | logarithmic, 7.3.8 |
| pdbsearchresults, 5.4.3 | pls, 7.5, 12.4, 12.5 |
| pdbsearcsequence, 3.2.16 | pmf, 18.5.7 |
| peptides, 3.1.1.1 | png, 3.1.13, 11.4, 11.4.4, 15.3.3 |
| perspective, 3.3.9 | pocket, 2.1.12, 2.3.6, 3.6.5, 13.1, 18.3.13, 18.4.11, 18.5.11, 19.7.1 |
| ph4, 11.8 | conservation, 18.4.12 |
| draw 2d, 11.8.1 | display, 14.3 |
| 3d, 11.8.2 | peptide, 2.1.12 |
| search, 11.8.3 | properties, 2.1.12 |
| pharmacophore, 2.7.5, 11.2.14, 11.11 | surface, 2.12.5 |
| 2D, 19.11.4 | portait, 3.1.15.6 |
| 3D, 19.11.3 | postscript, 3.1.15.6 |
| clone, 11.8.2 | potential mean force, 13.4.4 |
| draw2D, 11.8.1 | ppbatch, 13.6.8 |
| draw3D, 11.8.2 | ppepitope, 13.6.6 |
| edit, 11.8.1, 11.8.2 | ppmaps, 13.6.7 |
| move, 11.8.2 | ppresults, 13.6.9 |
| new, 11.8.2 | pproc, 13.6.2 |
| search, 11.8, 11.8.3, 19.11.3, 19.11.4 | ppsetligand, 13.6.5 |
| 2D, 2.7.1 | ppsetproject, 13.6.3 |
| ppt, 16.4, 16.6, 18.3.36 | ws, 19.2.2 |
| predict, 3.4.2, 7.5, 7.5.2, 12.4, 12.5, 18.6.14, 18.6.18 | ali, 2.2 |
| predicting bioassays, 7.5.2 | fasta, 2.2.2 |
| compound properties, 7.5.2 | load, 2.2.1 |
| preferences, 3.1.15, 18.3.25, 18.3.26 | new, 2.2.3 |
| presentatio, 15.3.5 | pdb, 2.2.4 |
| presentation, 16, 16.4 | surface, 2.3.7 |
| presentations, 15, 18.3.19 | qsar, 12.4, 12.5 |
| preserve, 18.6.11 | learn predict, 12.4 |
| press-and-hold to rotate, 11.3.4 | predict, 12.5 |
| preview export movie, 17.3.8 | quad.buffer, 18.2.3 |
| principal component analysis, 7.4 | quality, 3.1.14, 3.1.15.5 |
| components, 7.5.3 | query, 10.3, 18.6.5, 18.6.6, 18.6.16 |
| print, 7.3.15, 7.6.2 | molt, 8.4 |
| plot, 7.3.15 | pdb, 5.4.2 |
| printer.resolution, 3.1.15.6 | sequence, 5.4.4 |
| pro, 5.4.10 | processing, 11.7.3 |
| probe, 18.5.14 | setup, 11.7.1 |
| problem, 18.9.4 | quick, 2.1.20 |
| problems, 18.9 | start chain breaks, 2.1.10 |
| with selection, 18.9.2 | move structure, 2.1.2 |
| project, 2.1.19, 3.1.4, 13.6.3 | protein, 2.3 |
| name, 13.1.4 | read pdb, 2.1.1 |
| close, 3.1.12 | representation, 2.1.9 |
| rename, 3.1.8 | selection, 2.1.4 |
| properties, 5.1.14, 12.1, 18.6.12 | level, 2.1.5 |
| property, 2.3.7, 11.3.5, 18.6.12, 18.6.13, 18.6.14, 18.6.15 | sequence alignment, 2.2.5 |
| monitor, 11.3.5 | what is selected, 2.1.6 |
| propogate, 19.2.5 | dispalay.distance, 5.1.21 |
| protect, 15.3.7 | start color, 2.1.11 |
| protein, 2.3.1, 2.3.2, 2.3.7, 9, 18.4.5, 19.8.4 | quit, 3.1.18 |
| health, 3.6.2 | group, 12.21 |
| protein-protein, 3.6.4, 13.6, 13.6.1, 13.6.2, 13.6.3, 13.6.4, 13.6.5, 13.6.7, 13.6.8, 13.6.9 | racemic, 11.2.7, 12.12, 18.5.22 |
| protein-proteindocking, 13.6.6 | radius, 19.2.3 |
| convert, 3.16.1 | rainbow, 3.1.15.5, 5.1.30, 11.2.14 |
| protonated, 18.4.15 | rama export, 3.7.10 |
| protprot, 13.6 | ramachandran plot, 3.7.9, 3.7.10 |
| psa, 11.3.5 | range, 15.1.2 |
| psi, 5.1.17, 18.3.17 | ratio.selection, 3.1.15.5 |
| purple box, 3.3.23 | dock ligand, 14.4 |
| qs calculate distance, 2.3.9 | reactions, 11.10, 12.23 |
| convert chemical from pdb, 2.3.3 | read, 2.3.1, 3.1.2, 3.1.8.1, 3.1.16, 5.4.1, 5.4.7, 9.1 |
| protein, 2.3.2 | chemical, 11.1.1 |
| ddali, 2.2.6 | table, 7.1.2 |
| hydrogen bond, 2.3.8 | pdb, 2.1.1, 5.4.3 |
| pdb chem gl, 2.3.5 | sequence, 2.2.1 |
| iw, 2.3.4 | table, 7 |
| quick pocket, 2.3.6 | reagent, 12.23 |
| read pdb, 2.3.1 | rear, 4.5.1, 5.5.8 |
| selection, 19.2.1 | recent files, 3.1.16 |
| receptor, 13.2.2, 13.6.4, 13.6.6, 18.5.2, 18.5.15, 18.5.16, 19.15 | cylinders, 5.1.5 |
| from pdb, 13.1.1 | smooth, 5.1.5 |
| surface, 2.12.5 | worm, 5.1.5 |
| recover, 3.2.11 | ribbonColorStyle, 3.1.15.9 |
| rectangle, 19.2.1, 19.2.2 | right, 2.1.16 |
| redo, 3.2.10, 11.3.11 | click, 2.1.16 |
| refine, 10.7, 10.8 | rigid, 12.24 |
| side chain, 10.8 | super, 12.24.2 |
| region, 13.6.6 | table, 12.24.1 |
| regresion, 7.3.12 | ring, 11.3.2, 11.7.1 |
| regression, 7.5.1, 7.5.3 | rings, 11.2.7, 12.10, 12.24 |
| regul, 10.7 | rmsd, 3.7.2, 18.4.7, 18.4.8, 19.8.5 |
| regularization, 3.16.3, 10.7 | rock, 3.3.15, 15, 15.1, 15.1.1, 17.3.6 |
| related, 3.7.1 | speed, 15.1.2 |
| relationship, 7.5 | root, 18.4.7 |
| release, 1 | mean square deviation, 3.7.2 |
| reload, 3.1.8.1, 3.1.8.2, 13.1.15, 18.5.5 | rotate, 2.1.2, 3.3.15, 4, 4.4, 4.4.1, 4.4.2, 11.2.13, 15, 15.1, 15.1.1, 17.3.5, 18.6.19 |
| dock results, 13.1.15 | chemical, 11.2.13 |
| reloading object not running, 3.1.8.2 | when pasting, 11.3.4 |
| reloadingobjectrunning, 3.1.8.1 | easy, 3.3.12 |
| remove, 2.1.10, 18.3.6, 18.3.7, 18.3.9 | speed, 15.1.2 |
| explixit.hydrogens, 12.2 | rotating fragment in editor, 11.3.4 |
| salt, 12.2 | rotation, 2.1.3, 4.4.1 |
| rename project, 3.1.8 | row, 7, 7.1.20, 7.1.26, 7.1.34 |
| renumber, 18.4.4 | flag, 7.1.11 |
| replace chemical, 11.2.11 | mark, 7.1.11 |
| replacement, 14.7 | hide, 2.5.5 |
| repres, 4.1 | show, 2.5.5 |
| representation, 3.3.19, 19.3.2 | ruler, 5.1.30 |
| representations, 19.3 | rundock, 18.5.17 |
| residue, 3.1.15.7, 18.3.8, 18.4.15, 18.4.22, 19.4, 19.4.1 | salts, 2.5.15 |
| content, 3.4.1 | sample, 12.24 |
| label, 19.4.1 | save, 7.3.16, 7.6.2, 15.1.4, 18.3.34 |
| propogate, 19.2.5 | chemical, 11.3.7 |
| content, 3.4, 3.4.1 | image plot, 7.3.16 |
| mutate, 18.4.13, 18.4.14 | object, 2.1.13 |
| residues, 2.3.6, 18.3.13 | print delete alignment, 9.2.8 |
| resize, 5.5.6 | project icb, 2.1.14 |
| restore, 3.2.11, 4.5.1, 5.5.8 | slide, 15.2.2 |
| recent backup, 3.2.11 | table, 7.1.19 |
| results, 5.4.6, 13.6.9 | tree, 7.6.2 |
| stack, 13.1.13 | chemical, 2.4.4 |
| review and adjust binding site, 13.1.6 | image, 2.1.20, 3.1.14 |
| rgroup, 12.21 | mol, 2.4.4 |
| ribbon, 2.1.10, 3.1.15.9, 5.1, 5.1.2, 5.1.5, 18.3.24, 18.3.35, 19.3, 19.3.2 | object, 2.1.13 |
| as a mesh object, 18.3.3 | password, 3.1.10 |
| faq, 18.3.24 | picture, 3.1.14 |
| preferences, 3.1.15.9 | project, 2.1.14, 2.1.19, 3.1.7, 3.1.8, 3.1.9 |
| style, 3.1.15.9 | table.view, 7.1.6 |
| breaks, 5.1.5 | saving, 3.1.7 |
| scaffold, 12.14 | change, 6.1.3 |
| scale, 3.1.15.5 | clear, 3.2.7 |
| scan, 13.1.12 | column, 7.1.21 |
| hits, 13.1.12 | filter, 3.2.5, 6.1.4, 19.2.4 |
| scatter, 13.4.10 | graphical, 6.1, 6.3.1 |
| scatterplot, 13.4.12 | invert, 3.2.6, 7.1.21 |
| score, 13.4.8, 18.5.8, 18.5.9, 18.5.19 | lasso, 6.1 |
| threshold, 13.4.4 | level, 3.3.3 |
| screen, 19.12, 19.13.1 | mode, 3.3.4 |
| screening, 13.4, 13.4.1, 13.4.2 | near atoms, 3.2.8 |
| screenshot, 17, 17.1 | neighbors, 3.2.5, 3.2.8, 6.3, 6.3.2 |
| movie, 17.2 | object, 6.2.2 |
| script, 3.1.1.5, 15.3.4, 15.3.5, 18.4.19, 18.8, 18.8.1, 18.8.2, 18.8.3 | other, 6.4 |
| sdf, 2.4, 8.1, 11.2.14, 11.4, 11.4.1, 11.4.2, 11.4.3, 11.4.4, 11.12, 18.6.3, 18.6.4, 19.13.2 | pick, 6.1 |
| search, 8.2, 11.11, 11.12, 11.12.3, 18.6.16 | properties, 3.2.5 |
| filter, 11.7.2 | range, 7.1.21 |
| in workspace, 3.2.4 | residue, 3.2.5, 19.2.5 |
| 3D.pharmacophore, 2.7.4 | row, 7.1.21 |
| in.workspace, 3.2.4 | sphere, 6.3 |
| secondary structure, 3.6.1, 18.3.21 | spherical, 3.2.8, 19.2.3 |
| sctructure, 3.4.2 | superposition, 3.8.1 |
| structure, 3.4, 5.1.5 | table, 6.4, 7.1.21 |
| select, 7, 7.1.34, 18.4.22 | elements, 7.1.21 |
| a tree branch, 7.6.1 | toolbar, 6.1 |
| amino acid, 6.2.3 | tools, 6.1.1, 6.1.2, 6.1.3, 6.1.4 |
| chemical, 11.3.9 | whole, 6.2.2 |
| duplicates, 12.19 | workspace, 6.2, 6.3.2 |
| neighbors, 6.3 | selectioninvert, 3.2.6 |
| graphic, 6.3.1 | selections, 6 |
| object, 6.2.2 | links, 3.4.9 |
| superposition, 3.8.1 | selectneighbors workspace, 6.3.2 |
| tree, 7.6.1 | sequence, 2.2.1, 2.2.2, 2.2.3, 2.2.4, 2.2.6, 3.4, 3.4.8, 9, 9.1, 10.3, 18.4.12, 19.5, 19.6, 19.7, 19.7.2 |
| atom, 2.1.4, 2.1.5, 2.1.6 | analysis, 3.4 |
| graphical, 2.1.4, 2.1.5, 2.1.6 | reordering, 9.2.10 |
| object, 2.1.4, 2.1.5, 2.1.6 | structure, 3.4.6 |
| purple.box, 3.3.23 | type, 3.4.4 |
| residue, 2.1.4, 2.1.5, 2.1.6 | DNA, 3.4.4 |
| workspace, 2.1.4, 2.1.5, 2.1.6 | alignment, 2.2.5, 3.4.5, 9.2.5 |
| selectall, 3.2.3 | nucleotide, 3.4.4 |
| selecting.neighbors, 6.3.1 | protein, 3.4.4 |
| selection, 7.3.14, 7.6.1, 7.6.3, 18.3.4, 18.3.6, 18.3.7, 18.3.8, 18.3.12, 18.3.33, 18.4.9, 18.4.10, 18.4.22, 18.5.15, 19.2, 19.2.1, 19.2.2 | search, 3.4.15 |
| clear, 3.2.7 | structure.alignment, 3.4.6 |
| neighbors, 3.2.8 | sequences, 2.2, 5.4.1, 9, 18.3.26 |
| toolbar, 6.1 | unique, 3.4.13 |
| alignment, 6.4 | extract, 3.4.13 |
| all, 3.2.3 | unique, 3.4.13 |
| alter, 6.1.3 | set, 11.2.10, 18.4.21 |
| amino, 6.2.3 | bond type, 3.16.4 |
| atom, 3.2.5, 6.1 | charges, 3.16.5 |
| basic, 6.1.2 | chirality, 3.16.4 |
| bond, 3.16.4 | spec, 5.2 |
| formal charge, 3.16.4 | specifications, 18.2.1 |
| tether, 3.16.4 | faq, 18.2.1 |
| types, 3.16.5 | speed, 15.1.2 |
| setAPFparams, 18.6.18 | sphere, 3.1.1.9, 18.4.11, 19.7.1 |
| setup, 13.6.5, 18.5.14 | spherical, 18.4.9, 18.4.12, 19.7.2 |
| ligand receptor, 14.1 | selection, 19.2.3 |
| sgi, 18.1.3 | split, 12.22 |
| shade and box, 9.2.12 | spreadsheet, 12.8 |
| shading, 5.5.9 | square, 18.4.7 |
| shadow, 3.3.13 | squence.amino acid, 3.4.4 |
| sheet, 18.3.21 | stack, 13.1.11, 13.6.9, 18.7.2 |
| shell preferences, 3.1.15.10 | standard table, 7.1 |
| shift, 5.1.15 | standardize, 12.2 |
| shine, 3.1.15.5, 5.2 | table, 12.2 |
| shineStyle, 3.1.15.3 | start, 11.12.2 |
| show, 7.1.30 | dock, 13.1 |
| hide column, 7.1.30 | startup, 18.8.2 |
| side, 11.2.8 | static, 18.4.8 |
| by side, 11.2.8 | stereo, 3.1.15.6, 11.2.7, 18.2.2, 18.2.3, 18.3.18, 18.9.4 |
| stereo, 3.3.6 | hardware, 3.3.7 |
| chains, 10.8 | side-by-side, 3.3.6 |
| side-chains, 13.2.1 | stereohard faq, 18.2.2 |
| sigmaLevel, 3.5.6, 3.5.7 | stereoisomer, 12.12 |
| similar, 3.7.1 | stereoisomers, 2.9.1, 12.13 |
| similarity, 12.16 | stick, 3.1.15.5, 19.3.2 |
| simulation, 18.7.2 | still, 17.3.3 |
| simulations, 18.7 | stop, 15.1.3 |
| single, 11.3.6 | store, 3.3.19, 15.1.4, 18.3.23 |
| sketch, 2.4.1 | current view, 3.3.19 |
| accents, 3.3.14 | faq, 18.3.23 |
| accents, 3.3.14 | strain, 3.6.2 |
| skin, 5.1, 5.1.2, 5.1.6, 18.3.15, 19.3, 19.3.2 | strip, 18.4.9 |
| slab, 4.5.1, 5.5.8 | structure, 2.3, 3.5.3, 7.5, 18.4, 19.5, 19.7 |
| slice, 4.5 | representation, 5.1.2 |
| slide, 15.1.4, 15.3.1, 15.3.2, 18.3.32 | smiles, 12.7 |
| effects, 15.2.5 | display, 2.1.8 |
| navigation, 15.2.1 | undisplay, 2.1.8 |
| blend, 15.2.5 | structures, 5.4.1, 11, 11.1 |
| effect, 15.2.5 | style, 3.1.15.5 |
| smooth, 15.2.5 | substructure, 11.9, 11.12.3, 12.3, 18.6.5, 18.6.6 |
| transition, 15.2.5 | alerts, 12.3 |
| slides, 15, 15.2, 18.3.31 | suface, 18.4.19 |
| small, 2.4.1 | sulfur, 10.9 |
| smiles, 11.1.1, 11.3.5, 12.1, 12.6, 12.7 | superimpose, 3.8, 5.1.28, 18.3.5, 18.4.6, 18.4.7, 18.4.8, 19.7, 19.8.5 |
| solvent.accessible.area, 18.4.19 | 3D, 3.8.2 |
| sort hitlist, 13.4.9 | grid, 3.8.4 |
| table, 12.18 | multiple proteins, 3.8.3 |
| sorting, 13.4.9 | 3D, 3.8.2 |
| compounds, 7.5.4 | Calpha, 3.8.2 |
| backbone, 3.8.2 | sort, 7.1.32 |
| flexible, 12.24.3 | split fragments, 11.2.12 |
| heavy atoms, 3.8.2 | view, 7.1.5 |
| multiple, 3.8.3 | save, 7.1.6 |
| rigid, 12.24.1, 12.24.2 | zoom translate, 11.2.9 |
| substructure, 12.24.1, 12.24.2, 12.24.3 | action, 7.1.35 |
| superposition, 12.24 | alignment, 7.1.10 |
| surface, 2.3.7, 3.1.15.5, 5.1, 5.1.2, 5.1.8, 18.3.15 | append, 7.1.33 |
| area, 3.7.5 | clone, 7.1.14 |
| area, 3.7.5 | color, 7.1.8 |
| surfaces, 2.3.2, 5.5.1 | column, 2.5.1, 7.1.23, 7.1.24, 7.1.30 |
| surrounding, 2.3.6, 18.4.11, 19.7.1 | columns, 2.5.5 |
| swissprot, 2.2.1, 9.1 | compare, 2.5.18 |
| symmetry, 3.5.1, 3.5.3, 19.9, 19.9.1 | copy, 2.5.4 |
| packing, 3.5.1 | cursor, 7.1.35 |
| system preferences, 3.1.15.11 | delete, 7.1.12, 7.1.15 |
| tab, 7.1.2, 7.1.19 | display, 18.8.4 |
| pdb, 5.4 | double.click, 7.1.35 |
| table, 7, 7.1.26, 7.1.31, 7.1.34, 7.3, 7.3.1, 7.3.4, 7.3.5, 7.3.7, 7.3.9, 7.3.10, 7.3.11, 7.3.12, 7.3.13, 7.3.14, 7.3.15, 7.6, 11.2.2, 11.2.3, 11.2.7, 11.2.9, 11.2.10, 11.2.13, 11.2.14, 11.11, 12.8, 12.10, 12.24.1, 18.4.19, 18.6.9, 18.6.10, 18.6.12, 18.6.13 | edit, 2.5.14 |
| alignment, 7.1.10 | excel, 2.5.7, 7.1.18 |
| clone, 7.1.14 | export, 11.5 |
| color, 7.1.8 | filter, 2.5.9, 7.1.33 |
| column format, 7.1.31 | find-replace, 2.5.10 |
| copy, 7.1.27, 7.1.28 | to screen, 7.1.4 |
| delete, 7.1.15 | font, 7.1.9 |
| edit, 7.1.22 | foreground, 18.8.4 |
| filter, 7.1.33 | grid lines, 7.1.4 |
| find, 7.1.7 | hide, 7.1.30 |
| replace, 11.2.11 | hyperlink, 2.5.12 |
| font, 7.1.9 | insert, 7.1.25 |
| size, 18.3.1 | join, 3.10.4 |
| grid, 7.1.5 | label, 2.5.11 |
| histogram, 7.3.1 | landscape, 7.1.16 |
| insert, 7.1.23 | mark, 2.5.11 |
| layout, 7.1.5 | merge, 2.5.19, 3.10.4, 12.17 |
| mark, 7.1.11 | mouse, 7.1.35 |
| row, 7.1.11 | name, 7.1.13 |
| mouse, 7.1.35 | new, 7.1.1 |
| navigation, 7.1.4 | options, 7.1.12 |
| new, 3.1.1.7 | orientation, 7.1.16 |
| column, 7.1.23 | portrait, 7.1.16 |
| plot, 7.3 | print, 2.5.8, 7.1.4, 7.1.17 |
| print, 7.1.17 | read, 7.1.2 |
| rename, 7.1.13 | rename, 7.1.13 |
| rightclick, 7.1.12 | right click, 7.1.12 |
| save, 7.1.3 | row, 7.1.25 |
| selection, 7.1.3 | rows, 3.10.6 |
| search, 7.1.7 | save, 2.5.6, 7.1.3, 7.1.4, 7.1.19 |
| select, 7.1.21 | scale, 7.1.16 |
| setup, 7.1.16 | scroll, 7.1.4 |
| select, 7.1.21 | trouble-shooting, 18.9.2 |
| setup, 7.1.16 | troubleshooting, 18.9 |
| sort, 2.5.2, 7.1.32, 12.18 | truncating a mesh object, 18.3.14 |
| standard, 7.1 | crash qlock, 18.9.3 |
| view, 2.5.3, 11.2.8 | tsv, 7.1.19 |
| width, 7.1.4 | tut analyze occupancy, 19.9.2 |
| tables, 7, 12.16 | symmetry, 19.9.1 |
| tautomer, 12.11, 18.4.15 | bind pocket, 19.7 |
| tautomers, 2.9.2, 12.11 | hydrogen bond, 19.7.3 |
| temperature, 3.6.3 | ligand pocket, 19.7.1 |
| template, 10.3, 12.24 | moldoc transition, 2.16.2 |
| docking, 18.5.4 | moldocs, 2.16.1 |
| terminal, 11.2.7 | multiple receptor, 19.15 |
| font size, 18.3.1 | pocket conservation, 19.7.2 |
| text, 3.1.15.7, 11.2.7, 11.12.3, 15.3, 15.3.1, 15.3.2, 15.3.6, 18.6.16, 19.4.3 | tut1, 19.1 |
| search, 11.7.4 | tut1a, 19.2 |
| texture, 5.5 | tut1b, 19.3 |
| thoroughness, 12.10, 12.24, 18.5.13 | tut1b1, 19.3.1 |
| three, 11.2.2, 18.6.11 | tut1b2, 19.3.2 |
| threshold, 3.1.15.5 | tut1c1, 19.4 |
| tier, 2.1.17 | tut2, 19.5 |
| time, 18.5.12 | tut2a, 19.5.1 |
| tools 3D, 3.6 | tut2b, 19.5.2 |
| analysis, 3.7 | tut2c, 19.6.1 |
| append rows, 3.10.6 | tut2d, 19.6.2 |
| extras, 3.9 | tut2e, 19.6.3 |
| plot function, 3.9.1 | tut2f, 19.6.4 |
| identify ligand binding pocket, 3.6.5 | tut3, 19.8 |
| oda, 3.6.4 | tut3a, 19.8.1 |
| superimpose, 3.8 | tut3b, 19.8.2 |
| table, 3.10 | tut3bb, 19.8.3 |
| Learn, 3.10.1 | tut3c, 19.8.4 |
| clustering, 3.10.3 | tut3e, 19.9.3 |
| merge, 3.10.4 | tut3f, 19.8.5 |
| predict, 3.10.2 | tut4b, 19.10.1 |
| torsion, 4.4.6, 18.4.16 | tut4c, 19.11.1 |
| angles, 4.4, 4.4.6 | tut4d, 19.11.2 |
| transition, 2.16.2 | tut5, 19.12 |
| blend, 18.3.32 | tut5a, 19.12.1 |
| transitions, 15, 18.3.31 | tut5b, 19.12.2 |
| translate, 2.1.2, 4, 4.4, 11.2.9 | tut5c, 19.13.1 |
| translation, 2.1.3, 3.4.3, 4.4.3, 7.3.13 | tut5e, 19.13.2 |
| transparent, 5.5.7 | tut6, 2.16 |
| ribbon, 18.3.3 | tutgs, 19.1.1 |
| tree, 7.6.1, 7.6.2, 7.6.3, 9.2.10 | tutorial 2D pharmacophore, 19.11.4 |
| branch swapping, 9.2.10 | 3D pharmacophore, 19.11.3 |
| distance, 2.8.3 | chemical search, 19.11 |
| edit, 2.8.4 | edit chemical, 19.10.2 |
| reorder, 2.8.3 | tutorials, 19 |
| trouble shooting, 18.9.1 | tween, 17.3.4 |
| unclip, 4.5.1, 5.5.8 | wavefront, 5.5 |
| undisplay, 2.1.7, 5.1.1, 18.3.9, 18.3.33 | weak, 18.4.20 |
| origin, 5.3.4 | browser, 3.1.11 |
| undo, 3.1.15, 3.2.9, 11.3.11 | weight, 12.1, 18.6.12, 18.6.15 |
| redo structure, 11.3.11 | weighted, 7.6 |
| uniprot, 2.2.1 | what to dock, 13.1.2 |
| unique, 11.2.7, 12.19 | width, 7.1.20 |
| unit, 3.5.3 | window, 2.1.17 |
| units, 18.5.1 | layout, 15.2.3 |
| unix, 18.8.2 | windows, 2.1.18, 11.12.1 |
| updates, 1 | wire, 3.1.15.5, 5.1, 5.1.2, 5.1.3, 18.3.4, 18.3.22, 19.3, 19.3.2 |
| use activeicm, 16.4 | wireBondSeparation, 3.1.15.1 |
| user, 1, 11.12.4 | working with pdb, 5.4.6 |
| annotation, 19.4.3 | sequence alignments, 19.6 |
| user-defined groups, 11.3.3 | the molecular editor, 19.10 |
| uundisplay-all, 3.3.1 | workspace, 2.1.7, 2.3.4, 12.9.2, 19.2.2 |
| van der waal, 5.1.29 | panel, 2.1.7 |
| variable, 3.1.15.7, 18.3.8, 19.4 | selection, 6.2 |
| verbose, 12.10 | navigation, 6.2.1 |
| vicinity, 12.10 | write, 2.1.20, 7.3.16, 18.6.4, 18.7.1 |
| video, 17, 17.1 | image, 3.1.14 |
| intro, 17.1 | image, 3.1.14 |
| view, 3.3.19, 11.2.7, 18.3.23, 18.7.2 | object, 2.1.13 |
| center, 3.3.20 | picture, 3.1.14 |
| color background, 3.3.18 | project, 2.1.14, 3.1.7 |
| dock results, 13.1.11 | table, 7.1.3 |
| macroshape, 3.3.22 | writing a pdb file, 18.4.3 |
| menu, 3.3 | ray, 3.5 |
| mesh clip, 4.5.1 | xi, 5.1.17, 18.3.17 |
| selection level, 3.3.3 | xstick, 5.1.4, 18.3.22, 19.3.2 |
| mode, 3.3.4 | xyz, 18.3.9 |
| tools, 3.3 | zoom, 2.1.2, 2.1.3, 4, 4.4, 4.4.4, 7.3.13, 11.2.9 |
| tools2, 4.2 | |
| tree, 7.6.3 | |
| undisplay all, 3.3.1 | |
| stach, 3.16.8 | |
| virtual, 13.4, 13.4.1, 13.4.2, 19.12, 19.13.1 | |
| virus, 3.5.3 | |
| vls, 13.2, 13.4, 13.4.5, 18.5.8, 18.5.9, 19.13.2 | |
| getting started, 13.4.2 | |
| histogram, 13.4.11 | |
| scatter plot, 13.4.10 | |
| introduction, 13.4.1 | |
| preferences, 13.4.4 | |
| results, 13.4.8 | |
| run, 13.4.5 | |
| scatterplot, 13.4.12 | |
| results, 13.4.8 | |
| volume, 11.3.5 | |
| vsex, 19.13 | |
|