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ACD/Chemsketch Reference Manual (Ver 11.0)

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ACD/Chemsketch Reference Manual (Ver 11.0) ACD/ChemSketch Version 11.0 for Microsoft Windows Reference Manual Comprehensive Interface Description Advanced Chemistry Development, Inc. Copyright © 1997–2007 Advanced Chemistry Development, Inc. All rights reserved. ACD/Labs is a trademark of Advanced Chemistry Development, Inc. Microsoft and Windows are registered trademarks of Microsoft Corporation in the United States and/or other countries Copyright © 2007 Microsoft Corporation. All rights reserved. IBM is a registered trademark of International Business Machines Corporation Copyright © IBM Corporation 1994, 2007. All rights reserved. Adobe, Acrobat, PDF, Portable Document Formats, and associated data structures and operators are either registered trademarks or trademarks of Adobe Systems Incorporated in the United States and/or other countries Copyright © 2007 Adobe Systems Incorporated. All rights reserved. Camtasia is a registered trademark of TechSmith Corporation, and Camtasia Studio is a trademark of TechSmith Corporation Copyright © 1999–2007 TechSmith Corporation. All rights reserved. All the other trademarks mentioned within this reference manual are the property of their respective owners. All trademarks are acknowledged. Information in this document is subject to change without notice and is provided “as is” with no warranty. Advanced Chemistry Development, Inc., makes no warranty of any kind with regard to this material, including, but not limited to, the implied warranties of merchantability and fitness for a particular purpose. Advanced Chemistry Development, Inc., shall not be liable for errors contained herein or for any direct, indirect, special, incidental, or consequential damages in connection with the use of this material. Table of Contents Before You Begin ............................................................................................. vii About This Reference Manual ......................................................................................vii Mouse Conventions ......................................................................................................vii For More Information…................................................................................................viii How to Contact Us..................................................................................................................viii Online Updates .......................................................................................................................viii 1. Introduction................................................................................................ 1 1.1 About ACD/ChemSketch......................................................................................1 1.2 Additional Modules...............................................................................................1 1.3 What’s New?........................................................................................................2 1.4 Freeware Version.................................................................................................3 2. Interface Overview..................................................................................... 4 2.1 Objectives ............................................................................................................4 2.2 Common Window Elements.................................................................................4 2.2.1 Toolbar Customization ............................................................................................... 5 2.3 Title Bar................................................................................................................5 2.4 Color Palette ........................................................................................................6 2.5 RSS News bar......................................................................................................6 2.5.1 RSS Channels Dialog Box ......................................................................................... 7 2.5.2 HTTP Proxy Parameters Dialog Box.......................................................................... 8 2.6 Status Bar ............................................................................................................8 2.7 Structure and Draw Modes ..................................................................................9 3. Structure Mode ........................................................................................ 10 3.1 Objectives ..........................................................................................................10 3.2 General Information ...........................................................................................10 3.3 Screen................................................................................................................11 3.4 Menu Bar............................................................................................................12 3.5 General Toolbar .................................................................................................12 3.5.1 Delete Button............................................................................................................ 14 3.5.2 Zoom Buttons ........................................................................................................... 15 3.5.3 Zoom Out Button ...................................................................................................... 16 3.5.4 Zoom Box and Image Scaling Buttons..................................................................... 16 3.5.5 3D Viewer Button ..................................................................................................... 17 3.6 Structure Toolbar ...............................................................................................17 3.6.1 Select/Move Button .................................................................................................. 18 3.6.2 Select/Rotate/Resize Button .................................................................................... 20 3.6.3 3D Rotation Button ................................................................................................... 21 3.6.4 Lasso On/Off Button................................................................................................. 21 3.6.5 Draw Normal Button................................................................................................. 22 3.6.6 Draw Continuous Button .......................................................................................... 23 3.6.7 Draw Chains Button ................................................................................................. 24 3.6.8 Up Stereo Bonds Button........................................................................................... 25 3.6.9 Down Stereo Bonds Button...................................................................................... 25 3.6.10 Coordinating Bonds Buttons .................................................................................... 26 3.6.11 Special Bonds Buttons ............................................................................................. 26 3.6.12 Solid / Dotted Delocalization Curve Buttons ............................................................ 27 ACD/ChemSketch Reference Manual i Table of Contents 3.6.13 Markush Bond Buttons............................................................................................. 27 3.6.14 Reaction Plus Button................................................................................................ 29 3.6.15 Reaction Arrow Buttons ........................................................................................... 30 3.6.16 Reaction Arrow Labeling Button............................................................................... 30 3.6.17 Reaction Calculator Button ...................................................................................... 32 3.6.18 Atom-Atom Map Button ............................................................................................ 33 3.6.19 Polymers Button ....................................................................................................... 33 3.6.20 Change Position Button............................................................................................ 34 3.6.21 Set Bond Horizontally Button ................................................................................... 35 3.6.22 Set Bond Vertically Button........................................................................................ 35 3.6.23 Flip on Bond Button.................................................................................................. 35 3.6.24 Flip Top to Bottom Button......................................................................................... 36 3.6.25 Flip Left to Right Button............................................................................................ 36 3.6.26 Instant Template Button ........................................................................................... 36 3.6.27 Calculate Parameters of Substituent Button ............................................................ 37 3.7 Atoms Toolbar....................................................................................................37 3.7.1 Query Atom Buttons ................................................................................................. 38 3.7.2 Query Bond Buttons................................................................................................
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