BCH622-Making .Kins Assignment
Contents
1. you should get a list of kinemages Kinemage 1 Kinemage 2 etc to choose from If you made a mistake select the kinemage to get rid of and choose File close don t use File Close all When only the desired kinemages remain open choose File Save as to write all of them to disk Make sure to give the file a new name KiNG is continually under development and could write out a damaged kinemage so you don t want to overwrite your originals A few other things e Rename and rearrange views views Edit saved views e Make your kinemage display a white background use realistic perspective or draw all lines as thin by default select Edit Kinemage_ properties KiNG menu Help gives access to the User manual in a separate window whole set of useful tools in addition to the those under the other menus a list of Keyboard shortcuts and several built in kinemages that will load into the graphics window just like external files Background reading entirely optional On kinemages Richardson amp Richardson 1992 Protein Sci 1 3 Richardson amp Richardson 1994 Trends Biochem Sci 19 135 Richardson amp Richardson 2001 Int Tables for Cryst vol F chapter 25 2 8 727 730 On ricin Rutenber Robertus et al 1991 Proteins 10 240 251 2602. Assignment for How To Make Your Own Kinemages Graphics Assignment The graphics assignment is to do the Tutorial How To Make Kinemages using KiNG Turn in by emailing your resulting kinemage file This should give you examples of most of the kinds of things you might need to do in making the kinemages for your class project The various programs documentation and PDB files mentioned are available from the BCH622 site This tutorial lets you practice by using KiNG to construct a multi part kinemage file to illustrate the structural features of ricin PDB file 2AAl These instructions lead you through most of the authoring functions for making your own kinemages including stylistic suggestions on how to choose views colors button layouts ribbons superpositions etc in ways that will help communicate your 3 D ideas effectively The more specialized functions of rotatable bonds mutations and all atom contacts are referred to a separate later exercise called All Atom Contacts To understand the structure and format of the kin text files you are producing and to look up specific features of the kinemage format see the kinemage file format description document pdf If you want to construct a kinemage feature you have seen in a previous example use a word processor to look at how it was done in that file and construct yours by analogy Neat things to do with KING KiNG allows you to edit your kinemage in certain ways that would otherwis
3. e require hand modification with a text editor A sampling of the available tools Merge existing sub groups Move lists from one sub group to another Move subgroups from one group to another Create new empty groups and subgroups Move groups subgroups lists from one kinemage to another Rearrange the order in which groups and subgroups appear Translate rotate and scale entire groups subgroups lists Change the widths of lines and the radii of balls and spheres Create a single file that contains multiple kinemages Most of these tools can be accessed by loading your file into KiNG and selecting the Edit Edit hierarchy KiNG will then display a hierchical view of the contents of your kinemage Navigate to the part to be modified and choose an appropriate command from the Hierarchy window In particular many different options can be altered using the button options Use cut and Paste to relocate and merge things and use Move up and Move down to change the order they appear in To edit the properties of single points Use the edit point props option in the Edit draw delete dialog box then click on the point to be edited in the graphics from the button options and To create one file that contains multiple kinemages start KING and use the File Open command to open each individual kinemage in the order in which you wish for them to appear in the final file If you look in the drop box in the upper righthand corner of the KING window
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