User:Eric Martz/Introduction to Structural Bioinformatics I: Difference between revisions
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#Use the Firefox browser. (Initial orientation, Set by Jmol does not work in Safari.)--> | #Use the Firefox browser. (Initial orientation, Set by Jmol does not work in Safari.)--> | ||
#Go to [http://polyview.cchmc.org/polyview3d.html Polyview-3D]. | #Go to [http://polyview.cchmc.org/polyview3d.html Polyview-3D]. | ||
#Enter your PDB ID. | #Enter your PDB code in the PDB ID slot near the top. | ||
#Change "Type of request" from "Single slide" to "Animation". It is under the ''Image Settings'' section near the bottom. | #Change "Type of request" from "Single slide" to "Animation". It is under the ''Image Settings'' section near the bottom. | ||
#Click any "Preview" link.<font color='gray'> | #Click any "Preview" link.<font color='gray'> | ||
#Optional: If you want to modify the orientation or zoom of the molecule, click on ''View by Jmol / Set orientation'' under ''Quick links'' at the upper left of the page. Use the mouse to rotate and zoom in Jmol. Then click the ''Set and close'' button. | #Optional: If you want to modify the orientation or zoom of the molecule, click on ''View by Jmol / Set orientation'' under ''Quick links'' at the upper left of the page. Use the mouse to rotate and zoom in Jmol. Then click the ''Set and close'' button. | ||
#Optional: If you want to change the colors, hide portions of the molecule, emphasize certain residues, etc. feel free to try out these options in the form, using ''Preview'' to check your results.</font> | #Optional: If you want to change the colors, hide portions of the molecule, emphasize certain residues, etc. feel free to try out these options in the form, using ''Preview'' to check your results.</font> | ||
# | #In the "Animation Settings" section at the bottom of the page, set Delay to 10/100. | ||
#Change "Angle step" to 5 degrees. | #Change "Angle step" to 5 degrees. | ||
#Check "Rocking". | #Check "Rocking". | ||
#Change "angle range" for rocking to | #Change "angle range" for rocking to 30 degrees. | ||
#Click "Get 3D Image". | #Click "Get 3D Image". | ||
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In Powerpoint, animations move only when the slides are projected (full-screen). | In Powerpoint, animations move only when the slides are projected (full-screen). | ||
'''Windows Powerpoint''': Simply drag the animation directly from the Polyview-3D web page and drop it into a Powerpoint slide. | |||
'''Mac Powerpoint''': The method below produces a slide that will animate continuously. Other methods we have tried do not. | |||
#Control-Click on the animation in the Polyview-3D web page, and select Save Image As ... | #Control-Click on the animation in the Polyview-3D web page, and select Save Image As ... | ||
#Save the image to the Desktop. | #Save the image to the Desktop. | ||
#Drag the image file (filename ending in .gif) from the Desktop and drop it into a Powerpoint slide. | #Drag the image file (filename ending in .gif) from the Desktop and drop it into a Powerpoint slide. | ||
#As stated above, the animation will | #As stated above, the animation will run only when the saved .ppt file is projected (full screen). | ||
===<font color='gray'>Section 8 - Optional: Contacts/Non-covalent Bonds</font>=== | ===<font color='gray'>Section 8 - Optional: Contacts/Non-covalent Bonds</font>=== | ||
