Re: [PyMOL] Stereo Set up with PyMOL v1.7.4.4 EDU

) 231-8324 From: Christoph Parthier mailto:cparth...@googlemail.com>> Date: Friday, May 27, 2016 6:59 AM To: "pymol-users@lists.sourceforge.net<mailto:pymol-users@lists.sourceforge.net>" mailto:pymol-users@lists.sourceforge.net>> Cc: Christopher Colbert mailto:

[PyMOL] Stereo Set up with PyMOL v1.7.4.4 EDU

Hi All, We "upgraded" our 3D viewing room with a computer that has a Quadro K2000 video card running Windows 7. The computer displays through two NEC projectors with polarizing filters that display agains a special screen. Stereo is viewed through polarized glasses just like in the movie thea

[PyMOL] Postdoctoral Position to study IDPs

This message is posted on behalf of my colleague Dr. Sangita Sinha: A postdoctoral position starting immediately is available to conduct NMR studies of proteins involved in autophagy. Specifically, various collaborative projects are investigating the conformational flexibility and function of

Re: [PyMOL] Cartoon_oval_length

Remember this setting will only change the appearance of alpha helices. If you are trying to change the appearance of sheets and loops you need to use their settings. Cheers, Chris -- Christopher L. Colbert, Ph.D. Assistant Professor Department of Chemistry and Biochemistry North Dakota State

Re: [PyMOL] 3D TVs experience with PyMOL?

I second this request. Please post to the list concerning 3D compatibility. Additionally, has anyone been able to get the TVs to work in full screen stereo with Pymol or other 3D modelling software and a Linux or Windows workstation? Thanks for any input. Chris > Hello List: > > Has anyone bee

[PyMOL] Using CMYK color space

Hi Pymol'rs, I have search the Wiki and Mail-list archive to find a protocul for using the CMYK color space, but have only found "color-safe" definitions. My Question(s): When do you define the color space during the creation of a figure to ensure usage of a particular color space, ie. cmyk? C

Re: [PyMOL] secondary structure

Hi Karen, There sure is a way to fix this. Use the following statements: alter 96-103/, ss='S' alter 96-103/, ss='H' alter 96-103/, ss='L' to set residues 96-103 to beta Strand, alpha Helix, and Loop respectively. You can asssign your whole sequence this way from the Procheck assignments. Good

Re: [PyMOL] ray

Hi Kostas, This topic has been covered several times from a resolution stand point. Joel has a nice hint, but be sure to set your viewport to the right aspect ratio before using the ray command. viewport 700, 700 (other pymol commands to make your figure the way you want) ray 2400, 2400 png myf

[PyMOL] Image DPI

Hi PyMOL-users, I have taken a look into the archives and FAQs about making 300dpi images. It seems straight forward on the surface, image size in inches * 300dpi gives the number you put into the ray command. However, there is mention of correcting for aspect ratio, which is defined by the viewp

RE: [PyMOL] line width

Hi Warren, Does this work with the transparency setting as well? I had a molecule that I wanted some sticks transparent to see behind them and other sticks solid. The only way I found to do this was to load the molecule twice and draw the transparent sticks from molecule 1 and the solid sticks f