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• Surfaces and Voids
  Help with integrating output from programs that generate/analyse surfaces and voids in molecules.
  461 bytes (69 words) - 15:15, 12 September 2008
• Huge surfaces
  PyMOL can render '''very large''' (huge) surfaces of proteins, using a few tricks. First off, you should know that because o
  2 KB (273 words) - 13:55, 16 March 2018

Page text matches

• Surface quality
  ...pproximations. These low values are good for speed--especially for larger surfaces. For rendering of publication quality photos, and truer representations of ...(this does not include any ray-tracing or rendering). Lastly, ray tracing surfaces with high quality settings takes much longer.
  1 KB (182 words) - 09:56, 24 October 2016
• SURFNET
  A recipe for reading surfaces from [http://www.ebi.ac.uk/~roman/ Roman Laskowski]'s [https://www.ebi.ac.u 1. Create your surfaces in "CCP4" format in SURFNET.
  1 KB (222 words) - 09:51, 17 January 2018
• CASTp
  The CASTpyMOL plugin allows for the visualization of surfaces and voids identified from CASTp using pyMOL. For more information see the
  380 bytes (49 words) - 11:12, 15 January 2012
• Surfaces and Voids
  Help with integrating output from programs that generate/analyse surfaces and voids in molecules.
  461 bytes (69 words) - 15:15, 12 September 2008
• Transparency
  # show all surfaces with 50% transparency.
  2 KB (213 words) - 10:30, 10 April 2012
• Surface
  ...face "Connolly" surface] or the surface that would be traced out by the '''surfaces''' of waters in contact with the protein at all possible positions. [[Image To adjust the transparency of surfaces try:
  7 KB (1,009 words) - 09:22, 24 October 2016
• Spec direct power
  This controls the direct specular power. Essentially, this is how strongly surfaces that are perpendicular to the ray drawn from the camera are rendered. The
  711 bytes (100 words) - 16:26, 17 April 2009
• Solvent radius
  ...the solvent radius in PyMOL affects how PyMOL interprets [[Surface_solvent|surfaces]], [[Displaying_Biochemical_Properties#Surface-Related|surface area]].
  511 bytes (62 words) - 15:57, 17 April 2009
• Two sided lighting
  ...ided_lighting''' when turned on illuminates both the inside and outside of surfaces; when off, just the outside. Notice the light on the inside of the surface
  488 bytes (74 words) - 17:19, 2 November 2007
• Surface color
  '''surface_color''' controls the color of surfaces as drawn in PyMOL.
  610 bytes (80 words) - 08:31, 9 July 2017
• Spec reflect
  ...p or diffuse the reflection is, giving you shiny looking surface or duller surfaces.
  738 bytes (92 words) - 14:50, 7 February 2011
• Huge surfaces
  PyMOL can render '''very large''' (huge) surfaces of proteins, using a few tricks. First off, you should know that because o
  2 KB (273 words) - 13:55, 16 March 2018
• Caver
  [[Category:Surfaces and Voids|Caver]]
  1 KB (202 words) - 17:48, 27 July 2017
• SuperSym
  ...printing, this option saves at least 60% of materials relative to regular surfaces, with minimal loss in resolution ***Displays symmetry partners as surfaces. This option may take a very long time to execute
  5 KB (689 words) - 05:41, 1 July 2020
• CavitOmiX
  [[Category:Surfaces and Voids|CavitOmiX]]
  3 KB (354 words) - 22:24, 23 December 2022
• OLD TOPTOC
  ## [[Surfaces_and_Voids|Surfaces and Voids]]
  4 KB (451 words) - 12:14, 15 September 2008
• Displaying Biochemical Properties
  ...he protein atoms. The contact surface is the surface traced out by the vdw surfaces of the water atoms when in contact with the protein. PyMOL can show solvent accessible surfaces using the dot or sphere representations:
  14 KB (2,294 words) - 03:57, 21 August 2014
• TOPTOC
  ## [[Surfaces_and_Voids|Surfaces and Voids]]
  6 KB (682 words) - 07:03, 9 September 2010
• Gallery
  ...g a binding pocket|description=This image shows a nice way to show binding surfaces
  21 KB (3,151 words) - 18:06, 10 February 2017
• Slerpy
  #transparent surfaces (get black holes)
  42 KB (5,896 words) - 04:01, 1 March 2010