WebUCSF ChimeraX - I - Overview 10.5Orientation, snapshot and movie.13 11Molecular display toolbar.....15 11.1Restart.15 11.2Molecular display toolbar buttons.15 11.3Show and hide atoms.17 11.4Atom selection.18 11.5Models.19 12Biological Assembly.....19 12.1Coordinates files.19 12.2 1DUDtrimeric assembly.20 12.3 2BIWmonomer.22 WebMay 31, 2024 · From its help page it looks very similar to vseries, but it seems to me that vseries is more appropriate for maps (volumes), because vseries play has this normalize option that keeps the volume enclosed by the displayed surface constant as you step through the volume series (by dynamically adjusting the contour level, I suppose).
ChimeraX Tutorial Opening New File 3D Protein - YouTube
WebSep 15, 2024 · I will give it a go in chimeraX. I think my main issue at this point is the different speed of movie outputs caused by slowdowns on the computer while running … Web• vseries play volume-spec [ play-options ] Play back the specified volume series, with play-options as follows: jumpTo time Go directly to the specified time and stop. See also … Command: mseries Usage: mseries model-spec [ step i ] [ pauseFrames M ] [ loop … Command-Line Color Specification. Colors can be specified in commands (color, … See also: Volume Viewer, measure length, vseries, the tape measure mouse mode. … Tool: Volume Viewer. Volume data is a broad term for density maps, … Command: resfit Usage: resfit atom-spec map map-model [ residueRange … Measurements. Since essentially all calculations can be said to involve … Category: Membership rules, in order of application: solvent: of the following two, … ChimeraX Command Files. ChimeraX command files (scripts) are plain text … vseries – display, analyze, or process an ordered series of maps; wait – update … Tool: Log. The Log tool echoes commands that have been executed, with any … highest quality k cups
UCSF ChimeraX - I - Overview
WebJun 8, 2024 · Use the "vseries true" option on the open command to tell ChimeraX the maps are a series. open vol_*.mrc vseries true Tom > On Jun 8, 2024, at 6:35 AM, … WebStructure Analysis and Comparison. Structure analysis: Hydrogen bonds and contacts. Amino acid sidechain conformations (rotamers) Properties (B-factor, hydrophobicity, etc.) Structural comparison: Superimposing structures. Morphing between structures. WebMar 4, 2024 · ChimeraX A newer and perhaps easier possibility is to use the newly introduced tools within the molecular graphics and modeling software UCSF ChimeraX (basic ChimeraX tutorial.) The new menu “ Tools > Structure Prediction > AlphaFold ” provides a simple interface that does not require the user to know how to use a Jupyter … highest quality image file