Chime program

The temperature factor (together with the Cartesian coordinates) is the result of the rcfincincnt procedure as specified by the REMARK 3 record. High values of the temperature factor suggest cither disorder (the corresponding atom occupied different positions in different molecules in the crystal) or thermal motion (vibration). Many visualisation programs (e.g., RasMol [134] and Chime [155]) have a special color scheme designated to show this property. 

Visualization software allows the user to display molecular structures imported from databases or other software programs. Chime, RasMol, and Protein Explorer programs are available at the websites listed below for Windows operating PCs and Macintosh PowerPC computers. 

The Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB-PDB at http //www.rcsb.org/pdb/) is the online source for X-ray and NMR structural data. Many software programs mentioned in Section 3.12 include the facility to visualize imported data however, two free software programs operate well in this regard. These are RasMol and Chime, described below. 

Protein Explorer, a free RasMol and Chime derivative with extended capabilities, is available at http //www.umass.edu/microbio/chime/explorer/. The program allows the user to visualize macromolecular structure in relation to function. 

MDL s Chemscape Server and Chime Pro product suite is an integrated set of tools for chemical structure illustration, communication, and database searching. Chime and Chime Pro are chemical structure visualization programs that run in the most popular Web browsers. 

In amount of program code, it now rivals the size of RasMol. (Chime has well over 100,000 lines of C++.)... 

This figure was prepared with the assistance of Robert M. Hanson s Origami program and the Chime plug-in (MDL) to Netscape. 

There are many other molecular graphics programs available two of the most popular are Chime (http //www.mdli.com/products/framework/chime/index.jsp) and RasMol [29] (http //www.umass.edu/microbio/rasmol/index2.htm) however, Cn3D and SRS 3D are our first choice for gaining an initial view of structures because of their ability to present sequence and structure in such an integrated way. 

Brookhaven Protein Data Bank http //www.rcsb.org/ pdb/ Research Collaboratory for Structural Bioinformatics (RCSB), non-profit consortium, CA, USA World-wide repository for the processing and distribution of 3-D biological macro-molecular structure data. X-ray crystallographic and NMR data. Freely downloadable stmcture files. Display of stmctures via free programs of other vendors (e.g. Chime, Rasmol, WebLab Viewer)... 

Chime A plug-in that allows chemical structures to be displayed within a web page. The structures, which are embedded as mol files, can be viewed Interactively l.e. they can be rotated, expanded, exported, and rendered In RasMol. The program Is the copyright of MDL Information Systems, Inc., and is available free (subject to a license agreement). 

Rgure 10.4 Computer-generated models of methane. These are generated using the computer program Rasmol. A similar program. Chime, allows the molecule to be rotated on-screen... 

Until 0210, everything was basically OK. At 0210 06, Bonin said I have the controls, and Robert replied OK. At this point, for reasons that are not clear - and never will be - Bonin put the plane into a steep climb. The flight control computer issued a chime warning they were leaving the programed altitude, and the stall warning sounded, Stall, in English. This alarm thereafter sounded 75 times before the crash. 

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