RasMol code

At the same time, the power and capabilities of standard PCs increased dramatically. The Richardsons (Richardson and Richardson, 1992) at Duke University developed molecular graphics programs to run on the Macintosh. In a dramatic development, the World Wide Web emerged. Roger Sayle created RasMol as part of his PhD dissertation at Oxford, and made the source code freely available on the web. This program allowed raster display of molecules on UNIX or PCs. The RasMol... 

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

Fig. 4.9. (a) The PDB structure of bacteriorhodopsin (PDB code 1C3W) with retinal, (b) The smallest RMSD configuration that was obtained by the REM simulation. (al), (a2) and (bl), (b2) are the same structures viewed from different angles (from top and from side), respectively. Dark-color atoms in the center in (a) represent the retinal (a) was drawn by eliminating the loop regions and lipids from the PDB file. The RMSD of the structure in (b) from the native structure of (a) is 4.42 A with respect to all Co. atoms. The figures were created with RasMol [163]... 

Fig. 7.1 A general overview of the 3D fold of the extracellular region for one of the subunits in the human DPP-IV homodimer. The P-propeller domain is shown myellow whereas the o/(3-hydrolase domain is shown in green. The location of the active site is indicated by the red residues from the catalytic triad (Ser630, Asp708 and His740) and the fluoroolefin inhibitor (m cyan). This figure has been built with the PDB structure with 3C45 code [92] and with the molecular visualization software RasMol [208]...

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