PyMOL>load ./HR4694F_XRay_em_bcr3_noHs_H.pdb,obj
HEADER    TRANSFERASE                             14-JUL-10   3NY5
TITLE     CRYSTAL STRUCTURE OF THE RBD DOMAIN OF SERINE/THREONINE-PROTEIN KINASE
TITLE    2 B-RAF FROM HOMO SAPIENS. NORTHEAST STRUCTURAL GENOMICS CONSORTIUM
TITLE    3 TARGET HR4694F
COMPND    MOL_ID: 1;
COMPND   2 MOLECULE: SERINE/THREONINE-PROTEIN KINASE B-RAF;
COMPND   3 CHAIN: A, B, C, D;
COMPND   4 FRAGMENT: RBD DOMAIN RESIDUES 153-237;
COMPND   5 SYNONYM: PROTO-ONCOGENE B-RAF, P94, V-RAF MURINE SARCOMA VIRAL
COMPND   6 ONCOGENE HOMOLOG B1;
COMPND   7 EC: 2.7.11.1;
COMPND   8 ENGINEERED: YES
 ObjectMolecule: Read secondary structure assignments.
 ObjectMolecule: Read crystal symmetry information.
 Symmetry: Found 4 symmetry operators.
 CmdLoad: "./HR4694F_XRay_em_bcr3_noHs_H.pdb" loaded as "obj".
PyMOL>hide everything, all
PyMOL>dss
PyMOL>show cartoon, all
PyMOL>set bg_rgb, [1,1,1]
 Setting: bg_rgb set to [ 1.00000, 1.00000, 1.00000 ].
PyMOL>color red, ss h
 Executive: Colored 701 atoms.
PyMOL>color cyan,ss s
 Executive: Colored 925 atoms.
PyMOL>color gray,ss ""+l
 Executive: Colored 3571 atoms.
PyMOL>set cartoon_highlight_color,yellow
 Setting: cartoon_highlight_color set to yellow.
PyMOL>orient
PyMOL>set ray_trace_mode, 3
 Setting: ray_trace_mode set to 3.
PyMOL>set antialias, 2
 Setting: antialias set to 2.
PyMOL>ray 600,600
 Ray: render time: 1.99 sec. = 1811.3 frames/hour (1.99 sec. accum.).
PyMOL>png molecule.png
 ScenePNG: wrote 600x600 pixel image to file "molecule.png".
PyMOL>set stereo,1
 Setting: stereo set to on.
PyMOL>stereo walleye
 Setting: stereo_mode set to 3.
PyMOL>select bb,n. c+ca+n
 Selector: selection "bb" defined with 969 atoms.
PyMOL>hide everything,all
PyMOL>show lines,bb
PyMOL>color blue,bb
 Executive: Colored 969 atoms.
PyMOL>set line_width,2
 Setting: line_width set to 2.00000.
PyMOL>set bg_rgb, [1,1,1]
 Setting: bg_rgb set to [ 1.00000, 1.00000, 1.00000 ].
PyMOL>zoom complete=1
PyMOL>set ray_trace_mode, 0
 Setting: ray_trace_mode set to 0.
PyMOL>ray 1200,600
 Ray: render time: 0.98 sec. = 3661.7 frames/hour (2.97 sec. accum.).
PyMOL>png stereo.png
 ScenePNG: wrote 1200x600 pixel image to file "stereo.png".
PyMOL>quit