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=<span style="font-family:Myriad-pro;">'''Biomolecular Graphics: In Principle and in Practice'''</span>=

=='''Overview, general notes'''==

=='''Figures'''==
This section illustrates the figure-creation process, from initial conception &rarr; final multi-panel figure ready for publication. Organized as various "case studies" that are representative of the tasks typically faced by structural or computational biologists, this section provides several step-by-step examples. These examples are entirely self-contained, and the materials include everything from ''(i)'' raw, starting data (''e.g.'', PDB files) to ''(ii)'' actual, working PyMOL or Python scripts and ''(iii)'' final output image files.


===<div style="background-color:#efeddf; margin-top:0px;border-bottom: 1px dotted #999999; padding-top:3px;font-weight:normal;">'''Case 1:''' Overall fold / domain level (Fig. 2; &ge; novice/intermediate)</div>===

===<div style="background-color:#eeecde; margin-top:0px;border-bottom: 1px dotted #999999; padding-top:3px;font-weight:normal;">'''Case 2:''' Ligand-binding sites (Fig. 3; &ge; novice/intermediate)</div>===

===<div style="background-color:#eeecde; margin-top:0px;border-bottom: 1px dotted #999999; padding-top:3px;font-weight:normal;">'''Case 3:''' Structure alignment(Fig. 4; &ge; novice/intermediate)</div>===

===<div style="background-color:#eeecde; margin-top:0px;border-bottom: 1px dotted #999999; padding-top:3px;font-weight:normal;">'''Case 4:''' Volumetric data (&ge; intermediate)</div>===

===<div style="background-color:#eeecde; margin-top:0px;border-bottom: 1px dotted #999999; padding-top:3px;font-weight:normal;">'''Case 5:''' Interfaces (Fig. 5; &ge; intermediate)</div>===

===<div style="background-color:#eeecde; margin-top:0px;border-bottom: 1px dotted #999999; padding-top:3px;font-weight:normal;">'''Case 6:''' Higher-order structures (&ge; intermediate/advanced)</div>===

===<div style="background-color:#eeecde; margin-top:0px;border-bottom: 1px dotted #999999; padding-top:3px;font-weight:normal;">'''Case 7:''' Animations (&ge; intermediate/advanced)</div>===
See the [[#Animations |Animations]] section below.

===<div style="background-color:#eeecde; margin-top:0px;border-bottom: 1px dotted #999999; padding-top:3px;font-weight:normal;">'''Case 8:''' Best-fit planes (Fig. 6; &ge; advanced)</div>===


=='''Animations'''==

===A classification scheme===

===M<sub>s</sub>V<sub>s</sub>===
These are just 'ordinary', static figures, as illustrated by the case studied above.

===M<sub>s</sub>V<sub>d</sub>===

===M<sub>d</sub>V<sub>s</sub>===

===M<sub>d</sub>V<sub>d</sub>===

=='''Useful links'''==

===PyMOL-related===
===Python-related===
===General MolVis===