Morphs: Difference between revisions
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==Why Morph?== | ==Why Morph?== | ||
<table align='right' border='0' width='285' cellpadding='10' bgcolor='#d0d0d0' hspace='8'><tr><td rowspan='2'> </td><td bgcolor='#e8e8e8'> | <table align='right' border='0' width='285' cellpadding='10' bgcolor='#d0d0d0' hspace='8'><tr><td rowspan='2'> </td><td bgcolor='#e8e8e8'> | ||
[[Image:Mage_hb.gif]]</td></tr><tr><td bgcolor='#e8e8e8'>Toggling between the carbonmonoxy and deoxy conformations of heme in hemoglobin. (This is NOT a morph.) Convergent stereo snapshots from a Kinemage. (Stops after 25 cycles; | [[Image:Mage_hb.gif]]</td></tr><tr><td bgcolor='#e8e8e8'>Toggling between the carbonmonoxy and deoxy conformations of heme in hemoglobin. (This is NOT a morph.) Convergent stereo snapshots from a Kinemage. (Stops after 25 cycles; Shift-Reload this page to restart the toggling.)</td></tr></table> | ||
The purpose of molecular morphing is to smooth the visual transition between two molecular conformations, making it easier to see and understand the structural differences between them. | The purpose of molecular morphing is to smooth the visual transition between two molecular conformations, making it easier to see and understand the structural differences between them. | ||
In contrast, predicting the actual trajectory through which a conformational change occurs is rarely, if ever, the goal of a morph. | In contrast, predicting the actual trajectory through which a conformational change occurs is rarely, if ever, the goal of a morph. | ||
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===True Movies=== | ===True Movies=== | ||
<table align='right' border='0' width='184' cellpadding='10' bgcolor='#d0d0d0' hspace='8'><tr><td rowspan='2'> </td><td bgcolor='#e8e8e8'> | <table align='right' border='0' width='184' cellpadding='10' bgcolor='#d0d0d0' hspace='8'><tr><td rowspan='2'> </td><td bgcolor='#e8e8e8'> | ||
[[Image:Lacrep_anim_small.gif]]</td></tr><tr><td bgcolor='#e8e8e8'>True movie of the morph shown in Jmol elsewhere near the top of this page. (Stops after 100 cycles; | [[Image:Lacrep_anim_small.gif]]</td></tr><tr><td bgcolor='#e8e8e8'>True movie of the morph shown in Jmol elsewhere near the top of this page. (Stops after 100 cycles; Shift-Reload this page to restart this movie.)</td></tr></table> | ||
A true movie is a series of static snaphots displayed sequentially in rapid succession. An example of a true movie of a morph is shown at right. Note that you '''cannot rotate the molecule with the mouse''', so you can view the morph from only the single perspective chosen by the author of the movie. Also, a separate movie must be provided for each change in rendering or coloring, while the rendering and coloring in Jmol can be easily be changed with script commands while displaying the same morph PDB file. | A true movie is a series of static snaphots displayed sequentially in rapid succession. An example of a true movie of a morph is shown at right. Note that you '''cannot rotate the molecule with the mouse''', so you can view the morph from only the single perspective chosen by the author of the movie. Also, a separate movie must be provided for each change in rendering or coloring, while the rendering and coloring in Jmol can be easily be changed with script commands while displaying the same morph PDB file. | ||
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====Yale Morph Server==== | ====Yale Morph Server==== | ||
<!--''SADLY, AS OF 2020, THE YALE MORPH SERVER AND GALLERY OF MOLECULAR MOVEMENTS HAS BEEN OFFLINE FOR A NUMBER OF YEARS.''--> | <!--''SADLY, AS OF 2020, THE YALE MORPH SERVER AND GALLERY OF MOLECULAR MOVEMENTS HAS BEEN OFFLINE FOR A NUMBER OF YEARS.''--> | ||
''NOT WORKING AGAIN in January 2023.'' | ''NOT WORKING AGAIN in January 2023. STILL NOT WORKING November 2024.'' | ||
''WORKING AGAIN in February, 2021. Their animation player doesn't work because it still requires Java, but you can download the morph PDB file and animate it in Proteopedia or Jmol. See [[#Animating Morph PDB Files|instructions below]].'' | ''WORKING AGAIN in February, 2021. Their animation player doesn't work because it still requires Java, but you can download the morph PDB file and animate it in Proteopedia or Jmol. See [[#Animating Morph PDB Files|instructions below]].'' | ||