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Proton Channels
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See [[:Category:Proton_channel]] for a list of all proton channel structures. | See [[:Category:Proton_channel]] for a list of all proton channel structures. | ||
| - | In January, 2008, crystallographic and NMR structures were published side by side in ''Nature'' for the transmembrane domains of the M2 protein: [[3bkd]] | + | In January, 2008, crystallographic and NMR structures were published side by side in ''Nature'' for the transmembrane domains of the M2 protein: [[3bkd]] to [[2rlf]]. The former appeared to be in an open conformation blocked by amantadine, while the latter appeared to be in a closed conformation stabilized by rimantadine. (Neither drug is shown in the morph at right.) |
| - | <applet load='3bkd2rlf.pdb' size='400' frame='true' align='right' scene='Proton_Channels/Cartoon/2' caption='Linear interpolation morph from | + | <!-- THESE LINKS DO NOT WORK IN THE CAPTION; NEITHER DOES THE FORM [[3bkd]] |
| + | caption='Linear interpolation morph from [http://proteopedia.org/wiki/index.php/3bkd 3bkd] to [http://proteopedia.org/wiki/index.php/2rlf 2rlf model 1] ' /> | ||
| + | --> | ||
| + | <applet load='3bkd2rlf.pdb' size='400' frame='true' align='right' scene='Proton_Channels/Cartoon/2' caption='Linear interpolation morph from 3bkd to model 1 of 2rlf. ' /> | ||
At right is a [[Morphs|linear-interpolation morph]] between 3BKD and 2RLF, showing the proposed opening and closing of this channel. | At right is a [[Morphs|linear-interpolation morph]] between 3BKD and 2RLF, showing the proposed opening and closing of this channel. | ||
| - | In addition to watching the animation as alpha-helical ribbons, it is useful to watch it <scene name='Proton_Channels/Spacefilled/1'>spacefilled</scene>. Be sure to rotate the molecule to watch the animation from different perspectives! | + | In addition to watching the animation as alpha-helical ribbons, it is useful to watch it <scene name='Proton_Channels/Spacefilled/1'>spacefilled</scene>. '''Be sure to rotate the molecule with your mouse to watch the animation from different perspectives!''' |
<scene name='Proton_Channels/Gating/1'>His37 and Trp41</scene> are believed to be crucial for pH-dependent gating. | <scene name='Proton_Channels/Gating/1'>His37 and Trp41</scene> are believed to be crucial for pH-dependent gating. | ||
| - | (The collapse and re-expansion of their sidechains is due to the [[Morphs|linear interpolation method]].) Here are His and Trp <scene name='Proton_Channels/Gating/2'>spacefilled</scene>. | + | (The apparent collapse and re-expansion of their sidechains is an artifact due to the [[Morphs|linear interpolation method of morphing]].) Here are His and Trp <scene name='Proton_Channels/Gating/2'>spacefilled</scene>. |
Revision as of 17:02, 23 March 2008
The M2 protein of influenza A virus is a proton channel. Its function is essential for productive infection by the virus.
See Category:Proton_channel for a list of all proton channel structures.
In January, 2008, crystallographic and NMR structures were published side by side in Nature for the transmembrane domains of the M2 protein: 3bkd to 2rlf. The former appeared to be in an open conformation blocked by amantadine, while the latter appeared to be in a closed conformation stabilized by rimantadine. (Neither drug is shown in the morph at right.)
|
At right is a linear-interpolation morph between 3BKD and 2RLF, showing the proposed opening and closing of this channel.
In addition to watching the animation as alpha-helical ribbons, it is useful to watch it . Be sure to rotate the molecule with your mouse to watch the animation from different perspectives!
are believed to be crucial for pH-dependent gating. (The apparent collapse and re-expansion of their sidechains is an artifact due to the linear interpolation method of morphing.) Here are His and Trp .
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Eric Martz, Eran Hodis, David Canner, Michal Harel, Joel L. Sussman, Alexander Berchansky, Jaime Prilusky
