Gramicidin Channel in Lipid Bilayer: Difference between revisions

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<ul>
<ul>
<li>Show <scene name='38/388981/Protein_only/4' oldname='User:Eric_Martz/Sandbox_10/Gramicidin/2'>only the backbone</scene> of the gramicidin protein chains. The chains are covalently linked with dioxane in this experiment ({{Template:ColorKey_Element_C}}, {{Template:ColorKey_Element_O}}),
<li>Show <scene name='38/388981/Protein_only/4' oldname='User:Eric_Martz/Sandbox_10/Gramicidin/2'>only the backbone</scene> of the gramicidin protein chains. The chains are covalently linked with dioxolane in this experiment ({{Template:ColorKey_Element_C}}, {{Template:ColorKey_Element_O}})
 
</li>
</li>
<li><scene name='38/388981/Gramicidin_redo/3' oldname='User:Eric_Martz/Sandbox_10/Gramicidin_with_bilayer/3'>Show a slice of the lipid bilayer.</scene> (Most hydrogen atoms are omitted.)
<li><scene name='38/388981/Gramicidin_redo/3' oldname='User:Eric_Martz/Sandbox_10/Gramicidin_with_bilayer/3'>Show a slice of the lipid bilayer.</scene>  
<br>{{Template:ColorKey_Element_C}}, {{Template:ColorKey_Element_H}}, {{Template:ColorKey_Element_O}}, {{Template:ColorKey_Element_N}}, {{Template:ColorKey_Element_P}}.
{{Template:ColorKey_Element_C}}, {{Template:ColorKey_Element_H}}, {{Template:ColorKey_Element_O}}, {{Template:ColorKey_Element_N}}, {{Template:ColorKey_Element_P}}
</li><li>Show <scene name='38/388981/Gramicidin_redo/4' oldname='User:Eric_Martz/Sandbox_10/Hydrated_bilayer_w_gramicidin/1'>water</scene>. Notice how the hydrophobic lipid &quot;tails&quot; exclude water.
<br>(Most hydrogen atoms are omitted.)
</li>
<li>Show <scene name='38/388981/Gramicidin_redo/4' oldname='User:Eric_Martz/Sandbox_10/Hydrated_bilayer_w_gramicidin/1'>water</scene>. Notice how the hydrophobic lipid &quot;tails&quot; exclude water.
</li>
</li>
<li>Water passes  
<li>Water passes  
<scene name='38/388981/Gramicidin_redo/6' oldname='User:Eric_Martz/Sandbox_10/Hydrated_bilayer_w_gramicidin/3'>through the channel</scene>.
<scene name='38/388981/Gramicidin_redo/6' oldname='User:Eric_Martz/Sandbox_10/Hydrated_bilayer_w_gramicidin/3'>through the channel</scene>.
</li><li>
</li>
Show <scene name='38/388981/Gramicidin_redo/7' oldname='User:Eric_Martz/Sandbox_10/Hydrated_bilayer_w_gramicidin/4'>only water</scene>.
<li>Show <scene name='38/388981/Gramicidin_redo/7' oldname='User:Eric_Martz/Sandbox_10/Hydrated_bilayer_w_gramicidin/4'>only water</scene>.
</li><li>
</li>
Show only
<li>Show only
<scene name='38/388981/Two_phospholipids_2_waters/1' oldname='Gramicidin_Channel_in_Lipid_Bilayer/Two_pes_two_waters/1'>2 phospholipids and 2 waters</scene>.
<scene name='38/388981/Two_phospholipids_2_waters/1' oldname='Gramicidin_Channel_in_Lipid_Bilayer/Two_pes_two_waters/1'>2 phospholipids and 2 waters</scene>. {{Template:ColorKey_Element_C}}, {{Template:ColorKey_Element_H}}, {{Template:ColorKey_Element_O}}, {{Template:ColorKey_Element_N}}, {{Template:ColorKey_Element_P}}.
<br>{{Template:ColorKey_Element_C}}, {{Template:ColorKey_Element_H}}, {{Template:ColorKey_Element_O}}, {{Template:ColorKey_Element_N}}, {{Template:ColorKey_Element_P}}.
<br>For an explanation of their structure, see the [http://biomodel.uah.es/en/model2/bilayer detailed tutorial], also  [http://biomodel.uah.es/model2/bicapa/inicio.htm disponible en espa&ntilde;ol].
<br>For an explanation of their structure, see the [http://biomodel.uah.es/en/model2/bilayer detailed tutorial], also  [http://biomodel.uah.es/model2/bicapa_j/inicio.htm disponible en espa&ntilde;ol].
</li>
</li>
</ul>
</ul>

Latest revision as of 21:52, 28 June 2017

Theoretical Model: The structure described on this page was determined theoretically (in 1994[1]), and hence should be interpreted with caution.

Theoretical model of gramicidin in a lipid bilayer (phosphatidyl ethanolamine).

Drag the structure with the mouse to rotate


Two copies of the 15-amino-acid gramicidin peptide are shown here () arranged as they are believed to be when they form a channel through a lipid bilayer membrane[1]. The shape of the protein is shown with tiny dots, inside of which is a ribbon backbone trace connecting the alpha carbon atoms of each amino acid chain.

  • Show of the gramicidin protein chains. The chains are covalently linked with dioxolane in this experiment (C, O)
  • C, H, O, N, P
    (Most hydrogen atoms are omitted.)
  • Show . Notice how the hydrophobic lipid "tails" exclude water.
  • Water passes .
  • Show .
  • Show only . C, H, O, N, P.
    For an explanation of their structure, see the detailed tutorial, also disponible en español.
Remember to use the popup button and then resize the popup window to enlarge the molecular scenes.

See AlsoSee Also

NotesNotes

ReferencesReferences

  1. ↑ 1.0 1.1 1.2 Crouzy S, Woolf TB, Roux B. A molecular dynamics study of gating in dioxolane-linked gramicidin A channels. Biophys J. 1994 Oct;67(4):1370-86. PMID:7529578 doi:http://dx.doi.org/10.1016/S0006-3495(94)80618-6

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

Eric Martz, Angel Herraez, Jaime Prilusky, David Canner
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