Sandbox Reserved 689

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Line 11: Line 11:
<Structure load='2gif' size='500' frame='true' align='right' caption='Asymmetrical AcrB' scene='Sandbox_Reserved_689/Acrb_asymmetrical_no_ligand/1'/>
<Structure load='2gif' size='500' frame='true' align='right' caption='Asymmetrical AcrB' scene='Sandbox_Reserved_689/Acrb_asymmetrical_no_ligand/1'/>
-
<scene name='Sandbox_Reserved_689/Rifampicin_in_acrb_l_monomer/1'>Rifampicin bound in proximal binding pocket</scene>
+
 
 +
== Structural Elements ==
 +
 
Line 18: Line 20:
Because of the large binding pockets in AcrB, it is able to bind and export a wide variety of antibiotic drugs and other toxins.
Because of the large binding pockets in AcrB, it is able to bind and export a wide variety of antibiotic drugs and other toxins.
-
'''Rifampicin:'''
+
'''Rifampicin''' is a high molecular weight drug (~800 g/mol) that has been crystallized in the proximal binding pocket
 +
 
<scene name='Sandbox_Reserved_689/Rifampicin_in_acrb/1'>Bound; entire AcrB trimer shown</scene>
<scene name='Sandbox_Reserved_689/Rifampicin_in_acrb/1'>Bound; entire AcrB trimer shown</scene>

Revision as of 14:15, 30 April 2013

This Sandbox is Reserved from 30/01/2013, through 30/12/2013 for use in the course "Biochemistry II" taught by Hannah Tims at the Messiah College. This reservation includes Sandbox Reserved 686 through Sandbox Reserved 700.
To get started:
  • Click the edit this page tab at the top. Save the page after each step, then edit it again.
  • Click the 3D button (when editing, above the wikitext box) to insert Jmol.
  • show the Scene authoring tools, create a molecular scene, and save it. Copy the green link into the page.
  • Add a description of your scene. Use the buttons above the wikitext box for bold, italics, links, headlines, etc.

More help: Help:Editing

Contents

The E. coli AcrB Efflux Pump

Structure

The AcrB efflux pump is part of a tripartite system used by E. Coli to remove antibiotic and other toxic molecules from the bacterial cell.

Asymmetrical AcrB

Drag the structure with the mouse to rotate


Structural Elements

Substrates

Because of the large binding pockets in AcrB, it is able to bind and export a wide variety of antibiotic drugs and other toxins.

Rifampicin is a high molecular weight drug (~800 g/mol) that has been crystallized in the proximal binding pocket

, interacting residues (all residues within 4 Angstroms) highlighted and shown in ball-and-stick representation.

interacting residues are shown here (Polar in blue, nonpolar in orange).


Energy Transduction

There are (Asp408, Asp407, Lys940, and Arg 971) whose protonation and deprotonation are suggested to play a large role in the conformational change between the L, T, and O states (Eicher, et al. 2009). PDB: 3D9B

Retrieved from "http://52.214.119.220/wiki/index.php/Sandbox_Reserved_689"
Personal tools