User:Wayne Decatur/Sandbox Thermus 70S With Paromomycin

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<ref group="xtra">PMID:15491801</ref>
<ref group="xtra">PMID:15491801</ref>
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*[http://www.youtube.com/watch?v=E6wXlpkQVww Lecture by Venki Ramakrishnan in 2004 entitled The Ribosome: The Cell's Protein-Synthesizing Machine and How Antibiotics Disrupt It] - posted on Brookhaven National Laboratory's Channel
*[http://www.drugbank.ca/drugs/DB01421 Paramomycin at the DrugBank database]
*[http://www.drugbank.ca/drugs/DB01421 Paramomycin at the DrugBank database]
*[http://en.wikipedia.org/wiki/Paromomycin_sulfate Paromomycin sulfate at Wikipedia]
*[http://en.wikipedia.org/wiki/Paromomycin_sulfate Paromomycin sulfate at Wikipedia]

Revision as of 18:45, 2 February 2010

Ribosome interactions with Paromomycin


Contents

Mechanism of action

Drag the structure with the mouse to rotate
 
Drag the structure with the mouse to rotate
REPLACE WITH PAROMOMYCN BOUND TO SMALL SUBUNIT
Paromomycin bound to the ribosome (2j01 and 2j00), resolution 2.8Å ().
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NEED TO DO STILL: SSU alone with PAR


Ramakrishnan one with Par

 
Drag the structure with the mouse to rotate
Paromomycin bound to the ribosome (2j01 and 2j00), resolution 2.8Å ().

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The 70S is so large that the small paromomycin molecule is not readily obvious, and so .

Returning to now aware of the locale where paromomycinin is bound, it is clear that in the Thermus 70S paromomycin is observed binding to the penultimate helix of the small subunit (helix 44) at the decoding center where the anticodon stem-loop of the A-site tRNA contacts the mRNA (shown as yellow).

NEED TO DO STILL: Add the e. coli 70S that has two molecules bound

About these Structure

2j00 is a 25 chains structure of sequences from Escherichia coli and Thermus thermophilus. Full crystallographic information is available from OCA.

2j01 is a 31 chains structure of sequences from Thermus thermophilus. Full crystallographic information is available from OCA. Versions of 2j00 and 2j01 optimized for use online as described here are used on this page. You may wish to examine the ADD LINK basics of the subunit.

Reference for the Structures

  • Selmer M, Dunham CM, Murphy FV 4th, Weixlbaumer A, Petry S, Kelley AC, Weir JR, Ramakrishnan V. Structure of the 70S ribosome complexed with mRNA and tRNA. Science. 2006 Sep 29;313(5795):1935-42. Epub 2006 Sep 7. PMID:16959973

Related Structures


[1]

References

  1. ↑ Ogle JM, Carter AP, Ramakrishnan V. Insights into the decoding mechanism from recent ribosome structures. Trends Biochem Sci. 2003 May;28(5):259-66. PMID:12765838

Additional Literature and Resources

  • Auerbach T, Bashan A, Yonath A. Ribosomal antibiotics: structural basis for resistance, synergism and selectivity. Trends Biotechnol. 2004 Nov;22(11):570-6. PMID:15491801 doi:10.1016/j.tibtech.2004.09.006

Proteopedia Page Contributors and Editors (what is this?)

Wayne Decatur

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