User:Wayne Decatur/Sandbox Thermus 70S With Paromomycin

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Ribosome interactions with Paromomycin


Contents

Mechanism of action

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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

 
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Paromomycin bound to the ribosome (2j01 and 2j00), resolution 2.8Å ().

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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] [2] [3] [4] [5] [6] [7] [8] [9]

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
  2. ↑ Ogle JM, Murphy FV, Tarry MJ, Ramakrishnan V. Selection of tRNA by the ribosome requires a transition from an open to a closed form. Cell. 2002 Nov 27;111(5):721-32. PMID:12464183
  3. ↑ Ogle JM, Brodersen DE, Clemons WM Jr, Tarry MJ, Carter AP, Ramakrishnan V. Recognition of cognate transfer RNA by the 30S ribosomal subunit. Science. 2001 May 4;292(5518):897-902. PMID:11340196 doi:10.1126/science.1060612
  4. ↑ Carter AP, Clemons WM, Brodersen DE, Morgan-Warren RJ, Wimberly BT, Ramakrishnan V. Functional insights from the structure of the 30S ribosomal subunit and its interactions with antibiotics. Nature. 2000 Sep 21;407(6802):340-8. PMID:11014183 doi:10.1038/35030019
  5. ↑ Borovinskaya MA, Pai RD, Zhang W, Schuwirth BS, Holton JM, Hirokawa G, Kaji H, Kaji A, Cate JH. Structural basis for aminoglycoside inhibition of bacterial ribosome recycling. Nat Struct Mol Biol. 2007 Aug;14(8):727-32. Epub 2007 Jul 29. PMID:17660832 doi:http://dx.doi.org/10.1038/nsmb1271
  6. ↑ Wirmer J, Westhof E. Molecular contacts between antibiotics and the 30S ribosomal particle. Methods Enzymol. 2006;415:180-202. PMID:17116475 doi:10.1016/S0076-6879(06)15012-0
  7. ↑ Hobbie SN, Pfister P, Bruell C, Sander P, Francois B, Westhof E, Bottger EC. Binding of neomycin-class aminoglycoside antibiotics to mutant ribosomes with alterations in the A site of 16S rRNA. Antimicrob Agents Chemother. 2006 Apr;50(4):1489-96. PMID:16569869 doi:50/4/1489
  8. ↑ Lynch SR, Gonzalez RL, Puglisi JD. Comparison of X-ray crystal structure of the 30S subunit-antibiotic complex with NMR structure of decoding site oligonucleotide-paromomycin complex. Structure. 2003 Jan;11(1):43-53. PMID:12517339
  9. ↑ 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

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

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Wayne Decatur

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