2f4t: Difference between revisions

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Revision as of 17:48, 20 March 2008

File:2f4t.gif

, resolution 3.000Å

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Asite RNA + designer antibiotic

OverviewOverview

The X-ray crystal structures for the complexes of three designer antibiotics, compounds 1, 2, and 3, bound to two models for the ribosomal aminoacyl-tRNA site (A site) at 2.5-3.0 Angstroms resolution and that of neamine at 2.8 Angstroms resolution are described. Furthermore, the complex of antibiotic 1 bound to the A site in the entire 30S ribosomal subunit of Thermus thermophilus is reported at 3.8 Angstroms resolution. Molecular dynamics simulations revealed that the designer compounds provide additional stability to bases A1492 and A1493 in their extrahelical forms. Snapshots from the simulations were used for free energy calculations, which revealed that van der Waals and hydrophobic effects were the driving forces behind the binding of designer antibiotic 3 when compared to the parental neamine.

About this StructureAbout this Structure

2F4T is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.

ReferenceReference

Interactions of designer antibiotics and the bacterial ribosomal aminoacyl-tRNA site., Murray JB, Meroueh SO, Russell RJ, Lentzen G, Haddad J, Mobashery S, Chem Biol. 2006 Feb;13(2):129-38. PMID:16492561

Page seeded by OCA on Thu Mar 20 16:48:03 2008

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

OCA

@@ Line 1: / Line 1: @@
-[[Image:2f4t.gif|left|200px]]<br /><applet load="2f4t" size="350" color="white" frame="true" align="right" spinBox="true"
+[[Image:2f4t.gif|left|200px]]
-caption="2f4t, resolution 3.000&Aring;" />
-'''Asite RNA + designer antibiotic'''<br />
+ {{Structure
+|PDB= 2f4t |SIZE=350|CAPTION= <scene name='initialview01'>2f4t</scene>, resolution 3.000&Aring;
+|SITE=
+|LIGAND= <scene name='pdbligand=AB9:(2R)-4-AMINO-N-{(1R,2S,3R,4R,5S)-5-AMINO-2-{2-[(2-AMINOETHYL)AMINO]ETHOXY}-4-[(2,6-DIAMINO-2,6-DIDEOXY-ALPHA-D-GLUCOPYRANOSYL)OXY]-3-HYDROXYCYCLOHEXYL}-2-HYDROXYBUTANAMIDE'>AB9</scene>
+|ACTIVITY=
+|GENE=
+}}
+'''Asite RNA + designer antibiotic'''
 ==Overview==
@@ Line 7: / Line 16: @@
 ==About this Structure==
-F4T is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=AB9:'>AB9</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2F4T OCA].
+F4T is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2F4T OCA].
 ==Reference==
-Interactions of designer antibiotics and the bacterial ribosomal aminoacyl-tRNA site., Murray JB, Meroueh SO, Russell RJ, Lentzen G, Haddad J, Mobashery S, Chem Biol. 2006 Feb;13(2):129-38. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16492561 16492561]
+Interactions of designer antibiotics and the bacterial ribosomal aminoacyl-tRNA site., Murray JB, Meroueh SO, Russell RJ, Lentzen G, Haddad J, Mobashery S, Chem Biol. 2006 Feb;13(2):129-38. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16492561 16492561]
 [[Category: Protein complex]]
 [[Category: Haddad, J.]]
@@ Line 22: / Line 31: @@
 [[Category: designer antibiotic]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 17:17:40 2008''
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 16:48:03 2008''