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[[Image:2pwt.gif|left|200px]]
[[Image:2pwt.gif|left|200px]]


{{Structure
<!--
|PDB= 2pwt |SIZE=350|CAPTION= <scene name='initialview01'>2pwt</scene>, resolution 1.800&Aring;
The line below this paragraph, containing "STRUCTURE_2pwt", creates the "Structure Box" on the page.
|SITE=
You may change the PDB parameter (which sets the PDB file loaded into the applet)
|LIGAND= <scene name='pdbligand=A:ADENOSINE-5&#39;-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=C:CYTIDINE-5&#39;-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=G:GUANOSINE-5&#39;-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=LHA:DOUBLY+FUNCTIONALIZED+PAROMOMYCIN+PM-II-162'>LHA</scene>, <scene name='pdbligand=U:URIDINE-5&#39;-MONOPHOSPHATE'>U</scene>
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|ACTIVITY=  
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|GENE=  
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|DOMAIN=
{{STRUCTURE_2pwt| PDB=2pwt  | SCENE= }}  
|RELATEDENTRY=
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2pwt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pwt OCA], [http://www.ebi.ac.uk/pdbsum/2pwt PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2pwt RCSB]</span>
}}


'''Crystal structure of the bacterial ribosomal decoding site complexed with aminoglycoside containing the L-HABA group'''
'''Crystal structure of the bacterial ribosomal decoding site complexed with aminoglycoside containing the L-HABA group'''
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==About this Structure==
==About this Structure==
2PWT 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=2PWT OCA].  
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PWT OCA].  


==Reference==
==Reference==
Crystal Structure of the Bacterial Ribosomal Decoding Site Complexed with a Synthetic Doubly Functionalized Paromomycin Derivative: a New Specific Binding Mode to an A-Minor Motif Enhances in vitro Antibacterial Activity., Kondo J, Pachamuthu K, Francois B, Szychowski J, Hanessian S, Westhof E, ChemMedChem. 2007 Nov 12;2(11):1631-1638. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17722211 17722211]
Crystal Structure of the Bacterial Ribosomal Decoding Site Complexed with a Synthetic Doubly Functionalized Paromomycin Derivative: a New Specific Binding Mode to an A-Minor Motif Enhances in vitro Antibacterial Activity., Kondo J, Pachamuthu K, Francois B, Szychowski J, Hanessian S, Westhof E, ChemMedChem. 2007 Nov 12;2(11):1631-1638. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17722211 17722211]
[[Category: Protein complex]]
[[Category: Francois, B.]]
[[Category: Francois, B.]]
[[Category: Hanessian, S.]]
[[Category: Hanessian, S.]]
Line 30: Line 26:
[[Category: Szychowski, J.]]
[[Category: Szychowski, J.]]
[[Category: Westhof, E.]]
[[Category: Westhof, E.]]
[[Category: aminoglycoside]]
[[Category: Aminoglycoside]]
[[Category: haba group]]
[[Category: Haba group]]
[[Category: ribosomal decoding site]]
[[Category: Ribosomal decoding site]]
[[Category: rna]]
[[Category: Rna]]
[[Category: x-ray analysis]]
[[Category: X-ray analysis]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 13:55:37 2008''
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 04:41:48 2008''

Revision as of 10:55, 4 May 2008

File:2pwt.gif

Template:STRUCTURE 2pwt

Crystal structure of the bacterial ribosomal decoding site complexed with aminoglycoside containing the L-HABA group


Overview

The crystal structure of the complex between oligonucleotide containing the bacterial ribosomal decoding site (A site) and the synthetic paromomycin analogue 1, which contains the gamma-amino-alpha-hydroxybutyryl (L-haba) group at position N1 of ring II (2-DOS ring), and an ether chain with an O-phenethylaminoethyl group at position C2 of ring III, is reported. Interestingly, next to the paromomycin analogue 1 specifically bound to the A site, a second molecule of 1 with a different conformation is observed at the crystal packing interface which mimics the A-minor interaction between two bulged-out adenines from the A site and the codon-anticodon stem of the mRNA-tRNA complex. Improved antibacterial activity supports the conclusion that analogue 1 might affect protein synthesis on the ribosome in two different ways: 1) specific binding to the A site forces maintenance of the "on" state with two bulged out adenines, and 2) a new binding mode of 1 to an A-minor motif which stabilizes complex formation between the ribosome and the mRNA-tRNA complex regardless of whether the codon-anticodon stem is of the cognate or near-cognate type.

About this Structure

Full crystallographic information is available from OCA.

Reference

Crystal Structure of the Bacterial Ribosomal Decoding Site Complexed with a Synthetic Doubly Functionalized Paromomycin Derivative: a New Specific Binding Mode to an A-Minor Motif Enhances in vitro Antibacterial Activity., Kondo J, Pachamuthu K, Francois B, Szychowski J, Hanessian S, Westhof E, ChemMedChem. 2007 Nov 12;2(11):1631-1638. PMID:17722211 Page seeded by OCA on Sun May 4 13:55:37 2008

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