3eeu

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[[Image:3eeu.png|left|200px]]
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==Structure of the RNA pyrophosphohydrolase BdRppH in complex with Holmium==
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<StructureSection load='3eeu' size='340' side='right' caption='[[3eeu]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[3eeu]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bdellovibrio_bacteriovorus Bdellovibrio bacteriovorus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EEU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EEU FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=HO:HOLMIUM+ATOM'>HO</scene></td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3ees|3ees]]</td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">mutT, Bd0714 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=959 Bdellovibrio bacteriovorus])</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3eeu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eeu OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3eeu RCSB], [http://www.ebi.ac.uk/pdbsum/3eeu PDBsum]</span></td></tr>
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</table>
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ee/3eeu_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Until recently, the mechanism of mRNA decay in bacteria was thought to be different from that of eukaryotes. This paradigm changed with the discovery that RppH (ORF176/NudH/YgdP), an Escherichia coli enzyme that belongs to the Nudix superfamily, is an RNA pyrophosphohydrolase that initiates mRNA decay by cleaving pyrophosphate from the 5'-triphosphate. Here we report the 1.9 Angstroms resolution structure of the Nudix hydrolase BdRppH from Bdellovibrio bacteriovorus, a bacterium that feeds on other Gram-negative bacteria. Based on the structure of the enzyme alone and in complex with GTP-Mg2+, we propose a mode of RNA binding similar to that of the nuclear decapping enzyme from Xenopus laevis, X29. In additional experiments, we show that BdRppH can indeed function in vitro and in vivo as an RNA pyrophosphohydrolase. These findings set the basis for the identification of possible decapping enzymes in other bacteria.
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{{STRUCTURE_3eeu| PDB=3eeu | SCENE= }}
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Structure and biological function of the RNA pyrophosphohydrolase BdRppH from Bdellovibrio bacteriovorus.,Messing SA, Gabelli SB, Liu Q, Celesnik H, Belasco JG, Pineiro SA, Amzel LM Structure. 2009 Mar 11;17(3):472-81. PMID:19278661<ref>PMID:19278661</ref>
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===Structure of the RNA pyrophosphohydrolase BdRppH in complex with Holmium===
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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{{ABSTRACT_PUBMED_19278661}}
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== References ==
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<references/>
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==About this Structure==
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__TOC__
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[[3eeu]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bdellovibrio_bacteriovorus Bdellovibrio bacteriovorus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EEU OCA].
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</StructureSection>
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==Reference==
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<ref group="xtra">PMID:019278661</ref><references group="xtra"/>
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[[Category: Bdellovibrio bacteriovorus]]
[[Category: Bdellovibrio bacteriovorus]]
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[[Category: Amzel, L M.]]
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[[Category: Amzel, L M]]
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[[Category: Gabelli, S B.]]
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[[Category: Gabelli, S B]]
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[[Category: Messing, S A.]]
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[[Category: Messing, S A]]
[[Category: Hydrolase]]
[[Category: Hydrolase]]
[[Category: Nudix]]
[[Category: Nudix]]
[[Category: Rna pyrophosphohydrolase]]
[[Category: Rna pyrophosphohydrolase]]

Revision as of 13:37, 19 November 2014

Structure of the RNA pyrophosphohydrolase BdRppH in complex with Holmium

3eeu, resolution 2.00Å

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