3ffu

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{{Seed}}
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==Structure of the RNA pyrophosphohydrolase BdRppH in complex with GTP and magnesium==
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[[Image:3ffu.jpg|left|200px]]
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<StructureSection load='3ffu' size='340' side='right' caption='[[3ffu]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[3ffu]] 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=3FFU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3FFU 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=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3eeu|3eeu]], [[3ees|3ees]], [[3ef5|3ef5]]</td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">Bd0714, mutT ([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=3ffu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ffu OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ffu RCSB], [http://www.ebi.ac.uk/pdbsum/3ffu 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/ff/3ffu_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 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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The line below this paragraph, containing "STRUCTURE_3ffu", creates the "Structure Box" on the page.
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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or leave the SCENE parameter empty for the default display.
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-->
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{{STRUCTURE_3ffu| PDB=3ffu | SCENE= }}
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===Structure of the RNA pyrophosphohydrolase BdRppH in complex with GTP and magnesium===
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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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== References ==
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<!--
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<references/>
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The line below this paragraph, {{ABSTRACT_PUBMED_19278661}}, adds the Publication Abstract to the page
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__TOC__
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(as it appears on PubMed at http://www.pubmed.gov), where 19278661 is the PubMed ID number.
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</StructureSection>
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-->
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{{ABSTRACT_PUBMED_19278661}}
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==About this Structure==
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3FFU is a 2 chains structure of sequences 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=3FFU OCA].
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==Reference==
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<ref group="xtra">PMID:19278661</ref><references group="xtra"/>
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[[Category: Bdellovibrio bacteriovorus]]
[[Category: Bdellovibrio bacteriovorus]]
[[Category: Amzel, L M.]]
[[Category: Amzel, L M.]]
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[[Category: Nudix]]
[[Category: Nudix]]
[[Category: Rna pyrophosphohydrolase]]
[[Category: Rna pyrophosphohydrolase]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar 25 12:29:55 2009''
 

Revision as of 05:42, 10 October 2014

Structure of the RNA pyrophosphohydrolase BdRppH in complex with GTP and magnesium

3ffu, resolution 2.80Å

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