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2gj8

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{{Seed}}
 
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[[Image:2gj8.png|left|200px]]
 
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==Structure of the MnmE G-domain in complex with GDP*AlF4-, Mg2+ and K+==
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The line below this paragraph, containing "STRUCTURE_2gj8", creates the "Structure Box" on the page.
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<StructureSection load='2gj8' size='340' side='right'caption='[[2gj8]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[2gj8]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Ecobd Ecobd]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GJ8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2GJ8 FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ALF:TETRAFLUOROALUMINATE+ION'>ALF</scene>, <scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SE:SELENIUM+ATOM'>SE</scene></td></tr>
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<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
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{{STRUCTURE_2gj8| PDB=2gj8 | SCENE= }}
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1xzp|1xzp]], [[1xzq|1xzq]], [[1rfl|1rfl]], [[2gj9|2gj9]], [[2gja|2gja]]</div></td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">trmE, mnmE, thdF ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=469008 ECOBD])</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2gj8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gj8 OCA], [https://pdbe.org/2gj8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2gj8 RCSB], [https://www.ebi.ac.uk/pdbsum/2gj8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2gj8 ProSAT]</span></td></tr>
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</table>
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== Function ==
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[[https://www.uniprot.org/uniprot/MNME_ECOLI MNME_ECOLI]] Exhibits a very high intrinsic GTPase hydrolysis rate. Involved in the addition of a carboxymethylaminomethyl (cmnm) group at the wobble position (U34) of certain tRNAs, forming tRNA-cmnm(5)s(2)U34.
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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/gj/2gj8_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/main_output.php?pdb_ID=2gj8 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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MnmE, a Guanine nucleotide-binding protein conserved between bacteria and man, is involved in the modification of tRNAs. Here we provide biochemical and X-ray structural evidence for a new GTP-hydrolysis mechanism, where the G-domains of MnmE dimerise in a potassium-dependent manner and induce GTP hydrolysis. The structure in the presence of GDP-AlFx and potassium shows how juxtaposition of the subunits induces a conformational change around the nucleotide which reorients the catalytic machinery. A critical glutamate is positioned such as to stabilise or activate the attacking water. Potassium provides a positive charge into the catalytic site in a position analogous to the arginine finger in the Ras-RasGAP system. Mutational studies show that potassium-dependent dimerisation and GTP hydrolysis can be uncoupled and that interaction between the G-domains is a prerequisite for subsequent phosphoryl transfer. We propose a model for the juxtaposition of G-domains in the full-length protein and how it induces conformational changes in the putative tRNA-modification centre.
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===Structure of the MnmE G-domain in complex with GDP*AlF4-, Mg2+ and K+===
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Dimerisation-dependent GTPase reaction of MnmE: how potassium acts as GTPase-activating element.,Scrima A, Wittinghofer A EMBO J. 2006 Jun 21;25(12):2940-51. Epub 2006 Jun 8. PMID:16763562<ref>PMID:16763562</ref>
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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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The line below this paragraph, {{ABSTRACT_PUBMED_16763562}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 2gj8" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 16763562 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_16763562}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Ecobd]]
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2GJ8 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GJ8 OCA].
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[[Category: Large Structures]]
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[[Category: Scrima, A]]
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==Reference==
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[[Category: Wittinghofer, A]]
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Dimerisation-dependent GTPase reaction of MnmE: how potassium acts as GTPase-activating element., Scrima A, Wittinghofer A, EMBO J. 2006 Jun 21;25(12):2940-51. Epub 2006 Jun 8. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16763562 16763562]
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[[Category: Escherichia coli]]
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[[Category: Single protein]]
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[[Category: Scrima, A.]]
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[[Category: Wittinghofer, A.]]
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[[Category: Alpha-beta-sandwich]]
[[Category: Alpha-beta-sandwich]]
[[Category: G-domain dimer]]
[[Category: G-domain dimer]]
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[[Category: Hydrolase]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Jul 27 13:22:44 2008''
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Current revision

Structure of the MnmE G-domain in complex with GDP*AlF4-, Mg2+ and K+

PDB ID 2gj8

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