2xbm

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[[Image:2xbm.png|left|200px]]
 
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==Crystal structure of the dengue virus methyltransferase bound to a 5'- capped octameric RNA==
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The line below this paragraph, containing "STRUCTURE_2xbm", creates the "Structure Box" on the page.
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<StructureSection load='2xbm' size='340' side='right'caption='[[2xbm]], [[Resolution|resolution]] 2.90&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'>[[2xbm]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Dengue_virus Dengue virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XBM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XBM FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.9&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=G3A:GUANOSINE-P3-ADENOSINE-5,5-TRIPHOSPHATE'>G3A</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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{{STRUCTURE_2xbm| PDB=2xbm | SCENE= }}
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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=2xbm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xbm OCA], [https://pdbe.org/2xbm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2xbm RCSB], [https://www.ebi.ac.uk/pdbsum/2xbm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2xbm ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/C0LMU5_9FLAV C0LMU5_9FLAV]
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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/xb/2xbm_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=2xbm 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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The N-terminal domain of the flavivirus NS5 protein functions as a methyltransferase (MTase). It sequentially methylates the N7 and 2'-O positions of the viral RNA cap structure (GpppA--&gt;(7me)GpppA--&gt;(7me)GpppA(2'-O-me)). The same NS5 domain could also have a guanylyltransferase activity (GTP+ppA-RNA--&gt;GpppA). The mechanism by which this protein domain catalyzes these three distinct functions is currently unknown. Here we report the crystallographic structure of DENV-3 MTase in complex with a 5'-capped RNA octamer (G(ppp)AGAACCUG) at a resolution of 2.9 A. Two RNA octamers arranged as kissing loops are encircled by four MTase monomers around a 2-fold non-crystallography symmetry axis. Only two of the four monomers make direct contact with the 5' end of RNA. The RNA structure is stabilised by the formation of several intra and intermolecular base stacking and non-canonical base pairs. The structure may represent the product of guanylylation of the viral genome prior to the subsequent methylation events that require repositioning of the RNA substrate to reach to the methyl-donor sites. The crystal structure provides a structural explanation for the observed trans-complementation of MTases with different methylation defects.
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===Crystal structure of the dengue virus methyltransferase bound to a 5'- capped octameric RNA===
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Crystal structure of the dengue virus methyltransferase bound to a 5'-capped octameric RNA.,Yap LJ, Luo D, Chung KY, Lim SP, Bodenreider C, Noble C, Shi PY, Lescar J PLoS One. 2010 Sep 17;5(9). pii: e12836. PMID:20862256<ref>PMID:20862256</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_20862256}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 2xbm" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 20862256 is the PubMed ID number.
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{{ABSTRACT_PUBMED_20862256}}
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==About this Structure==
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[[2xbm]] is a 6 chain structure of [[Nonstructural protein]] with sequence from [http://en.wikipedia.org/wiki/Dengue_virus Dengue virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XBM OCA].
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==See Also==
==See Also==
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*[[Nonstructural protein|Nonstructural protein]]
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*[[Nonstructural protein 3D structures|Nonstructural protein 3D structures]]
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== References ==
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==Reference==
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<references/>
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<ref group="xtra">PMID:020862256</ref><references group="xtra"/>
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__TOC__
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</StructureSection>
[[Category: Dengue virus]]
[[Category: Dengue virus]]
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[[Category: Bodenreider, C.]]
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[[Category: Large Structures]]
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[[Category: Chung, K Y.]]
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[[Category: Bodenreider C]]
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[[Category: Lescar, J.]]
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[[Category: Chung KY]]
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[[Category: Lim, S P.]]
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[[Category: Lescar J]]
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[[Category: Luo, D H.]]
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[[Category: Lim SP]]
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[[Category: Noble, C.]]
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[[Category: Luo DH]]
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[[Category: Shi, P Y.]]
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[[Category: Noble C]]
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[[Category: Yap, L J.]]
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[[Category: Shi PY]]
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[[Category: Flavivirus]]
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[[Category: Yap LJ]]
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[[Category: Rna binding protein]]
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Current revision

Crystal structure of the dengue virus methyltransferase bound to a 5'- capped octameric RNA

PDB ID 2xbm

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Proteopedia Page Contributors and Editors (what is this?)

OCA

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