3koa

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{{Seed}}
 
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[[Image:3koa.jpg|left|200px]]
 
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==M296I mutant of foot-and-mouth disease virus RNA-polymerase in complex with a template- primer RNA and GTP==
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The line below this paragraph, containing "STRUCTURE_3koa", creates the "Structure Box" on the page.
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<StructureSection load='3koa' size='340' side='right'caption='[[3koa]], [[Resolution|resolution]] 2.40&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'>[[3koa]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Foot_and_mouth_disease_virus_C Foot and mouth disease virus C]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KOA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3KOA 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]] 2.4&#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=DPO:DIPHOSPHATE'>DPO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
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{{STRUCTURE_3koa| PDB=3koa | 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=3koa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3koa OCA], [https://pdbe.org/3koa PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3koa RCSB], [https://www.ebi.ac.uk/pdbsum/3koa PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3koa ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/Q9QCE3_9PICO Q9QCE3_9PICO]
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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/ko/3koa_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=3koa 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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Passage of poliovirus (PV) or foot-and-mouth disease virus (FMDV) in the presence of ribavirin selected for viruses with decreased sensitivity to R, which included different mutations in their polymerase (3D): G64S located in the finger subdomain in the case of PV and M296I located within loop beta9-alpha11 at the active site in the case of FMDV. To investigate why disparate substitutions were selected in two closely related 3Ds, we constructed FMDVs with a 3D that included either G62S (the equivalent replacement in FMDV of PV G64S), M296I, or both substitutions. G62S, but not M296I, inflicts upon FMDV a strong selective disadvantage which is partially compensated for by the substitution M296I. The corresponding mutant polymerases, 3D(G62S), 3D(M296I), and 3D(G62S-M296I), were analyzed functionally and structurally. G62S in 3D impairs RNA-binding, polymerization, and R monophosphate incorporation activities. The X-ray structures of the 3D(G62S)-RNA, 3D(M296I)-RNA, and 3D(G62S-M296I)-RNA complexes show that although the two positions are separated by 13.1 A, the loops where the replacements reside are tightly connected through an extensive network of interactions that reach the polymerase active site. In particular, G62S seems to restrict the flexibility of loop beta9-alpha11 and, as a consequence, the flexibility of the active site and its ability to bind the RNA template. Thus, a localized change in the finger subdomain of 3D may affect the catalytic domain. The results provide a structural interpretation of why different amino acid substitutions were selected to confer R resistance in closely related viruses and reveal a complex network of intra-3D interactions that can affect the recognition of both the RNA template and incoming nucleotide.
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===M296I mutant of foot-and-mouth disease virus RNA-polymerase in complex with a template- primer RNA and GTP===
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Structure of foot-and-mouth disease virus mutant polymerases with reduced sensitivity to ribavirin.,Ferrer-Orta C, Sierra M, Agudo R, de la Higuera I, Arias A, Perez-Luque R, Escarmis C, Domingo E, Verdaguer N J Virol. 2010 Jun;84(12):6188-99. Epub 2010 Apr 14. PMID:20392853<ref>PMID:20392853</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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<div class="pdbe-citations 3koa" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_20392853}}, adds the Publication Abstract to the page
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*[[RNA polymerase 3D structures|RNA polymerase 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 20392853 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_20392853}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Foot and mouth disease virus C]]
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3KOA is a 3 chains structure with sequences from [http://en.wikipedia.org/wiki/Foot-and-mouth_disease_virus_-_type_c Foot-and-mouth disease virus - type c]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KOA OCA].
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[[Category: Large Structures]]
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[[Category: Ferrer-Orta C]]
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==Reference==
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[[Category: Perez-Luque R]]
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<ref group="xtra">PMID:20392853</ref><references group="xtra"/>
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[[Category: Verdaguer N]]
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[[Category: Foot-and-mouth disease virus - type c]]
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[[Category: RNA-directed RNA polymerase]]
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[[Category: Ferrer-Orta, C.]]
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[[Category: Perez-Luque, R.]]
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[[Category: Verdaguer, N.]]
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[[Category: 3d polymerase]]
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[[Category: Foot-and-mouth disease virus]]
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[[Category: Ribavirin]]
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[[Category: Rna dependent rna polymerase]]
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[[Category: Transferase-rna complex]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 7 08:40:35 2010''
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Current revision

M296I mutant of foot-and-mouth disease virus RNA-polymerase in complex with a template- primer RNA and GTP

PDB ID 3koa

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