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1s48

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(New page: 200px<br /><applet load="1s48" size="450" color="white" frame="true" align="right" spinBox="true" caption="1s48, resolution 3.00&Aring;" /> '''Crystal structure of...)
Current revision (08:28, 1 May 2024) (edit) (undo)
 
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[[Image:1s48.gif|left|200px]]<br /><applet load="1s48" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1s48, resolution 3.00&Aring;" />
 
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'''Crystal structure of RNA-dependent RNA polymerase construct 1 (residues 71-679) from BVDV'''<br />
 
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==Overview==
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==Crystal structure of RNA-dependent RNA polymerase construct 1 (residues 71-679) from BVDV==
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The bovine viral diarrhea virus (BVDV) RNA-dependent RNA polymerase can, initiate RNA replication by a de novo mechanism without a primer. The, structure of BVDV polymerase, determined to 2.9-A resolution, contains a, unique N-terminal domain, in addition to the fingers, palm, and thumb, domains common to other polymerases. The structure of BVDV polymerase, complexed with GTP, which is required for de novo (primer-independent), initiation, shows that GTP binds adjacent to the initiation NTP, suggesting that the GTP mimics a vestigial RNA product. Comparison of five, monomers in two different crystal forms showed conformational changes in, the fingertip region and in the thumb domain that may help to translocate, the RNA template and product strands during elongation. The putative, binding sites of previously reported BVDV inhibitors are also discussed.
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<StructureSection load='1s48' size='340' side='right'caption='[[1s48]], [[Resolution|resolution]] 3.00&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1s48]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bovine_viral_diarrhea_virus_1 Bovine viral diarrhea virus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S48 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1S48 FirstGlance]. <br>
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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]] 3&#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=MSE:SELENOMETHIONINE'>MSE</scene></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=1s48 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s48 OCA], [https://pdbe.org/1s48 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1s48 RCSB], [https://www.ebi.ac.uk/pdbsum/1s48 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1s48 ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/POLG_BVDVN POLG_BVDVN] Initial binding to target cell probably involves interaction of E(rns) with glycosaminoglycans. E1 and/or E2 are responsible of cell attachment with CD46 and subsequent fusion after internalization of the virion by endocytosis (Probable).<ref>PMID:14963137</ref> <ref>PMID:16051874</ref> P7 forms a leader sequence to properly orient NS2 in the membrane (By similarity).<ref>PMID:14963137</ref> <ref>PMID:16051874</ref> Uncleaved NS2-3 is required for production of infectious virus.<ref>PMID:14963137</ref> <ref>PMID:16051874</ref> NS2 protease seems to play a vital role in viral RNA replication control and in the pathogenicity of the virus.<ref>PMID:14963137</ref> <ref>PMID:16051874</ref> NS3 displays three enzymatic activities: serine protease, NTPase and RNA helicase.<ref>PMID:14963137</ref> <ref>PMID:16051874</ref> NS4A is a cofactor for the NS3 protease activity (By similarity).<ref>PMID:14963137</ref> <ref>PMID:16051874</ref> RNA-directed RNA polymerase NS5 replicates the viral (+) and (-) genome.<ref>PMID:14963137</ref> <ref>PMID:16051874</ref>
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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/s4/1s48_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=1s48 ConSurf].
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<div style="clear:both"></div>
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==About this Structure==
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==See Also==
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1S48 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Bovine_viral_diarrhea_virus_1 Bovine viral diarrhea virus 1]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1S48 OCA].
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*[[RNA polymerase 3D structures|RNA polymerase 3D structures]]
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== References ==
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==Reference==
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<references/>
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The structure of the RNA-dependent RNA polymerase from bovine viral diarrhea virus establishes the role of GTP in de novo initiation., Choi KH, Groarke JM, Young DC, Kuhn RJ, Smith JL, Pevear DC, Rossmann MG, Proc Natl Acad Sci U S A. 2004 Mar 30;101(13):4425-30. Epub 2004 Mar 19. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15070734 15070734]
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__TOC__
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</StructureSection>
[[Category: Bovine viral diarrhea virus 1]]
[[Category: Bovine viral diarrhea virus 1]]
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[[Category: Single protein]]
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[[Category: Large Structures]]
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[[Category: Choi, K.H.]]
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[[Category: Choi KH]]
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[[Category: Groarke, J.M.]]
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[[Category: Groarke JM]]
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[[Category: Kuhn, R.J.]]
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[[Category: Kuhn RJ]]
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[[Category: Pevear, D.C.]]
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[[Category: Pevear DC]]
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[[Category: Rossmann, M.G.]]
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[[Category: Rossmann MG]]
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[[Category: Smith, J.L.]]
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[[Category: Smith JL]]
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[[Category: Young, D.C.]]
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[[Category: Young DC]]
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[[Category: bovine viral diarrhea virus]]
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[[Category: bvdv]]
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[[Category: de novo initiation]]
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[[Category: polymerase]]
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[[Category: primer independent initiation]]
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[[Category: rna virus]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 02:05:14 2007''
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Current revision

Crystal structure of RNA-dependent RNA polymerase construct 1 (residues 71-679) from BVDV

PDB ID 1s48

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