2k47

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{{Seed}}
 
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[[Image:2k47.png|left|200px]]
 
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==Solution structure of the C-terminal N-RNA binding domain of the Vesicular Stomatitis Virus Phosphoprotein==
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The line below this paragraph, containing "STRUCTURE_2k47", creates the "Structure Box" on the page.
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<StructureSection load='2k47' size='340' side='right'caption='[[2k47]]' 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'>[[2k47]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Vesicular_stomatitis_Indiana_virus_strain_San_Juan Vesicular stomatitis Indiana virus strain San Juan]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K47 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2K47 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">Solution NMR</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=2k47 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k47 OCA], [https://pdbe.org/2k47 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2k47 RCSB], [https://www.ebi.ac.uk/pdbsum/2k47 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2k47 ProSAT]</span></td></tr>
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{{STRUCTURE_2k47| PDB=2k47 | SCENE= }}
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/PHOSP_VSIVA PHOSP_VSIVA] Essential component of the RNA polymerase transcription and replication complex. Binds the viral ribonucleocapsid and positions the L polymerase on the template. May act as a chaperone for newly synthesized free N protein, so-called N(0). Plays a role in virion assembly.<ref>PMID:8676480</ref> <ref>PMID:15163735</ref> <ref>PMID:15956555</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/k4/2k47_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=2k47 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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Beyond common features in their genome organization and replication mechanisms, the evolutionary relationships among viruses of the Rhabdoviridae family are difficult to decipher because of the great variability in the amino acid sequence of their proteins. The phosphoprotein (P) of vesicular stomatitis virus (VSV) is an essential component of the RNA transcription and replication machinery; in particular, it contains binding sites for the RNA-dependent RNA polymerase and for the nucleoprotein. Here, we devised a new method for defining boundaries of structured domains from multiple disorder prediction algorithms, and we identified an autonomous folding C-terminal domain in VSV P (P(CTD)). We show that, like the C-terminal domain of rabies virus (RV) P, VSV P(CTD) binds to the viral nucleocapsid (nucleoprotein-RNA complex). We solved the three-dimensional structure of VSV P(CTD) by NMR spectroscopy and found that the topology of its polypeptide chain resembles that of RV P(CTD). The common part of both proteins could be superimposed with a backbone RMSD from mean atomic coordinates of 2.6 A. VSV P(CTD) has a shorter N-terminal helix (alpha(1)) than RV P(CTD); it lacks two alpha-helices (helices alpha(3) and alpha(6) of RV P), and the loop between strands beta(1) and beta(2) is longer than that in RV. Dynamical properties measured by NMR relaxation revealed the presence of fast motions (below the nanosecond timescale) in loop regions (amino acids 209-214) and slower conformational exchange in the N- and C-terminal helices. Characterization of a longer construct indicated that P(CTD) is preceded by a flexible linker. The results presented here support a modular organization of VSV P, with independent folded domains separated by flexible linkers, which is conserved among different genera of Rhabdoviridae and is similar to that proposed for the P proteins of the Paramyxoviridae.
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===Solution structure of the C-terminal N-RNA binding domain of the Vesicular Stomatitis Virus Phosphoprotein===
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Solution structure of the C-terminal nucleoprotein-RNA binding domain of the vesicular stomatitis virus phosphoprotein.,Ribeiro EA Jr, Favier A, Gerard FC, Leyrat C, Brutscher B, Blondel D, Ruigrok RW, Blackledge M, Jamin M J Mol Biol. 2008 Oct 3;382(2):525-38. Epub 2008 Jul 16. PMID:18657547<ref>PMID:18657547</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_18657547}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 2k47" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 18657547 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_18657547}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Large Structures]]
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2K47 is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Vesicular_stomatitis_indiana_virus Vesicular stomatitis indiana virus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K47 OCA].
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[[Category: Vesicular stomatitis Indiana virus strain San Juan]]
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[[Category: Blackledge M]]
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==Reference==
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[[Category: Blondel D]]
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<ref group="xtra">PMID:18657547</ref><references group="xtra"/>
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[[Category: Brutscher B]]
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[[Category: Vesicular stomatitis indiana virus]]
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[[Category: Favier A]]
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[[Category: Blackledge, M.]]
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[[Category: Gerard FC]]
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[[Category: Blondel, D.]]
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[[Category: Jamin M]]
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[[Category: Brutscher, B.]]
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[[Category: Leyrat C]]
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[[Category: Favier, A.]]
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[[Category: Ribeiro EA]]
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[[Category: Gerard, F C.]]
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[[Category: Ruigrok RW]]
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[[Category: Jamin, M.]]
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[[Category: Leyrat, C.]]
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[[Category: Ribeiro, E A.]]
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[[Category: Ruigrok, R W.]]
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[[Category: Chaperone]]
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[[Category: Cytoplasm]]
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[[Category: Flexible tail]]
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[[Category: Phosphoprotein]]
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[[Category: Rna replication]]
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[[Category: Virion]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 00:04:23 2009''
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Current revision

Solution structure of the C-terminal N-RNA binding domain of the Vesicular Stomatitis Virus Phosphoprotein

PDB ID 2k47

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