1uvl: Difference between revisions

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-[[Image:1uvl.png|left|200px]]
-<!--
+==The structural basis for RNA specificity and Ca2 inhibition of an RNA-dependent RNA polymerase phi6p2 with 5nt RNA. Conformation B==
-The line below this paragraph, containing "STRUCTURE_1uvl", creates the "Structure Box" on the page.
+<StructureSection load='1uvl' size='340' side='right'caption='[[1uvl]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[1uvl]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_virus_phi6 Pseudomonas virus phi6] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UVL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1UVL FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</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&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
-{{STRUCTURE_1uvl|  PDB=1uvl  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1uvl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uvl OCA], [https://pdbe.org/1uvl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1uvl RCSB], [https://www.ebi.ac.uk/pdbsum/1uvl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1uvl ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/RDRP_BPPH6 RDRP_BPPH6]
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The RNA-dependent RNA polymerase of bacteriophage phi6 transcribes mRNA from the three segments of the dsRNA viral genome. We have cocrystallized RNA oligonucleotides with the polymerase, revealing the mode of binding of RNA templates. This binding is somewhat different from that previously seen for DNA oligomers, leading to additional RNA-protein hydrogen bonds, consistent with a preference for RNA. Activation of the RNA/polymerase complex by the addition of substrate and Mg2+ initiates a single round of reaction within the crystal to form a dead-end complex that partially collapses within the enzyme active site. By replacing Mg2+ with Ca2+, we have been able to capture the inhibited complex which shows distortion that explains the structural basis for the inhibition of such polymerases by Ca2+.
-===The structural basis for RNA specificity and Ca2+ inhibition of an RNA-dependent RNA polymerase phi6p2 with 5nt rna conformation B===
+The structural basis for RNA specificity and Ca2+ inhibition of an RNA-dependent RNA polymerase.,Salgado PS, Makeyev EV, Butcher SJ, Bamford DH, Stuart DI, Grimes JM Structure. 2004 Feb;12(2):307-16. PMID:14962391<ref>PMID:14962391</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-<!--
+</div>
-The line below this paragraph, {{ABSTRACT_PUBMED_14962391}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 1uvl" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 14962391 is the PubMed ID number.
--->
-{{ABSTRACT_PUBMED_14962391}}
-==About this Structure==
-[[1uvl]] is a 6 chain structure of [[RNA polymerase]]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UVL OCA].
 ==See Also==
-*[[RNA polymerase]]
+*[[RNA polymerase 3D structures|RNA polymerase 3D structures]]
+== References ==
-==Reference==
+<references/>
-<ref group="xtra">PMID:014962391</ref><references group="xtra"/>
+__TOC__
-[[Category: RNA-directed RNA polymerase]]
+</StructureSection>
-[[Category: Bamford, D.]]
+[[Category: Large Structures]]
-[[Category: Butcher, S.]]
+[[Category: Pseudomonas virus phi6]]
-[[Category: Grimes, J M.]]
+[[Category: Synthetic construct]]
-[[Category: Makeyev, E V.]]
+[[Category: Bamford D]]
-[[Category: Salgado, P S.]]
+[[Category: Butcher S]]
-[[Category: Stuart, D I.]]
+[[Category: Grimes JM]]
-[[Category: Oligonucleotide polymerase]]
+[[Category: Makeyev EV]]
-[[Category: Polymerase]]
+[[Category: Salgado PS]]
-[[Category: Structural protein]]
+[[Category: Stuart DI]]
-[[Category: Transcription]]
-[[Category: Transferase]]