1qyp: Difference between revisions

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-{{Seed}}
-[[Image:1qyp.png|left|200px]]
-<!--
+==THERMOCOCCUS CELER RPB9, NMR, 25 STRUCTURES==
-The line below this paragraph, containing "STRUCTURE_1qyp", creates the "Structure Box" on the page.
+<StructureSection load='1qyp' size='340' side='right'caption='[[1qyp]]' 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'>[[1qyp]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermococcus_celer Thermococcus celer]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QYP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1QYP 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">Solution NMR</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-{{STRUCTURE_1qyp|  PDB=1qyp  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1qyp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qyp OCA], [https://pdbe.org/1qyp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1qyp RCSB], [https://www.ebi.ac.uk/pdbsum/1qyp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1qyp ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/TFS_THECE TFS_THECE] Induces RNA cleavage activity in the RNA polymerase. In its presence, the cleavage activity of the RNA polymerase truncates the RNA back to position +15 in a stepwise manner by releasing mainly dinucleotides from the 3'-end of the nascent RNA. The truncated RNAs are able to continue elongation. Involved in transcriptional proofreading and fidelity. Misincorporation of nucleotides during elongation of transcription leads to arrested elongation complexes which are rescued by TFS-promoted removal of a dinucleotide from the 3'-end. TFS is able to induce a cleavage resynthesis cycle in stalled elongation complexes (resulting from the next missing nucleotide or a reduced incorporation rate of a wrong nucleotide) preventing misincorporation and enabling proofreading in a post-incorporation manner. Pausing of elongation complexes is the main determinant of TFS-induced RNA cleavage.[UniProtKB:Q9P9I8]
+== Evolutionary Conservation ==
+[[Image:Consurf_key_small.gif|200px|right]]
+Check<jmol>
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/qy/1qyp_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
+  </jmolCheckbox>
+</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=1qyp ConSurf].
+<div style="clear:both"></div>
-===THERMOCOCCUS CELER RPB9, NMR, 25 STRUCTURES===
+==See Also==
+*[[RNA polymerase 3D structures|RNA polymerase 3D structures]]
+__TOC__
-<!--
+</StructureSection>
-The line below this paragraph, {{ABSTRACT_PUBMED_9634694}}, adds the Publication Abstract to the page
+[[Category: Large Structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 9634694 is the PubMed ID number.
--->
-{{ABSTRACT_PUBMED_9634694}}
-==About this Structure==
-QYP is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Thermococcus_celer Thermococcus celer]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QYP OCA].
-==Reference==
-High-resolution structure of an archaeal zinc ribbon defines a general architectural motif in eukaryotic RNA polymerases., Wang B, Jones DN, Kaine BP, Weiss MA, Structure. 1998 May 15;6(5):555-69. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9634694 9634694]
-[[Category: Single protein]]
 [[Category: Thermococcus celer]]
-[[Category: Jones, D N.M.]]
+[[Category: Jones DNM]]
-[[Category: Kaine, B P.]]
+[[Category: Kaine BP]]
-[[Category: Wang, B.]]
+[[Category: Wang B]]
-[[Category: Weiss, M A.]]
+[[Category: Weiss MA]]
-[[Category: Extremophile]]
-[[Category: Hyperthermophilic]]
-[[Category: Rna polymerase ii subunit]]
-[[Category: Rpb9]]
-[[Category: Transcription]]
-[[Category: Zn ribbon]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 08:00:13 2008''