1r8c: Difference between revisions

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-[[Image:1r8c.jpg|left|200px]]
-<!--
+==Crystal Structures of an Archaeal Class I CCA-Adding Enzyme and Its Nucleotide==
-The line below this paragraph, containing "STRUCTURE_1r8c", creates the "Structure Box" on the page.
+<StructureSection load='1r8c' size='340' side='right'caption='[[1r8c]], [[Resolution|resolution]] 1.90&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'>[[1r8c]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1R8C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1R8C 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]] 1.9&#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>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=UTP:URIDINE+5-TRIPHOSPHATE'>UTP</scene></td></tr>
-{{STRUCTURE_1r8c|  PDB=1r8c  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1r8c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1r8c OCA], [https://pdbe.org/1r8c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1r8c RCSB], [https://www.ebi.ac.uk/pdbsum/1r8c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1r8c ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/CCA_ARCFU CCA_ARCFU] Catalyzes the addition and repair of the essential 3'-terminal CCA sequence in tRNAs without using a nucleic acid template. Adds these three nucleotides in the order of C, C, and A to the tRNA nucleotide-73, using CTP and ATP as substrates and producing inorganic pyrophosphate.<ref>PMID:14592988</ref>
+== 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/r8/1r8c_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=1r8c ConSurf].
+<div style="clear:both"></div>
-'''Crystal Structures of an Archaeal Class I CCA-Adding Enzyme and Its Nucleotide'''
+==See Also==
+*[[CCA-adding enzyme 3D structures|CCA-adding enzyme 3D structures]]
+== References ==
-==Overview==
+<references/>
-CCA-adding enzymes catalyze the addition of CCA onto the 3' terminus of immature tRNAs without using a nucleic acid template and have been divided into two classes based on their amino acid sequences. We have determined the crystal structures of a class I CCA-adding enzyme from Archeoglobus fulgidus (AfCCA) and its complexes with ATP, CTP, or UTP. Although it and the class II bacterial Bacillus stearothermophilus CCA enzyme (BstCCA) have similar dimensions and domain architectures (head, neck, body, and tail), only the polymerase domain is structurally homologous. Moreover, the relative orientation of the head domain with respect to the body and tail domains, which appear likely to bind tRNA, differs significantly between the two enzyme classes. Unlike the class II BstCCA, this enzyme binds nucleotides nonspecifically in the absence of bound tRNA. The shape and electrostatic charge distribution of the AfCCA enzyme suggests a model for tRNA binding that accounts for the phosphates that are protected from chemical modification by tRNA binding to AfCCA. The structures of the AfCCA enzyme and the eukaryotic poly(A) polymerase are very similar, implying a close evolutionary relationship between them.
+__TOC__
+</StructureSection>
-==About this Structure==
-R8C is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1R8C OCA].
-==Reference==
-Crystal structures of an archaeal class I CCA-adding enzyme and its nucleotide complexes., Xiong Y, Li F, Wang J, Weiner AM, Steitz TA, Mol Cell. 2003 Nov;12(5):1165-72. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/14636575 14636575]
 [[Category: Archaeoglobus fulgidus]]
-[[Category: Single protein]]
+[[Category: Large Structures]]
-[[Category: TRNA adenylyltransferase]]
+[[Category: Li F]]
-[[Category: Li, F.]]
+[[Category: Steitz TA]]
-[[Category: Steitz, T A.]]
+[[Category: Wang J]]
-[[Category: Wang, J.]]
+[[Category: Weiner AM]]
-[[Category: Weiner, A M.]]
+[[Category: Xiong Y]]
-[[Category: Xiong, Y.]]
-[[Category: Cca adding enzyme]]
-[[Category: Incoming nucleotide]]
-[[Category: Nucleotidyltransferase]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 07:12:36 2008''