3hjf: Difference between revisions

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-{{Seed}}
-[[Image:3hjf.jpg|left|200px]]
-<!--
+==Crystal structure of T. thermophilus Argonaute E546 mutant protein complexed with DNA guide strand and 15-nt RNA target strand==
-The line below this paragraph, containing "STRUCTURE_3hjf", creates the "Structure Box" on the page.
+<StructureSection load='3hjf' size='340' side='right'caption='[[3hjf]], [[Resolution|resolution]] 3.06&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'>[[3hjf]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB27 Thermus thermophilus HB27]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HJF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3HJF 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]] 3.056&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-{{STRUCTURE_3hjf|  PDB=3hjf  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3hjf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hjf OCA], [https://pdbe.org/3hjf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3hjf RCSB], [https://www.ebi.ac.uk/pdbsum/3hjf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3hjf ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q746M7_THET2 Q746M7_THET2]
+== 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/hj/3hjf_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=3hjf ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The slicer activity of the RNA-induced silencing complex resides within its Argonaute (Ago) component, in which the PIWI domain provides the catalytic residues governing guide-strand mediated site-specific cleavage of target RNA. Here we report on structures of ternary complexes of Thermus thermophilus Ago catalytic mutants with 5'-phosphorylated 21-nucleotide guide DNA and complementary target RNAs of 12, 15 and 19 nucleotides in length, which define the molecular basis for Mg(2+)-facilitated site-specific cleavage of the target. We observe pivot-like domain movements within the Ago scaffold on proceeding from nucleation to propagation steps of guide-target duplex formation, with duplex zippering beyond one turn of the helix requiring the release of the 3'-end of the guide from the PAZ pocket. Cleavage assays on targets of various lengths supported this model, and sugar-phosphate-backbone-modified target strands showed the importance of structural and catalytic divalent metal ions observed in the crystal structures.
-===Crystal structure of T. thermophilus Argonaute E546 mutant protein complexed with DNA guide strand and 15-nt RNA target strand===
+Nucleation, propagation and cleavage of target RNAs in Ago silencing complexes.,Wang Y, Juranek S, Li H, Sheng G, Wardle GS, Tuschl T, Patel DJ Nature. 2009 Oct 8;461(7265):754-61. PMID:19812667<ref>PMID:19812667</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 3hjf" style="background-color:#fffaf0;"></div>
-==About this Structure==
+==See Also==
-HJF is a 3 chains structure of sequences from [http://en.wikipedia.org/wiki/Thermus_thermophilus_hb27 Thermus thermophilus hb27]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HJF OCA].
+*[[Argonaute 3D structures|Argonaute 3D structures]]
-[[Category: Thermus thermophilus hb27]]
+== References ==
-[[Category: Li, H.]]
+<references/>
-[[Category: Patel, D J.]]
+__TOC__
-[[Category: Sheng, G.]]
+</StructureSection>
-[[Category: Wang, Y.]]
+[[Category: Large Structures]]
-[[Category: Argonaute]]
+[[Category: Thermus thermophilus HB27]]
-[[Category: Nucleic acid binding protein/dna/rna complex]]
+[[Category: Li H]]
-[[Category: Plasmid]]
+[[Category: Patel DJ]]
-[[Category: Protein-dna_rna complex]]
+[[Category: Sheng G]]
+[[Category: Wang Y]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Oct  7 14:11:34 2009''