3ivk

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{{Seed}}
 
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[[Image:3ivk.jpg|left|200px]]
 
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==Crystal Structure of the Catalytic Core of an RNA Polymerase Ribozyme Complexed with an Antigen Binding Antibody Fragment==
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The line below this paragraph, containing "STRUCTURE_3ivk", creates the "Structure Box" on the page.
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<StructureSection load='3ivk' size='340' side='right'caption='[[3ivk]], [[Resolution|resolution]] 3.10&Aring;' 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'>[[3ivk]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IVK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3IVK 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">X-ray diffraction, [[Resolution|Resolution]] 3.1&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
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{{STRUCTURE_3ivk| PDB=3ivk | SCENE= }}
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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=3ivk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ivk OCA], [https://pdbe.org/3ivk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ivk RCSB], [https://www.ebi.ac.uk/pdbsum/3ivk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ivk ProSAT]</span></td></tr>
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</table>
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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/iv/3ivk_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=3ivk 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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Primordial organisms of the putative RNA world would have required polymerase ribozymes able to replicate RNA. Known ribozymes with polymerase activity best approximating that needed for RNA replication contain at their catalytic core the class I RNA ligase, an artificial ribozyme with a catalytic rate among the fastest of known ribozymes. Here we present the 3.0 angstrom crystal structure of this ligase. The architecture resembles a tripod, its three legs converging near the ligation junction. Interacting with this tripod scaffold through a series of 10 minor-groove interactions (including two A-minor triads) is the unpaired segment that contributes to and organizes the active site. A cytosine nucleobase and two backbone phosphates abut the ligation junction; their location suggests a model for catalysis resembling that of proteinaceous polymerases.
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===Crystal Structure of the Catalytic Core of an RNA Polymerase Ribozyme Complexed with an Antigen Binding Antibody Fragment===
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Crystal structure of the catalytic core of an RNA-polymerase ribozyme.,Shechner DM, Grant RA, Bagby SC, Koldobskaya Y, Piccirilli JA, Bartel DP Science. 2009 Nov 27;326(5957):1271-5. PMID:19965478<ref>PMID:19965478</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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<div class="pdbe-citations 3ivk" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_19965478}}, adds the Publication Abstract to the page
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*[[Monoclonal Antibodies 3D structures|Monoclonal Antibodies 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 19965478 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_19965478}}
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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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3IVK is a 6 chains structure with sequences from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IVK OCA].
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==Reference==
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<ref group="xtra">PMID:19965478</ref><references group="xtra"/>
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[[Category: Mus musculus]]
[[Category: Mus musculus]]
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[[Category: Bartel, D P.]]
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[[Category: Bartel DP]]
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[[Category: Duguid, E M.]]
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[[Category: Duguid EM]]
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[[Category: Koide, S.]]
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[[Category: Koide S]]
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[[Category: Koldobskaya, Y.]]
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[[Category: Koldobskaya Y]]
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[[Category: Kossiakoff, A A.]]
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[[Category: Kossiakoff AA]]
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[[Category: Piccirilli, J A.]]
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[[Category: Piccirilli JA]]
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[[Category: Shechner, D M.]]
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[[Category: Shechner DM]]
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[[Category: Catalytic rna]]
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[[Category: Immune system - rna complex]]
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[[Category: Protein rna complex]]
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[[Category: Rna hairpin epitope]]
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[[Category: Rna polymerase ribozyme]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar 3 16:07:47 2010''
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Current revision

Crystal Structure of the Catalytic Core of an RNA Polymerase Ribozyme Complexed with an Antigen Binding Antibody Fragment

PDB ID 3ivk

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