3ivk

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (06:21, 27 November 2024) (edit) (undo)
 
(6 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:3ivk.png|left|200px]]
 
-
{{STRUCTURE_3ivk| PDB=3ivk | SCENE= }}
+
==Crystal Structure of the Catalytic Core of an RNA Polymerase Ribozyme Complexed with an Antigen Binding Antibody Fragment==
 +
<StructureSection load='3ivk' size='340' side='right'caption='[[3ivk]], [[Resolution|resolution]] 3.10&Aring;' scene=''>
 +
== Structural highlights ==
 +
<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>
 +
</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>
 +
<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>
 +
<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>
 +
</table>
 +
== 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/iv/3ivk_consurf.spt"</scriptWhenChecked>
 +
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=3ivk ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
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.
-
===Crystal Structure of the Catalytic Core of an RNA Polymerase Ribozyme Complexed with an Antigen Binding Antibody Fragment===
+
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>
-
{{ABSTRACT_PUBMED_19965478}}
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
 
+
</div>
-
==About this Structure==
+
<div class="pdbe-citations 3ivk" style="background-color:#fffaf0;"></div>
-
[[3ivk]] is a 6 chain structure with sequence 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].
+
==See Also==
==See Also==
-
*[[Antibody|Antibody]]
+
*[[Monoclonal Antibodies 3D structures|Monoclonal Antibodies 3D structures]]
-
 
+
== References ==
-
==Reference==
+
<references/>
-
<ref group="xtra">PMID:019965478</ref><ref group="xtra">PMID:021151117</ref><references group="xtra"/>
+
__TOC__
 +
</StructureSection>
 +
[[Category: Large Structures]]
[[Category: Mus musculus]]
[[Category: Mus musculus]]
-
[[Category: Bartel, D P.]]
+
[[Category: Bartel DP]]
-
[[Category: Duguid, E M.]]
+
[[Category: Duguid EM]]
-
[[Category: Koide, S.]]
+
[[Category: Koide S]]
-
[[Category: Koldobskaya, Y.]]
+
[[Category: Koldobskaya Y]]
-
[[Category: Kossiakoff, A A.]]
+
[[Category: Kossiakoff AA]]
-
[[Category: Piccirilli, J A.]]
+
[[Category: Piccirilli JA]]
-
[[Category: Shechner, D M.]]
+
[[Category: Shechner DM]]
-
[[Category: Catalytic rna]]
+
-
[[Category: Immune system - rna complex]]
+
-
[[Category: Protein rna complex]]
+
-
[[Category: Rna hairpin epitope]]
+
-
[[Category: Rna polymerase ribozyme]]
+

Current revision

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

PDB ID 3ivk

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3ivk"
Personal tools