We apologize for Proteopedia being slow to respond. For the past two years, a new implementation of Proteopedia has been being built. Soon, it will replace this 18-year old system. All existing content will be moved to the new system at a date that will be announced here.

2xdy

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (10:25, 9 May 2024) (edit) (undo)
 
(8 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:2xdy.png|left|200px]]
 
-
<!--
+
==Crystal structure of the N. crassa QDE-2 AGO MID domain==
-
The line below this paragraph, containing "STRUCTURE_2xdy", creates the "Structure Box" on the page.
+
<StructureSection load='2xdy' size='340' side='right'caption='[[2xdy]], [[Resolution|resolution]] 2.20&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'>[[2xdy]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Neurospora_crassa Neurospora crassa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XDY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XDY 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]] 2.2&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-
{{STRUCTURE_2xdy| PDB=2xdy | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2xdy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xdy OCA], [https://pdbe.org/2xdy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2xdy RCSB], [https://www.ebi.ac.uk/pdbsum/2xdy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2xdy ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/Q9P8T1_NEUCS Q9P8T1_NEUCS]
 +
== 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/xd/2xdy_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=2xdy ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Argonaute (AGO) proteins are core components of RNA-induced silencing complexes and have essential roles in RNA-mediated gene silencing. They are characterized by a bilobal architecture, consisting of one lobe containing the amino-terminal and PAZ domains and another containing the MID and PIWI domains. Except for the PAZ domain, structural information on eukaryotic AGO domains is not yet available. In this study, we report the crystal structure of the MID domain of the eukaryotic AGO protein QDE-2 from Neurospora crassa. This domain adopts a Rossmann-like fold and recognizes the 5'-terminal nucleotide of a guide RNA in a manner similar to its prokaryotic counterparts. The 5'-nucleotide-binding site shares common residues with a second, adjacent ligand-binding site, suggesting a mechanism for the cooperative binding of ligands to the MID domain of eukaryotic AGOs.
-
===CRYSTAL STRUCTURE OF THE N. CRASSA QDE-2 AGO MID DOMAIN===
+
Crystal structure and ligand binding of the MID domain of a eukaryotic Argonaute protein.,Boland A, Tritschler F, Heimstadt S, Izaurralde E, Weichenrieder O EMBO Rep. 2010 Jul;11(7):522-7. Epub 2010 Jun 11. PMID:20539312<ref>PMID:20539312</ref>
-
 
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
<!--
+
</div>
-
The line below this paragraph, {{ABSTRACT_PUBMED_20539312}}, adds the Publication Abstract to the page
+
<div class="pdbe-citations 2xdy" style="background-color:#fffaf0;"></div>
-
(as it appears on PubMed at http://www.pubmed.gov), where 20539312 is the PubMed ID number.
+
== References ==
-
-->
+
<references/>
-
{{ABSTRACT_PUBMED_20539312}}
+
__TOC__
-
 
+
</StructureSection>
-
==About this Structure==
+
[[Category: Large Structures]]
-
2XDY is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Neurospora_crassa Neurospora crassa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XDY OCA].
+
-
 
+
-
==Reference==
+
-
<ref group="xtra">PMID:20539312</ref><references group="xtra"/>
+
[[Category: Neurospora crassa]]
[[Category: Neurospora crassa]]
-
[[Category: Boland, A.]]
+
[[Category: Boland A]]
-
[[Category: Tritschler, F.]]
+
[[Category: Tritschler F]]
-
[[Category: Weichenrieder, O.]]
+
[[Category: Weichenrieder O]]
-
[[Category: 5' end binding]]
+
-
[[Category: Argonaute]]
+
-
[[Category: Gene silencing]]
+
-
[[Category: Rna binding protein]]
+
-
[[Category: Rna-induced silencing complex]]
+
-
[[Category: Rossmann-like fold]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jun 23 08:37:27 2010''
+

Current revision

Crystal structure of the N. crassa QDE-2 AGO MID domain

PDB ID 2xdy

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/2xdy"
Personal tools