2db3: Difference between revisions

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-[[Image:2db3.png|left|200px]]
-<!--
+==Structural basis for RNA unwinding by the DEAD-box protein Drosophila Vasa==
-The line below this paragraph, containing "STRUCTURE_2db3", creates the "Structure Box" on the page.
+<StructureSection load='2db3' size='340' side='right'caption='[[2db3]], [[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'>[[2db3]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DB3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DB3 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=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-{{STRUCTURE_2db3|  PDB=2db3  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2db3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2db3 OCA], [https://pdbe.org/2db3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2db3 RCSB], [https://www.ebi.ac.uk/pdbsum/2db3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2db3 ProSAT], [https://www.topsan.org/Proteins/RSGI/2db3 TOPSAN]</span></td></tr>
+</table>
-===Structural basis for RNA unwinding by the DEAD-box protein Drosophila Vasa===
+== Function ==
+[https://www.uniprot.org/uniprot/VASA1_DROME VASA1_DROME] Involved in translational control mechanisms operating in early stages of oogenesis. Required maternally in many stages of oogenesis, including cystocyte differentiation, oocyte differentiation, and specification of anterior-posterior polarity in the developing cysts. Essential for the formation and/or structural integrity of perinuclear nuage particles during germ cell formation. Required for gus, Fsn and aub accumulation at the posterior pole of the embryo. Required for the localization of vas to the perinuclear region of nurse cells.<ref>PMID:10678180</ref> <ref>PMID:11526087</ref> <ref>PMID:12479811</ref> <ref>PMID:14588248</ref> <ref>PMID:16630817</ref> <ref>PMID:18590813</ref> <ref>PMID:20123973</ref> <ref>PMID:3052853</ref> <ref>PMID:3140040</ref> <ref>PMID:8026330</ref> <ref>PMID:9521895</ref>
+== Evolutionary Conservation ==
-<!--
+[[Image:Consurf_key_small.gif|200px|right]]
-The line below this paragraph, {{ABSTRACT_PUBMED_16630817}}, adds the Publication Abstract to the page
+Check<jmol>
-(as it appears on PubMed at http://www.pubmed.gov), where 16630817 is the PubMed ID number.
+  <jmolCheckbox>
--->
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/db/2db3_consurf.spt"</scriptWhenChecked>
-{{ABSTRACT_PUBMED_16630817}}
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
-==About this Structure==
+  </jmolCheckbox>
-[[2db3]] is a 8 chain structure of [[Helicase]] with sequence from [http://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DB3 OCA].
+</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=2db3 ConSurf].
+<div style="clear:both"></div>
 ==See Also==
-*[[Helicase|Helicase]]
+*[[Helicase 3D structures|Helicase 3D structures]]
-*[[User:Wayne Decatur|User:Wayne Decatur]]
+== References ==
+<references/>
-==Reference==
+__TOC__
-<ref group="xtra">PMID:016630817</ref><ref group="xtra">PMID:014747711</ref><references group="xtra"/>
+</StructureSection>
-[[Category: Adenosinetriphosphatase]]
 [[Category: Drosophila melanogaster]]
-[[Category: Kobayashi, S.]]
+[[Category: Large Structures]]
-[[Category: Nakamura, A.]]
+[[Category: Kobayashi S]]
-[[Category: Nureki, O.]]
+[[Category: Nakamura A]]
-[[Category: RSGI, RIKEN Structural Genomics/Proteomics Initiative.]]
+[[Category: Nureki O]]
-[[Category: Sengoku, T.]]
+[[Category: Sengoku T]]
-[[Category: Yokoyama, S.]]
+[[Category: Yokoyama S]]
-[[Category: Atpase]]
-[[Category: Dead-box]]
-[[Category: Helicase]]
-[[Category: Hydrolase-rna complex]]
-[[Category: Protein-rna complex]]
-[[Category: Riken structural genomics/proteomics initiative]]
-[[Category: Rsgi]]
-[[Category: Structural genomic]]