2gdj: Difference between revisions

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-[[Image:2gdj.png|left|200px]]
-{{STRUCTURE_2gdj|  PDB=2gdj  |  SCENE=  }}
+==Delta-62 RADA recombinase in complex with AMP-PNP and magnesium==
+<StructureSection load='2gdj' size='340' side='right'caption='[[2gdj]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[2gdj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanococcus_voltae Methanococcus voltae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GDJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2GDJ 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]] 2.5&#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>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2gdj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gdj OCA], [https://pdbe.org/2gdj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2gdj RCSB], [https://www.ebi.ac.uk/pdbsum/2gdj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2gdj ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/RADA_METVO RADA_METVO] Involved in DNA repair and in homologous recombination. Binds and assemble on single-stranded DNA to form a nucleoprotein filament. Hydrolyzes ATP in a ssDNA-dependent manner and promotes DNA strand exchange between homologous DNA molecules (By similarity).
+== 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/gd/2gdj_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=2gdj ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Proteins in the RecA/RadA/Rad51 family form helical filaments on DNA that function in homologous recombination. While these proteins all have the same highly conserved ATP binding core, the RadA/Rad51 proteins have an N-terminal domain that shows no homology with the C-terminal domain found in RecA. Both the Rad51 N-terminal and RecA C-terminal domains have been shown to bind DNA, but no role for these domains has been established. We show that RadA filaments can be trapped in either an inactive or active conformation with respect to the ATPase and that activation involves a large rotation of the subunit aided by the N-terminal domain. The G103E mutation within the yeast Rad51 N-terminal domain inactivates the filament by failing to make proper contacts between the N-terminal domain and the core. These results show that the N-terminal domains play a regulatory role in filament activation and highlight the modular architecture of the recombination proteins.
-===Delta-62 RADA recombinase in complex with AMP-PNP and magnesium===
+The Rad51/RadA N-terminal domain activates nucleoprotein filament ATPase activity.,Galkin VE, Wu Y, Zhang XP, Qian X, He Y, Yu X, Heyer WD, Luo Y, Egelman EH Structure. 2006 Jun;14(6):983-92. PMID:16765891<ref>PMID:16765891</ref>
-{{ABSTRACT_PUBMED_16765891}}
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 2gdj" style="background-color:#fffaf0;"></div>
-==About this Structure==
+==See Also==
-[[2gdj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanococcus_voltae Methanococcus voltae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GDJ OCA].
+*[[Resolvase 3D structures|Resolvase 3D structures]]
+== References ==
-==Reference==
+<references/>
-<ref group="xtra">PMID:016765891</ref><references group="xtra"/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
 [[Category: Methanococcus voltae]]
-[[Category: He, Y.]]
+[[Category: He Y]]
-[[Category: Luo, Y.]]
+[[Category: Luo Y]]
-[[Category: Qian, X.]]
+[[Category: Qian X]]
-[[Category: Wu, Y.]]
+[[Category: Wu Y]]
-[[Category: Atpase]]
-[[Category: Protein-atp complex]]
-[[Category: Recombination]]