2yvh: Difference between revisions

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-{{Seed}}
-[[Image:2yvh.png|left|200px]]
-<!--
+==Crystal structure of the operator-binding form of the multi-drug binding transcriptional repressor CgmR==
-The line below this paragraph, containing "STRUCTURE_2yvh", creates the "Structure Box" on the page.
+<StructureSection load='2yvh' size='340' side='right'caption='[[2yvh]], [[Resolution|resolution]] 2.50&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'>[[2yvh]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Corynebacterium_glutamicum_ATCC_13032 Corynebacterium glutamicum ATCC 13032]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2YVH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2YVH 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]] 2.5&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-{{STRUCTURE_2yvh|  PDB=2yvh  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2yvh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2yvh OCA], [https://pdbe.org/2yvh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2yvh RCSB], [https://www.ebi.ac.uk/pdbsum/2yvh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2yvh ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q8NMG3_CORGL Q8NMG3_CORGL]
+== 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/yv/2yvh_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=2yvh ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+CgmR (CGL2612) from Corynebacterium glutamicum is a multidrug-resistance-related transcription factor belonging to the TetR family, which is a protein family of widespread bacterial transcription factors typically involved in environmental response. Here, we report the crystal structures of CgmR homodimeric repressor in complex with two distinct inducers (1.95 and 1.4 A resolution) and with an operator (2.5 A resolution). The CgmR-operator complex showed that two CgmR dimers bound to the operator, and each half-site of the palindromic operator was asymmetrically recognized by two DNA-binding domains from different dimers on the opposite sides of the DNA. The inducer complexes demonstrated that both bound inducers act as a wedge to alter the operator-binding conformation of the repressor by steric inhibition. As steric hindrance is used, various drugs should act as inducers if they have sufficient volume for the conformation change and if their bindings sufficiently reduce free energy. The comparative structural study of CgmR free protein, in complex with operator, and with inducers, implies the other mechanism that might contribute to multidrug response of the repressor.
-===Crystal structure of the operator-binding form of the multi-drug binding transcriptional repressor CgmR===
+Crystal Structures of the Multidrug Binding Repressor Corynebacteriumglutamicum CgmR in Complex with Inducers and with an Operator.,Itou H, Watanabe N, Yao M, Shirakihara Y, Tanaka I J Mol Biol. 2010 Aug 5. PMID:20691702<ref>PMID:20691702</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 2yvh" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_20691702}}, adds the Publication Abstract to the page
+*[[Transcriptional activator 3D structures|Transcriptional activator 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 20691702 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_20691702}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Corynebacterium glutamicum ATCC 13032]]
-YVH is a 8 chains structure with sequences from [http://en.wikipedia.org/wiki/Corynebacterium_glutamicum Corynebacterium glutamicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2YVH OCA].
+[[Category: Large Structures]]
+[[Category: Itou H]]
-==Reference==
+[[Category: Shirakihara Y]]
-<ref group="xtra">PMID:20691702</ref><references group="xtra"/>
+[[Category: Tanaka I]]
-[[Category: Corynebacterium glutamicum]]
-[[Category: Itou, H.]]
-[[Category: Shirakihara, Y.]]
-[[Category: Tanaka, I.]]
-[[Category: Helix-turn-helix]]
-[[Category: Protein-dna complex]]
-[[Category: Tetr-family]]
-[[Category: Transcription-dna complex]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Aug 18 11:08:09 2010''