2r2d: Difference between revisions

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-{{Seed}}
-[[Image:2r2d.png|left|200px]]
-<!--
+==Structure of a quorum-quenching lactonase (AiiB) from Agrobacterium tumefaciens==
-The line below this paragraph, containing "STRUCTURE_2r2d", creates the "Structure Box" on the page.
+<StructureSection load='2r2d' size='340' side='right'caption='[[2r2d]], [[Resolution|resolution]] 1.75&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'>[[2r2d]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Agrobacterium_fabrum_str._C58 Agrobacterium fabrum str. C58]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2R2D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2R2D 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]] 1.75&#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=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-{{STRUCTURE_2r2d|  PDB=2r2d  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2r2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2r2d OCA], [https://pdbe.org/2r2d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2r2d RCSB], [https://www.ebi.ac.uk/pdbsum/2r2d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2r2d ProSAT]</span></td></tr>
+</table>
-===Structure of a quorum-quenching lactonase (AiiB) from Agrobacterium tumefaciens===
+== Function ==
+[https://www.uniprot.org/uniprot/AHLLB_AGRFC AHLLB_AGRFC]
+== Evolutionary Conservation ==
-<!--
+[[Image:Consurf_key_small.gif|200px|right]]
-The line below this paragraph, {{ABSTRACT_PUBMED_17900178}}, adds the Publication Abstract to the page
+Check<jmol>
-(as it appears on PubMed at http://www.pubmed.gov), where 17900178 is the PubMed ID number.
+  <jmolCheckbox>
--->
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/r2/2r2d_consurf.spt"</scriptWhenChecked>
-{{ABSTRACT_PUBMED_17900178}}
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
-==About this Structure==
+  </jmolCheckbox>
-R2D is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Agrobacterium_tumefaciens Agrobacterium tumefaciens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2R2D 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=2r2d ConSurf].
+<div style="clear:both"></div>
-==Reference==
+__TOC__
-Structure and specificity of a quorum-quenching lactonase (AiiB) from Agrobacterium tumefaciens., Liu D, Thomas PW, Momb J, Hoang QQ, Petsko GA, Ringe D, Fast W, Biochemistry. 2007 Oct 23;46(42):11789-99. Epub 2007 Sep 28. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17900178 17900178]
+</StructureSection>
-[[Category: Agrobacterium tumefaciens]]
+[[Category: Agrobacterium fabrum str. C58]]
-[[Category: Single protein]]
+[[Category: Large Structures]]
-[[Category: Fast, W.]]
+[[Category: Fast W]]
-[[Category: Hoang, Q.]]
+[[Category: Hoang Q]]
-[[Category: Liu, D.]]
+[[Category: Liu D]]
-[[Category: Momb, J.]]
+[[Category: Momb J]]
-[[Category: Petsko, G A.]]
+[[Category: Petsko GA]]
-[[Category: Ringe, D.]]
+[[Category: Ringe D]]
-[[Category: Thomas, P W.]]
+[[Category: Thomas PW]]
-[[Category: Agrobacterium tumefacien]]
-[[Category: Aiib]]
-[[Category: Di-nuclear zinc center]]
-[[Category: Hydrolase]]
-[[Category: Lactonase]]
-[[Category: N-acyl hompserine lactone]]
-[[Category: Phosphate]]
-[[Category: Quorum quenching]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Jul 27 18:41:12 2008''