1re5: Difference between revisions

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-{{Seed}}
-[[Image:1re5.png|left|200px]]
-<!--
+==Crystal structure of 3-carboxy-cis,cis-muconate lactonizing enzyme from Pseudomonas putida==
-The line below this paragraph, containing "STRUCTURE_1re5", creates the "Structure Box" on the page.
+<StructureSection load='1re5' size='340' side='right'caption='[[1re5]], [[Resolution|resolution]] 2.60&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'>[[1re5]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_putida_KT2440 Pseudomonas putida KT2440]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RE5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1RE5 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]] 2.6&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=DTT:2,3-DIHYDROXY-1,4-DITHIOBUTANE'>DTT</scene></td></tr>
-{{STRUCTURE_1re5|  PDB=1re5  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1re5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1re5 OCA], [https://pdbe.org/1re5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1re5 RCSB], [https://www.ebi.ac.uk/pdbsum/1re5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1re5 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q88N37_PSEPK Q88N37_PSEPK]
+== 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/re/1re5_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=1re5 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+-Carboxy-cis,cis-muconate lactonizing enzymes (CMLEs), the key enzymes in the protocatechuate branch of the beta-ketoadipate pathway in microorganisms, catalyze the conversion of 3-carboxy-cis,cis-muconate to muconolactones. We have determined the crystal structure of the prokaryotic Pseudomonas putida CMLE (PpCMLE) at 2.6 A resolution. PpCMLE is a homotetramer and belongs to the fumarase class II superfamily. The active site of PpCMLE is formed largely by three regions, which are moderately conserved in the fumarase class II superfamily, from three respective monomers. It has been proposed that residue His141, which is highly conserved in all fumarase class II enzymes and forms a charge relay with residue Glu275 (both His141 and Glu275 are in adenylosuccinate lyase numbering), acts as the general base in most fumarase class II superfamily members. However, this charge relay pair is broken in PpCMLE. The residues corresponding to His141 and Glu275 are Trp153 and Ala289, respectively, in PpCMLE. The structures of prokaryotic MLEs and that of CMLE from the eukaryotic Neurospora crassa are completely different from that of PpCMLE, indicating MLEs and CMLEs, as well as the prokaryotic and eukaryotic CMLEs, evolved from distinct ancestors, although they catalyze similar reactions. The structural differences may be related to recognition by substrates and to differences in the mechanistic pathways by which these enzymes catalyze their respective reactions.
-===Crystal structure of 3-carboxy-cis,cis-muconate lactonizing enzyme from Pseudomonas putida===
+Crystal structure of 3-carboxy-cis,cis-muconate lactonizing enzyme from Pseudomonas putida, a fumarase class II type cycloisomerase: enzyme evolution in parallel pathways.,Yang J, Wang Y, Woolridge EM, Arora V, Petsko GA, Kozarich JW, Ringe D Biochemistry. 2004 Aug 17;43(32):10424-34. PMID:15301541<ref>PMID:15301541</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1re5" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_15301541}}, adds the Publication Abstract to the page
+*[[Muconate cycloisomerase|Muconate cycloisomerase]]
-(as it appears on PubMed at http://www.pubmed.gov), where 15301541 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_15301541}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-RE5 is a 4 chains structure of sequences from [http://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RE5 OCA].
+[[Category: Pseudomonas putida KT2440]]
+[[Category: Kozarich JW]]
-==Reference==
+[[Category: Petsko GA]]
-<ref group="xtra">PMID:15301541</ref><references group="xtra"/>
+[[Category: Ringe D]]
-[[Category: Pseudomonas putida]]
+[[Category: Wang Y]]
-[[Category: Kozarich, J W.]]
+[[Category: Woolridge EM]]
-[[Category: Petsko, G A.]]
+[[Category: Yang J]]
-[[Category: Ringe, D.]]
-[[Category: Wang, Y.]]
-[[Category: Woolridge, E M.]]
-[[Category: Yang, J.]]
-[[Category: Fumarase class ii cycloisomerase]]
-[[Category: Homotetramer]]
-[[Category: Molecular evolution]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 10:31:44 2009''