3ej7: Difference between revisions

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-{{Seed}}
-[[Image:3ej7.png|left|200px]]
-<!--
+==Structural and mechanistic analysis of trans-3-chloroacrylic acid dehalogenase activity==
-The line below this paragraph, containing "STRUCTURE_3ej7", creates the "Structure Box" on the page.
+<StructureSection load='3ej7' size='340' side='right'caption='[[3ej7]], [[Resolution|resolution]] 1.90&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'>[[3ej7]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_pavonaceae Pseudomonas pavonaceae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EJ7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3EJ7 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]] 1.9&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-{{STRUCTURE_3ej7|  PDB=3ej7  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3ej7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ej7 OCA], [https://pdbe.org/3ej7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ej7 RCSB], [https://www.ebi.ac.uk/pdbsum/3ej7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ej7 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q9EV85_PSEPV Q9EV85_PSEPV]
+== 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/ej/3ej7_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=3ej7 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Trans-3-chloroacrylic acid dehalogenase (CaaD) is a critical enzyme in the trans-1,3-dichloropropene (DCP) degradation pathway in Pseudomonas pavonaceae 170. This enzyme allows bacteria to use trans-DCP, a common component in commercially produced fumigants, as a carbon source. CaaD specifically catalyzes the fourth step of the pathway by cofactor-independent dehalogenation of a vinyl carbon-halogen bond. Previous studies have reported an X-ray structure of CaaD under acidic conditions with a covalent modification of the catalytic betaPro1 residue. Here, the 1.7 A resolution X-ray structure of CaaD under neutral (pH 6.5) conditions is reported without the presence of the covalent adduct. In this new structure, a substrate-like acetate molecule is bound within the active site in a position analogous to the putative substrate-binding site. Additionally, a catalytically important water molecule was identified, consistent with previously proposed reaction schemes. Finally, flexibility of the catalytically relevant side chain alphaGlu52 is observed in the structure, supporting its role in the catalytic mechanism.
-===Structural and mechanistic analysis of trans-3-chloroacrylic acid dehalogenase activity===
+Structural and mechanistic analysis of trans-3-chloroacrylic acid dehalogenase activity.,Pegan SD, Serrano H, Whitman CP, Mesecar AD Acta Crystallogr D Biol Crystallogr. 2008 Dec;64(Pt 12):1277-82. Epub 2008, Nov 18. PMID:19018104<ref>PMID:19018104</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 3ej7" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_19018104}}, adds the Publication Abstract to the page
+*[[Dehalogenase 3D structures|Dehalogenase 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 19018104 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_19018104}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-EJ7 is a 12 chains structure of sequences from [http://en.wikipedia.org/wiki/Pseudomonas_pavonaceae Pseudomonas pavonaceae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EJ7 OCA].
-==Reference==
-Structural and mechanistic analysis of trans-3-chloroacrylic acid dehalogenase activity., Pegan SD, Serrano H, Whitman CP, Mesecar AD, Acta Crystallogr D Biol Crystallogr. 2008 Dec;64(Pt 12):1277-82. Epub 2008, Nov 18. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/19018104 19018104]
 [[Category: Pseudomonas pavonaceae]]
-[[Category: Mesecar, A D.]]
+[[Category: Mesecar AD]]
-[[Category: Pegan, S.]]
+[[Category: Pegan S]]
-[[Category: Serrano, H.]]
+[[Category: Serrano H]]
-[[Category: Whitman, C P.]]
+[[Category: Whitman CP]]
-[[Category: Caad]]
-[[Category: Dehalogenase]]
-[[Category: Hydrolase]]
-[[Category: Isomerase]]
-[[Category: Trans-3-chloroacrylic acid dehalogenase]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Dec 10 15:35:59 2008''