3mf8: Difference between revisions

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-[[Image:3mf8.png|left|200px]]
-<!--
+==Crystal Structure of Native cis-CaaD==
-The line below this paragraph, containing "STRUCTURE_3mf8", creates the "Structure Box" on the page.
+<StructureSection load='3mf8' size='340' side='right'caption='[[3mf8]], [[Resolution|resolution]] 2.01&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'>[[3mf8]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Coryneform_bacterium Coryneform bacterium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MF8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3MF8 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]] 2.01&#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_3mf8|  PDB=3mf8  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3mf8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3mf8 OCA], [https://pdbe.org/3mf8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3mf8 RCSB], [https://www.ebi.ac.uk/pdbsum/3mf8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3mf8 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q6VPE5_9CORY Q6VPE5_9CORY]
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The isomeric mixture of cis- and trans-1,3-dichloropropene constitutes the active component of a widely used nematocide known as Telone II(R). The mixture is processed by various soil bacteria to acetaldehyde through the 1,3-dichloropropene catabolic pathway. The pathway relies on an isomer-specific hydrolytic dehalogenation reaction catalyzed by cis- or trans-3-chloroacrylic acid dehalogenase, known respectively as cis-CaaD and CaaD. Previous sequence analysis and crystallographic studies of the native and covalently modified enzymes identified Pro-1, His-28, Arg-70, Arg-73, Tyr-103, and Glu-114 as key binding and catalytic residues in cis-CaaD. Mutagenesis of these residues confirmed their importance to the dehalogenation reaction. Crystal structures of the native enzyme (2.01A resolution) and the enzyme covalently modified at the Pro-1 nitrogen by 2-hydroxypropanoate (1.65A resolution) are reported here. Both structures are at a resolution higher than previously reported (2.75A and 2.1A resolution, respectively). The conformation of the covalent adduct is strikingly different from that previously reported due to its interaction with a 7-residue loop (Thr-32 to Leu-38). The participation of another active site residue, Arg-117, in catalysis and inactivation was also examined. The implications of the combined findings for the mechanisms of catalysis and inactivation are discussed.
-===Crystal Structure of Native cis-CaaD===
+Crystal structures of native and inactivated cis-3-chloroacrylic acid dehalogenase: Implications for the catalytic and inactivation mechanisms.,Guo Y, Serrano H, Johnson WH Jr, Ernst S, Hackert ML, Whitman CP Bioorg Chem. 2010 Oct 20. PMID:21074239<ref>PMID:21074239</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 3mf8" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_21074239}}, adds the Publication Abstract to the page
+*[[Dehalogenase 3D structures|Dehalogenase 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 21074239 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_21074239}}
+__TOC__
+</StructureSection>
-==About this Structure==
-[[3mf8]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Coryneform_bacterium Coryneform bacterium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MF8 OCA].
-==Reference==
-<ref group="xtra">PMID:021074239</ref><references group="xtra"/>
 [[Category: Coryneform bacterium]]
-[[Category: Ernst, S R.]]
+[[Category: Large Structures]]
-[[Category: Guo, Y.]]
+[[Category: Ernst SR]]
-[[Category: Hackert, M L.]]
+[[Category: Guo Y]]
-[[Category: Johnson, W H.]]
+[[Category: Hackert ML]]
-[[Category: Serrano, H.]]
+[[Category: Johnson Jr WH]]
-[[Category: Whitman, C P.]]
+[[Category: Serrano H]]
-[[Category: Beta-alpha-beta motif]]
+[[Category: Whitman CP]]
-[[Category: Cis-3-chloroacrylic acid dehaloganase]]
-[[Category: Hydrolase]]
-[[Category: Isomerase]]
-[[Category: Tautomerase]]