2v8j

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[[Image:2v8j.jpg|left|200px]]<br /><applet load="2v8j" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="2v8j, resolution 2.01&Aring;" />
 
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'''STRUCTURE OF A FAMILY 2 PECTATE LYASE IN COMPLEX WITH A TRANSITION METAL'''<br />
 
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==Overview==
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==Structure of a Family 2 Pectate Lyase in Complex with a Transition Metal==
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The family 2 pectate lyase from Yersinia enterocolitica (YePL2A), solved, to 1.5A(,) reveals it to be the first prokaryotic protein reported to, display the rare (alpha/alpha)(7) barrel fold. In addition to its apo, form, we have also determined the structure of a metal-bound form of, YePL2A (to 2.0A()) and a trigalacturonic acid-bound substrate complex (to, 2.1A().) Although its fold is rare, the catalytic center of YePL2A can be, superimposed with structurally unrelated families, underlining the, conserved catalytic amino acid architecture of the beta-elimination, mechanism. In addition to its overall structure, YePL2A also has two other, unique features: 1) it utilizes a metal atom other than calcium for, catalysis, and 2) its Bronstead base is in an alternate conformation and, directly interacts with the uronate group of the substrate.
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<StructureSection load='2v8j' size='340' side='right'caption='[[2v8j]], [[Resolution|resolution]] 2.01&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[2v8j]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Yersinia_enterocolitica Yersinia enterocolitica]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2V8J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2V8J FirstGlance]. <br>
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</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>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2v8j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2v8j OCA], [https://pdbe.org/2v8j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2v8j RCSB], [https://www.ebi.ac.uk/pdbsum/2v8j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2v8j ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/A1JSS8_YERE8 A1JSS8_YERE8]
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/v8/2v8j_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=2v8j ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The family 2 pectate lyase from Yersinia enterocolitica (YePL2A), solved to 1.5A, reveals it to be the first prokaryotic protein reported to display the rare (alpha/alpha)(7) barrel fold. In addition to its apo form, we have also determined the structure of a metal-bound form of YePL2A (to 2.0A) and a trigalacturonic acid-bound substrate complex (to 2.1A) Although its fold is rare, the catalytic center of YePL2A can be superimposed with structurally unrelated families, underlining the conserved catalytic amino acid architecture of the beta-elimination mechanism. In addition to its overall structure, YePL2A also has two other unique features: 1) it utilizes a metal atom other than calcium for catalysis, and 2) its Bronstead base is in an alternate conformation and directly interacts with the uronate group of the substrate.
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==About this Structure==
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A family 2 pectate lyase displays a rare fold and transition metal-assisted beta-elimination.,Abbott DW, Boraston AB J Biol Chem. 2007 Nov 30;282(48):35328-36. Epub 2007 Sep 19. PMID:17881361<ref>PMID:17881361</ref>
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2V8J is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Yersinia_enterocolitica Yersinia enterocolitica] with <scene name='pdbligand=MN:'>MN</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Pectate_lyase Pectate lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.2.2 4.2.2.2] Known structural/functional Site: <scene name='pdbsite=AC1:Mn+Binding+Site+For+Chain+A'>AC1</scene>. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2V8J OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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A Family 2 Pectate Lyase Displays a Rare Fold and Transition Metal-assisted -Elimination., Abbott DW, Boraston AB, J Biol Chem. 2007 Nov 30;282(48):35328-36. Epub 2007 Sep 19. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=17881361 17881361]
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</div>
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[[Category: Pectate lyase]]
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<div class="pdbe-citations 2v8j" style="background-color:#fffaf0;"></div>
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[[Category: Single protein]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Large Structures]]
[[Category: Yersinia enterocolitica]]
[[Category: Yersinia enterocolitica]]
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[[Category: Abbott, D.W.]]
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[[Category: Abbott DW]]
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[[Category: Boraston, A.B.]]
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[[Category: Boraston AB]]
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[[Category: MN]]
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[[Category: beta-elimination]]
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[[Category: lyase]]
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[[Category: pectate lyase]]
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[[Category: pectin degradation]]
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[[Category: periplasm]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Feb 3 10:50:28 2008''
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Current revision

Structure of a Family 2 Pectate Lyase in Complex with a Transition Metal

PDB ID 2v8j

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