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1plu

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(New page: 200px<br /><applet load="1plu" size="450" color="white" frame="true" align="right" spinBox="true" caption="1plu, resolution 2.2&Aring;" /> '''PECTATE LYASE C FROM ...)
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[[Image:1plu.gif|left|200px]]<br /><applet load="1plu" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1plu, resolution 2.2&Aring;" />
 
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'''PECTATE LYASE C FROM ERWINIA CHRYSANTHEMI WITH 1 LU+3 ION IN THE PUTATIVE CALCIUM BINDING SITE'''<br />
 
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==Overview==
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==PECTATE LYASE C FROM ERWINIA CHRYSANTHEMI WITH 1 LU+3 ION IN THE PUTATIVE CALCIUM BINDING SITE==
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The crystal structure of pectate lyase C (EC 4.2.2.2) from the, enterobacterium Erwinia chrysanthemi (PelC) has been refined by molecular, dynamics techniques to a resolution of 2.2 A to an R factor of 17.97%. The, final model consists of 352 of the total 353 amino acids and 114 solvent, molecules. The root-mean-square deviation from ideality is 0.009 A for, bond lengths and 1.768[deg] for bond angles. The structure of PelC bound, to the lanthanide ion lutetium, used as a calcium analog, has also been, refined. Lutetium inhibits the enzymatic activity of the protein, and in, the PelC-lutetium structure, the ion binds in the putative calcium-binding, site. Five side-chain atoms form ligands to the lutetium ion. An analysis, of the atomic-level model of the two protein structures reveals possible, implications for the enzymatic mechanism of the enzyme.
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<StructureSection load='1plu' size='340' side='right'caption='[[1plu]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
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== Structural highlights ==
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==About this Structure==
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<table><tr><td colspan='2'>[[1plu]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Dickeya_chrysanthemi Dickeya chrysanthemi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PLU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1PLU FirstGlance]. <br>
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1PLU is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Erwinia_chrysanthemi Erwinia chrysanthemi] with LU 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] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1PLU OCA].
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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]] 2.2&#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=LU:LUTETIUM+(III)+ION'>LU</scene></td></tr>
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==Reference==
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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=1plu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1plu OCA], [https://pdbe.org/1plu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1plu RCSB], [https://www.ebi.ac.uk/pdbsum/1plu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1plu ProSAT]</span></td></tr>
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The Refined Three-Dimensional Structure of Pectate Lyase C from Erwinia chrysanthemi at 2.2 Angstrom Resolution (Implications for an Enzymatic Mechanism)., Yoder MD, Jurnak F, Plant Physiol. 1995 Feb;107(2):349-364. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12228363 12228363]
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</table>
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[[Category: Erwinia chrysanthemi]]
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== Function ==
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[[Category: Pectate lyase]]
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[https://www.uniprot.org/uniprot/PLYC_DICCH PLYC_DICCH] Involved in maceration and soft-rotting of plant tissue.
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[[Category: Single protein]]
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== Evolutionary Conservation ==
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[[Category: Jurnak, F.A.]]
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[[Image:Consurf_key_small.gif|200px|right]]
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[[Category: Yoder, M.D.]]
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Check<jmol>
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[[Category: LU]]
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<jmolCheckbox>
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[[Category: parallel beta-helix]]
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/pl/1plu_consurf.spt"</scriptWhenChecked>
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[[Category: pectate cleavage]]
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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[[Category: pectinolytic activity]]
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<text>to colour the structure by Evolutionary Conservation</text>
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[[Category: trans-elimination]]
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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=1plu ConSurf].
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 23:54:50 2007''
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<div style="clear:both"></div>
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__TOC__
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</StructureSection>
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[[Category: Dickeya chrysanthemi]]
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[[Category: Large Structures]]
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[[Category: Jurnak FA]]
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[[Category: Yoder MD]]

Current revision

PECTATE LYASE C FROM ERWINIA CHRYSANTHEMI WITH 1 LU+3 ION IN THE PUTATIVE CALCIUM BINDING SITE

PDB ID 1plu

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