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1o88

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[[Image:1o88.gif|left|200px]]<br />
 
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<applet load="1o88" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1o88, resolution 2.20&Aring;" />
 
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'''PECTATE LYASE C FROM ERWINIA CHRYSANTHEMI AT PH 11.2 WITH 30MM CA2+'''<br />
 
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==Overview==
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==Pectate Lyase C From Erwinia Chrysanthemi at pH 11.2 with 30mM Ca2+==
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Ca(2+) is essential for in vitro activity of Erwinia chrysanthemi pectate, lyase C (PelC). Crystallographic analyses of 11 PelC-Ca(2+) complexes, formed at pH 4.5, 9.5, and 11.2 under varying Ca(2+) concentrations, have, been solved and refined at a resolution of 2.2 A. The Ca(2+) site, represents a new motif for Ca(2+), consisting primarily of beta-turns and, beta-strands. The principal differences between PelC and the PelC-Ca(2+), structures at all pH values are the side-chain conformations of Asp-129, and Glu-166 as well as the occupancies of four water molecules. According, to calculations of pK(a) values, the presence of Ca(2+) and associated, structural changes lower the pK(a) of Arg-218, the amino acid responsible, for proton abstraction during catalysis. The Ca(2+) affinity for PelC is, weak, as the K(d) was estimated to be 0.132 (+/-0.004) mm at pH 9.5, 1.09, (+/-0.29) mm at pH 11.2, and 5.84 (+/-0.41) mm at pH 4.5 from x-ray, diffraction studies and 0.133 (+/-0.045) mm at pH 9.5 from intrinsic, tryptophan fluorescence measurements. Given the pH dependence of Ca(2+), affinity, PelC activity at pH 4.5 has been reexamined. At saturating, Ca(2+) concentrations, PelC activity increases 10-fold at pH 4.5 but is, less than 1% of maximal activity at pH 9.5. Taken together, the studies, suggest that the primary Ca(2+) ion in PelC has multiple functions.
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<StructureSection load='1o88' size='340' side='right'caption='[[1o88]], [[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'>[[1o88]] 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=1O88 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1O88 FirstGlance]. <br>
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1O88 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 CA 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] Structure known Active Site: AC1. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1O88 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=CA:CALCIUM+ION'>CA</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=1o88 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o88 OCA], [https://pdbe.org/1o88 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1o88 RCSB], [https://www.ebi.ac.uk/pdbsum/1o88 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1o88 ProSAT]</span></td></tr>
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Characterization and implications of Ca2+ binding to pectate lyase C., Herron SR, Scavetta RD, Garrett M, Legner M, Jurnak F, J Biol Chem. 2003 Apr 4;278(14):12271-7. Epub 2003 Jan 22. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12540845 12540845]
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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: Herron, S.R.]]
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[[Image:Consurf_key_small.gif|200px|right]]
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[[Category: Jurnak, F.A.]]
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Check<jmol>
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[[Category: CA]]
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<jmolCheckbox>
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[[Category: calcium binding]]
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/o8/1o88_consurf.spt"</scriptWhenChecked>
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[[Category: lyase]]
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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[[Category: parallel beta-helix]]
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<text>to colour the structure by Evolutionary Conservation</text>
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[[Category: pectate lyase cleavage]]
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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=1o88 ConSurf].
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Mon Nov 5 14:00:07 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: Herron SR]]
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[[Category: Jurnak FA]]

Current revision

Pectate Lyase C From Erwinia Chrysanthemi at pH 11.2 with 30mM Ca2+

PDB ID 1o88

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