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1jh6

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(New page: 200px<br /><applet load="1jh6" size="450" color="white" frame="true" align="right" spinBox="true" caption="1jh6, resolution 1.80&Aring;" /> '''Semi-reduced Cyclic ...)
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[[Image:1jh6.gif|left|200px]]<br /><applet load="1jh6" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1jh6, resolution 1.80&Aring;" />
 
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'''Semi-reduced Cyclic Nucleotide Phosphodiesterase from Arabidopsis thaliana'''<br />
 
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==Overview==
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==Semi-reduced Cyclic Nucleotide Phosphodiesterase from Arabidopsis thaliana==
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The crystal structure of the semireduced form of cyclic nucleotide, phosphodiesterase (CPDase) from Arabidopsis thaliana has been solved by, molecular replacement and refined at the resolution of 1.8 A. We have, previously reported the crystal structure of the native form of this, enzyme, whose main target is ADP-ribose 1",2"-cyclic phosphate, a product, of the tRNA splicing reaction. CPDase possesses six cysteine residues, four of which are involved in forming two intra-molecular disulfide, bridges. One of these bridges, between Cys-104 and Cys-110, is opened in, the semireduced CPDase, whereas the other remains intact. This change of, the redox state leads to a conformational rearrangement in the loop, covering the active site of the protein. While the native structure shows, this partially disordered loop in a coil conformation, in the semireduced, enzyme the N-terminal lobe of this loop winds up and elongates the, preceding alpha-helix. The semireduced state of CPDase also enabled, co-crystallization with a putative inhibitor of its enzymatic activity, 2',3'-cyclic uridine vanadate. The ligand is bound within the active site, and the mode of binding is in agreement with the previously proposed, enzymatic mechanism. Selected biophysical properties of the oxidized and, the semireduced CPDase are also discussed.
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<StructureSection load='1jh6' size='340' side='right'caption='[[1jh6]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1jh6]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JH6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1JH6 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]] 1.8&#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=SO4:SULFATE+ION'>SO4</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=1jh6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jh6 OCA], [https://pdbe.org/1jh6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1jh6 RCSB], [https://www.ebi.ac.uk/pdbsum/1jh6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1jh6 ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/CPD_ARATH CPD_ARATH] Hydrolyzes ADP-ribose 1",2"-cyclic phosphate (Appr>1) that is produced during tRNA splicing into ADP-ribose 1"-phosphate (Appr-1"p). Acts also on nucleoside 2',3'-cyclic phosphates.
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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/jh/1jh6_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=1jh6 ConSurf].
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<div style="clear:both"></div>
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==About this Structure==
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==See Also==
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1JH6 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana] with SO4 as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1JH6 OCA].
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*[[Phosphodiesterase 3D structures|Phosphodiesterase 3D structures]]
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__TOC__
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==Reference==
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</StructureSection>
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Crystal structures of the semireduced and inhibitor-bound forms of cyclic nucleotide phosphodiesterase from Arabidopsis thaliana., Hofmann A, Grella M, Botos I, Filipowicz W, Wlodawer A, J Biol Chem. 2002 Jan 11;277(2):1419-25. Epub 2001 Nov 1. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11694509 11694509]
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[[Category: Arabidopsis thaliana]]
[[Category: Arabidopsis thaliana]]
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[[Category: Single protein]]
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[[Category: Large Structures]]
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[[Category: Botos, I.]]
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[[Category: Botos I]]
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[[Category: Filipowicz, W.]]
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[[Category: Filipowicz W]]
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[[Category: Grella, M.]]
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[[Category: Grella M]]
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[[Category: Hofmann, A.]]
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[[Category: Hofmann A]]
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[[Category: Wlodawer, A.]]
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[[Category: Wlodawer A]]
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[[Category: SO4]]
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[[Category: 2']]
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[[Category: 2''-cyclic phosphate]]
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[[Category: 3'-cyclic nucleotide phosphodiesterase]]
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[[Category: adp-ribose 1'']]
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[[Category: rna processing]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 18:15:09 2007''
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Current revision

Semi-reduced Cyclic Nucleotide Phosphodiesterase from Arabidopsis thaliana

PDB ID 1jh6

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