2qqd

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[[Image:2qqd.jpg|left|200px]]
 
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{{Structure
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==N47A mutant of Pyruvoyl-dependent Arginine Decarboxylase from Methanococcus jannashii==
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|PDB= 2qqd |SIZE=350|CAPTION= <scene name='initialview01'>2qqd</scene>, resolution 2.00&Aring;
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<StructureSection load='2qqd' size='340' side='right'caption='[[2qqd]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
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|SITE= <scene name='pdbsite=AC1:Ag2+Binding+Site+For+Residue+B+671'>AC1</scene>, <scene name='pdbsite=AC2:Ag2+Binding+Site+For+Residue+A+671'>AC2</scene>, <scene name='pdbsite=AC3:Pyr+Binding+Site+For+Residue+B+53'>AC3</scene>, <scene name='pdbsite=AC4:Pyr+Binding+Site+For+Residue+E+53'>AC4</scene>, <scene name='pdbsite=AC5:Mpd+Binding+Site+For+Residue+C+700'>AC5</scene> and <scene name='pdbsite=AC6:Mpd+Binding+Site+For+Residue+D+700'>AC6</scene>
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== Structural highlights ==
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|LIGAND= <scene name='pdbligand=AG2:AGMATINE'>AG2</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=PYR:PYRUVIC+ACID'>PYR</scene>
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<table><tr><td colspan='2'>[[2qqd]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QQD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2QQD FirstGlance]. <br>
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|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Arginine_decarboxylase Arginine decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.19 4.1.1.19] </span>
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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&#8491;</td></tr>
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|GENE= pdaD ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2190 Methanocaldococcus jannaschii])
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AG2:AGMATINE'>AG2</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=PYR:PYRUVIC+ACID'>PYR</scene></td></tr>
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|DOMAIN=<span class='plainlinks'>[http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=COG1945 COG1945], [http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PRK01285 PRK01285]</span>
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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=2qqd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qqd OCA], [https://pdbe.org/2qqd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2qqd RCSB], [https://www.ebi.ac.uk/pdbsum/2qqd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2qqd ProSAT]</span></td></tr>
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|RELATEDENTRY=[[2qqc|2QQC]]
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</table>
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2qqd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qqd OCA], [http://www.ebi.ac.uk/pdbsum/2qqd PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2qqd RCSB]</span>
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== Function ==
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}}
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[https://www.uniprot.org/uniprot/PDAD_METJA PDAD_METJA]
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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/qq/2qqd_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=2qqd 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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Pyruvoyl-dependent arginine decarboxylase (PvlArgDC) catalyzes the first step of the polyamine-biosynthetic pathway in plants and some archaebacteria. The pyruvoyl group of PvlArgDC is generated by an internal autoserinolysis reaction at an absolutely conserved serine residue in the proenzyme, resulting in two polypeptide chains. Based on the native structure of PvlArgDC from Methanococcus jannaschii, the conserved residues Asn47 and Glu109 were proposed to be involved in the decarboxylation and autoprocessing reactions. N47A and E109Q mutant proteins were prepared and the three-dimensional structure of each protein was determined at 2.0 A resolution. The N47A and E109Q mutant proteins showed reduced decarboxylation activity compared with the wild-type PvlArgDC. These residues may also be important for the autoprocessing reaction, which utilizes a mechanism similar to that of the decarboxylation reaction.
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'''N47A mutant of Pyruvoyl-dependent Arginine Decarboxylase from Methanococcus jannashii'''
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Structures of the N47A and E109Q mutant proteins of pyruvoyl-dependent arginine decarboxylase from Methanococcus jannaschii.,Soriano EV, McCloskey DE, Kinsland C, Pegg AE, Ealick SE Acta Crystallogr D Biol Crystallogr. 2008 Apr;64(Pt 4):377-82. Epub 2008, Mar 19. PMID:18391404<ref>PMID:18391404</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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==About this Structure==
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</div>
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2QQD is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QQD OCA].
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<div class="pdbe-citations 2qqd" style="background-color:#fffaf0;"></div>
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[[Category: Arginine decarboxylase]]
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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: Methanocaldococcus jannaschii]]
[[Category: Methanocaldococcus jannaschii]]
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[[Category: Protein complex]]
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[[Category: Ealick SE]]
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[[Category: Ealick, S E.]]
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[[Category: Soriano ES]]
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[[Category: Soriano, E S.]]
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[[Category: arginine decarboxylase]]
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[[Category: autoprocessing]]
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[[Category: decarboxylation]]
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[[Category: lyase]]
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[[Category: pyruvate]]
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[[Category: pyruvoyl]]
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[[Category: serinolysis]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 04:52:07 2008''
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Current revision

N47A mutant of Pyruvoyl-dependent Arginine Decarboxylase from Methanococcus jannashii

PDB ID 2qqd

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