1s9r

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(New page: 200px<br /><applet load="1s9r" size="450" color="white" frame="true" align="right" spinBox="true" caption="1s9r, resolution 1.60&Aring;" /> '''CRYSTAL STRUCTURE OF...)
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[[Image:1s9r.gif|left|200px]]<br /><applet load="1s9r" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1s9r, resolution 1.60&Aring;" />
 
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'''CRYSTAL STRUCTURE OF ARGININE DEIMINASE COVALENTLY LINKED WITH A REACTION INTERMEDIATE'''<br />
 
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==Overview==
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==CRYSTAL STRUCTURE OF ARGININE DEIMINASE COVALENTLY LINKED WITH A REACTION INTERMEDIATE==
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Arginine deiminase (ADI), an enzyme that hydrolyzes arginine to generate, energy in many parasitic microorganisms, has potent anticancer activities, and can halt growth of solid tumors. We determined the crystal structure, of ADI from Mycoplasma arginini in two different forms (1.6 and 2.0 A, resolution) using multiple isomorphous replacement. ADI shares common, structural features with the arginine-catabolizing enzymes Arg:Gly, amidinotransferase and dimethylarginine dimethyl-aminohydrolase; ADI, contains an additional domain of five helices. The scissile C-N bonds of, the substrates and the catalytic triads (Cys398-His269-Glu213 of ADI) for, the three enzymes superimpose on each other. The ADI structure from form I, crystals corresponds to a tetrahedral intermediate with four heteroatoms, (1S, 2N, 1O) covalently bonded to the reaction-center carbon. The, structure from form II crystals represents an amidino-enzyme complex; the, reaction-center carbon is covalently bonded to Cys398 sulfur and two, nitrogens, and the reacting water molecule is only 2.54 A away.
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<StructureSection load='1s9r' size='340' side='right'caption='[[1s9r]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1s9r]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycoplasmopsis_arginini Mycoplasmopsis arginini]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S9R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1S9R 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]] 1.6&#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=ARG:ARGININE'>ARG</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</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=1s9r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s9r OCA], [https://pdbe.org/1s9r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1s9r RCSB], [https://www.ebi.ac.uk/pdbsum/1s9r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1s9r ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/ARCA_MYCAR ARCA_MYCAR]
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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/s9/1s9r_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=1s9r 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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Arginine deiminase (ADI), an enzyme that hydrolyzes arginine to generate energy in many parasitic microorganisms, has potent anticancer activities and can halt growth of solid tumors. We determined the crystal structure of ADI from Mycoplasma arginini in two different forms (1.6 and 2.0 A resolution) using multiple isomorphous replacement. ADI shares common structural features with the arginine-catabolizing enzymes Arg:Gly amidinotransferase and dimethylarginine dimethyl-aminohydrolase; ADI contains an additional domain of five helices. The scissile C-N bonds of the substrates and the catalytic triads (Cys398-His269-Glu213 of ADI) for the three enzymes superimpose on each other. The ADI structure from form I crystals corresponds to a tetrahedral intermediate with four heteroatoms (1S, 2N, 1O) covalently bonded to the reaction-center carbon. The structure from form II crystals represents an amidino-enzyme complex; the reaction-center carbon is covalently bonded to Cys398 sulfur and two nitrogens, and the reacting water molecule is only 2.54 A away.
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==About this Structure==
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Crystal structures of arginine deiminase with covalent reaction intermediates; implications for catalytic mechanism.,Das K, Butler GH, Kwiatkowski V, Clark AD Jr, Yadav P, Arnold E Structure. 2004 Apr;12(4):657-67. PMID:15062088<ref>PMID:15062088</ref>
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1S9R is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Mycoplasma_arginini Mycoplasma arginini] with ARG, TRS and UNX as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Arginine_deiminase Arginine deiminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.3.6 3.5.3.6] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1S9R 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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Crystal structures of arginine deiminase with covalent reaction intermediates; implications for catalytic mechanism., Das K, Butler GH, Kwiatkowski V, Clark AD Jr, Yadav P, Arnold E, Structure. 2004 Apr;12(4):657-67. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15062088 15062088]
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</div>
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[[Category: Arginine deiminase]]
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<div class="pdbe-citations 1s9r" style="background-color:#fffaf0;"></div>
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[[Category: Mycoplasma arginini]]
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== References ==
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[[Category: Single protein]]
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<references/>
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[[Category: Arnold, E.]]
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__TOC__
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[[Category: Buttler, G.H.]]
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</StructureSection>
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[[Category: Das, K.]]
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[[Category: Large Structures]]
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[[Category: Jr., A.D.Clark.]]
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[[Category: Mycoplasmopsis arginini]]
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[[Category: Kwiatkowski, V.]]
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[[Category: Arnold E]]
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[[Category: Yadav, P.]]
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[[Category: Buttler GH]]
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[[Category: ARG]]
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[[Category: Clark Jr AD]]
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[[Category: TRS]]
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[[Category: Das K]]
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[[Category: UNX]]
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[[Category: Kwiatkowski V]]
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[[Category: 5-fold pseudo-symmetric domain]]
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[[Category: Yadav P]]
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[[Category: 5-helix bundle domain]]
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[[Category: deiminase]]
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[[Category: hydrolase]]
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[[Category: raction intermediate]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 02:13:09 2007''
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Current revision

CRYSTAL STRUCTURE OF ARGININE DEIMINASE COVALENTLY LINKED WITH A REACTION INTERMEDIATE

PDB ID 1s9r

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